-- dump date 20140619_235140 -- class Genbank::misc_feature -- table misc_feature_note -- id note 879243000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 879243000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 879243000003 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 879243000004 Walker A motif; other site 879243000005 ATP binding site [chemical binding]; other site 879243000006 Walker B motif; other site 879243000007 arginine finger; other site 879243000008 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 879243000009 DnaA box-binding interface [nucleotide binding]; other site 879243000010 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 879243000011 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 879243000012 putative trimer interface [polypeptide binding]; other site 879243000013 putative active site [active] 879243000014 putative substrate binding site [chemical binding]; other site 879243000015 putative CoA binding site [chemical binding]; other site 879243000016 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 879243000017 active site 2 [active] 879243000018 active site 1 [active] 879243000019 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 879243000020 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243000021 active site 879243000022 HIGH motif; other site 879243000023 nucleotide binding site [chemical binding]; other site 879243000024 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 879243000025 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 879243000026 active site 879243000027 KMSKS motif; other site 879243000028 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 879243000029 tRNA binding surface [nucleotide binding]; other site 879243000030 anticodon binding site; other site 879243000031 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 879243000032 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243000033 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243000034 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 879243000035 A new structural DNA glycosylase; Region: AlkD_like; cd06561 879243000036 active site 879243000037 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 879243000038 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 879243000039 active site 879243000040 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 879243000041 active site 879243000042 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 879243000043 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 879243000044 N-terminal plug; other site 879243000045 ligand-binding site [chemical binding]; other site 879243000046 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 879243000047 active site 879243000048 SAM binding site [chemical binding]; other site 879243000049 homodimer interface [polypeptide binding]; other site 879243000050 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 879243000051 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 879243000052 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 879243000053 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 879243000054 active site 879243000055 SAM binding site [chemical binding]; other site 879243000056 homodimer interface [polypeptide binding]; other site 879243000057 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 879243000058 active site 879243000059 putative homodimer interface [polypeptide binding]; other site 879243000060 SAM binding site [chemical binding]; other site 879243000061 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 879243000062 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 879243000063 S-adenosylmethionine binding site [chemical binding]; other site 879243000064 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 879243000065 active site 879243000066 SAM binding site [chemical binding]; other site 879243000067 homodimer interface [polypeptide binding]; other site 879243000068 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 879243000069 Precorrin-8X methylmutase; Region: CbiC; pfam02570 879243000070 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 879243000071 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 879243000072 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 879243000073 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243000074 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 879243000075 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 879243000076 active site 879243000077 C-terminal domain interface [polypeptide binding]; other site 879243000078 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 879243000079 active site 879243000080 N-terminal domain interface [polypeptide binding]; other site 879243000081 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 879243000082 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 879243000083 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 879243000084 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 879243000085 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 879243000086 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 879243000087 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879243000088 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 879243000089 Walker A/P-loop; other site 879243000090 ATP binding site [chemical binding]; other site 879243000091 Q-loop/lid; other site 879243000092 ABC transporter signature motif; other site 879243000093 Walker B; other site 879243000094 D-loop; other site 879243000095 H-loop/switch region; other site 879243000096 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 879243000097 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 879243000098 ABC-ATPase subunit interface; other site 879243000099 dimer interface [polypeptide binding]; other site 879243000100 putative PBP binding regions; other site 879243000101 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 879243000102 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 879243000103 putative ligand binding site [chemical binding]; other site 879243000104 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 879243000105 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243000106 NAD synthetase; Reviewed; Region: nadE; PRK02628 879243000107 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 879243000108 multimer interface [polypeptide binding]; other site 879243000109 active site 879243000110 catalytic triad [active] 879243000111 protein interface 1 [polypeptide binding]; other site 879243000112 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 879243000113 homodimer interface [polypeptide binding]; other site 879243000114 NAD binding pocket [chemical binding]; other site 879243000115 ATP binding pocket [chemical binding]; other site 879243000116 Mg binding site [ion binding]; other site 879243000117 active-site loop [active] 879243000118 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 879243000119 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 879243000120 substrate binding pocket [chemical binding]; other site 879243000121 chain length determination region; other site 879243000122 substrate-Mg2+ binding site; other site 879243000123 catalytic residues [active] 879243000124 aspartate-rich region 1; other site 879243000125 active site lid residues [active] 879243000126 aspartate-rich region 2; other site 879243000127 Colicin V production protein; Region: Colicin_V; pfam02674 879243000128 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 879243000129 putative ABC transporter; Region: ycf24; CHL00085 879243000130 FeS assembly ATPase SufC; Region: sufC; TIGR01978 879243000131 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 879243000132 Walker A/P-loop; other site 879243000133 ATP binding site [chemical binding]; other site 879243000134 Q-loop/lid; other site 879243000135 ABC transporter signature motif; other site 879243000136 Walker B; other site 879243000137 D-loop; other site 879243000138 H-loop/switch region; other site 879243000139 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 879243000140 FeS assembly protein SufD; Region: sufD; TIGR01981 879243000141 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 879243000142 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 879243000143 EamA-like transporter family; Region: EamA; pfam00892 879243000144 EamA-like transporter family; Region: EamA; pfam00892 879243000145 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 879243000146 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243000147 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243000148 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243000149 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243000150 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 879243000151 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 879243000152 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 879243000153 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 879243000154 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 879243000155 putative active site; other site 879243000156 catalytic triad [active] 879243000157 putative dimer interface [polypeptide binding]; other site 879243000158 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 879243000159 homopentamer interface [polypeptide binding]; other site 879243000160 active site 879243000161 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 879243000162 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 879243000163 G1 box; other site 879243000164 putative GEF interaction site [polypeptide binding]; other site 879243000165 GTP/Mg2+ binding site [chemical binding]; other site 879243000166 Switch I region; other site 879243000167 G2 box; other site 879243000168 G3 box; other site 879243000169 Switch II region; other site 879243000170 G4 box; other site 879243000171 G5 box; other site 879243000172 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 879243000173 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 879243000174 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 879243000175 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 879243000176 active site 879243000177 Int/Topo IB signature motif; other site 879243000178 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 879243000179 Dehydroquinase class II; Region: DHquinase_II; pfam01220 879243000180 trimer interface [polypeptide binding]; other site 879243000181 active site 879243000182 dimer interface [polypeptide binding]; other site 879243000183 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 879243000184 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 879243000185 S-adenosylmethionine binding site [chemical binding]; other site 879243000186 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 879243000187 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 879243000188 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 879243000189 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 879243000190 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 879243000191 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 879243000192 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 879243000193 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 879243000194 FeS/SAM binding site; other site 879243000195 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 879243000196 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 879243000197 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 879243000198 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 879243000199 Sodium Bile acid symporter family; Region: SBF; cl17470 879243000200 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 879243000201 TPR motif; other site 879243000202 binding surface 879243000203 TPR repeat; Region: TPR_11; pfam13414 879243000204 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 879243000205 binding surface 879243000206 TPR motif; other site 879243000207 TPR repeat; Region: TPR_11; pfam13414 879243000208 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 879243000209 TPR motif; other site 879243000210 TPR repeat; Region: TPR_11; pfam13414 879243000211 binding surface 879243000212 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 879243000213 TPR motif; other site 879243000214 binding surface 879243000215 Tetratricopeptide repeat; Region: TPR_9; pfam13371 879243000216 TPR repeat; Region: TPR_11; pfam13414 879243000217 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 879243000218 binding surface 879243000219 TPR motif; other site 879243000220 TPR repeat; Region: TPR_11; pfam13414 879243000221 excinuclease ABC subunit B; Provisional; Region: PRK05298 879243000222 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 879243000223 ATP binding site [chemical binding]; other site 879243000224 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 879243000225 nucleotide binding region [chemical binding]; other site 879243000226 ATP-binding site [chemical binding]; other site 879243000227 Ultra-violet resistance protein B; Region: UvrB; pfam12344 879243000228 UvrB/uvrC motif; Region: UVR; pfam02151 879243000229 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 879243000230 active site 879243000231 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 879243000232 Cation efflux family; Region: Cation_efflux; pfam01545 879243000233 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 879243000234 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 879243000235 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 879243000236 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 879243000237 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 879243000238 substrate binding site; other site 879243000239 tetramer interface; other site 879243000240 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 879243000241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243000242 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 879243000243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243000244 ligand binding site [chemical binding]; other site 879243000245 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 879243000246 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 879243000247 phosphate binding site [ion binding]; other site 879243000248 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 879243000249 putative catalytic site [active] 879243000250 putative metal binding site [ion binding]; other site 879243000251 putative phosphate binding site [ion binding]; other site 879243000252 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 879243000253 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879243000254 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 879243000255 DNA binding residues [nucleotide binding] 879243000256 Transposase [DNA replication, recombination, and repair]; Region: COG5421 879243000257 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 879243000258 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 879243000259 ring oligomerisation interface [polypeptide binding]; other site 879243000260 ATP/Mg binding site [chemical binding]; other site 879243000261 stacking interactions; other site 879243000262 hinge regions; other site 879243000263 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 879243000264 oligomerisation interface [polypeptide binding]; other site 879243000265 mobile loop; other site 879243000266 roof hairpin; other site 879243000267 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 879243000268 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 879243000269 phosphopeptide binding site; other site 879243000270 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 879243000271 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 879243000272 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 879243000273 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 879243000274 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 879243000275 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 879243000276 Arginine repressor [Transcription]; Region: ArgR; COG1438 879243000277 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 879243000278 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 879243000279 putative catalytic site [active] 879243000280 putative metal binding site [ion binding]; other site 879243000281 putative phosphate binding site [ion binding]; other site 879243000282 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 879243000283 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 879243000284 active site 879243000285 Zn binding site [ion binding]; other site 879243000286 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 879243000287 active site 879243000288 S-ribosylhomocysteinase; Provisional; Region: PRK02260 879243000289 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 879243000290 active site pocket [active] 879243000291 oxyanion hole [active] 879243000292 catalytic triad [active] 879243000293 active site nucleophile [active] 879243000294 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 879243000295 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; cl00148 879243000296 CAP-like domain; other site 879243000297 active site 879243000298 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 879243000299 active site triad [active] 879243000300 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243000301 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 879243000302 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 879243000303 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 879243000304 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 879243000305 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 879243000306 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243000307 active site 879243000308 HIGH motif; other site 879243000309 nucleotide binding site [chemical binding]; other site 879243000310 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243000311 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243000312 active site 879243000313 KMSKS motif; other site 879243000314 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 879243000315 tRNA binding surface [nucleotide binding]; other site 879243000316 anticodon binding site; other site 879243000317 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 879243000318 lipoprotein signal peptidase; Provisional; Region: PRK14788 879243000319 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 879243000320 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 879243000321 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 879243000322 motif 1; other site 879243000323 active site 879243000324 motif 2; other site 879243000325 motif 3; other site 879243000326 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 879243000327 DHHA1 domain; Region: DHHA1; pfam02272 879243000328 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 879243000329 active site 879243000330 dimer interface [polypeptide binding]; other site 879243000331 metal binding site [ion binding]; metal-binding site 879243000332 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 879243000333 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 879243000334 DNA repair protein RadA; Provisional; Region: PRK11823 879243000335 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 879243000336 Walker A motif/ATP binding site; other site 879243000337 ATP binding site [chemical binding]; other site 879243000338 Walker B motif; other site 879243000339 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 879243000340 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 879243000341 Amidinotransferase; Region: Amidinotransf; cl12043 879243000342 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 879243000343 S-adenosylmethionine binding site [chemical binding]; other site 879243000344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879243000345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879243000346 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243000347 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243000348 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 879243000349 N-terminal plug; other site 879243000350 ligand-binding site [chemical binding]; other site 879243000351 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 879243000352 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 879243000353 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 879243000354 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 879243000355 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 879243000356 PhoU domain; Region: PhoU; pfam01895 879243000357 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 879243000358 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 879243000359 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 879243000360 active site 879243000361 translation initiation factor Sui1; Validated; Region: PRK06824 879243000362 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 879243000363 putative rRNA binding site [nucleotide binding]; other site 879243000364 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 879243000365 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 879243000366 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 879243000367 putative acyl-acceptor binding pocket; other site 879243000368 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 879243000369 hypothetical protein; Reviewed; Region: PRK12497 879243000370 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 879243000371 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243000372 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879243000373 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243000374 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243000375 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879243000376 PSP1 C-terminal conserved region; Region: PSP1; cl00770 879243000377 GldH lipoprotein; Region: GldH_lipo; pfam14109 879243000378 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 879243000379 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243000380 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 879243000381 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 879243000382 Ligand binding site; other site 879243000383 Putative Catalytic site; other site 879243000384 DXD motif; other site 879243000385 dihydroorotase; Reviewed; Region: PRK09236 879243000386 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 879243000387 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 879243000388 active site 879243000389 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 879243000390 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 879243000391 dimer interface [polypeptide binding]; other site 879243000392 substrate binding site [chemical binding]; other site 879243000393 metal binding site [ion binding]; metal-binding site 879243000394 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 879243000395 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 879243000396 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 879243000397 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 879243000398 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 879243000399 carboxyltransferase (CT) interaction site; other site 879243000400 biotinylation site [posttranslational modification]; other site 879243000401 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 879243000402 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243000403 catalytic residues [active] 879243000404 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 879243000405 dimer interface [polypeptide binding]; other site 879243000406 catalytic triad [active] 879243000407 peroxidatic and resolving cysteines [active] 879243000408 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 879243000409 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 879243000410 Leucine-rich repeats; other site 879243000411 Substrate binding site [chemical binding]; other site 879243000412 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243000413 Leucine rich repeat; Region: LRR_8; pfam13855 879243000414 MoxR-like ATPases [General function prediction only]; Region: COG0714 879243000415 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 879243000416 Walker A motif; other site 879243000417 ATP binding site [chemical binding]; other site 879243000418 Walker B motif; other site 879243000419 arginine finger; other site 879243000420 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 879243000421 Protein of unknown function DUF58; Region: DUF58; pfam01882 879243000422 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 879243000423 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 879243000424 metal ion-dependent adhesion site (MIDAS); other site 879243000425 von Willebrand factor type A domain; Region: VWA_2; pfam13519 879243000426 metal ion-dependent adhesion site (MIDAS); other site 879243000427 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 879243000428 binding surface 879243000429 TPR motif; other site 879243000430 TPR repeat; Region: TPR_11; pfam13414 879243000431 Oxygen tolerance; Region: BatD; pfam13584 879243000432 Transposase; Region: DEDD_Tnp_IS110; pfam01548 879243000433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 879243000434 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 879243000435 prolyl-tRNA synthetase; Provisional; Region: PRK08661 879243000436 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_arch_euk; cd00778 879243000437 dimer interface [polypeptide binding]; other site 879243000438 motif 1; other site 879243000439 active site 879243000440 motif 2; other site 879243000441 motif 3; other site 879243000442 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 879243000443 anticodon binding site; other site 879243000444 zinc-binding site [ion binding]; other site 879243000445 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 879243000446 Ligand Binding Site [chemical binding]; other site 879243000447 PIF1-like helicase; Region: PIF1; pfam05970 879243000448 AAA domain; Region: AAA_30; pfam13604 879243000449 endonuclease IV; Provisional; Region: PRK01060 879243000450 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 879243000451 AP (apurinic/apyrimidinic) site pocket; other site 879243000452 DNA interaction; other site 879243000453 Metal-binding active site; metal-binding site 879243000454 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 879243000455 Bacterial Ig-like domain; Region: Big_5; pfam13205 879243000456 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 879243000457 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 879243000458 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 879243000459 M28 Zn-Peptidases; Region: M28_like_6; cd08656 879243000460 Peptidase family M28; Region: Peptidase_M28; pfam04389 879243000461 metal binding site [ion binding]; metal-binding site 879243000462 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 879243000463 Peptidase family M48; Region: Peptidase_M48; pfam01435 879243000464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 879243000465 ligand binding site [chemical binding]; other site 879243000466 TPR repeat; Region: TPR_11; pfam13414 879243000467 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 879243000468 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 879243000469 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 879243000470 catalytic loop [active] 879243000471 iron binding site [ion binding]; other site 879243000472 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 879243000473 FAD binding pocket [chemical binding]; other site 879243000474 FAD binding motif [chemical binding]; other site 879243000475 phosphate binding motif [ion binding]; other site 879243000476 beta-alpha-beta structure motif; other site 879243000477 NAD binding pocket [chemical binding]; other site 879243000478 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 879243000479 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 879243000480 FMN-binding domain; Region: FMN_bind; cl01081 879243000481 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 879243000482 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 879243000483 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 879243000484 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 879243000485 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 879243000486 starch binding outer membrane protein SusD; Region: SusD; cl17845 879243000487 SusD family; Region: SusD; pfam07980 879243000488 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 879243000489 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243000490 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 879243000491 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243000492 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243000493 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243000494 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 879243000495 MraW methylase family; Region: Methyltransf_5; cl17771 879243000496 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 879243000497 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 879243000498 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879243000499 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 879243000500 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879243000501 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 879243000502 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879243000503 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879243000504 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 879243000505 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 879243000506 Mg++ binding site [ion binding]; other site 879243000507 putative catalytic motif [active] 879243000508 putative substrate binding site [chemical binding]; other site 879243000509 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 879243000510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879243000511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879243000512 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 879243000513 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 879243000514 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 879243000515 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 879243000516 shikimate binding site; other site 879243000517 NAD(P) binding site [chemical binding]; other site 879243000518 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 879243000519 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 879243000520 S-adenosylmethionine binding site [chemical binding]; other site 879243000521 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 879243000522 active site 879243000523 ATP binding site [chemical binding]; other site 879243000524 substrate binding site [chemical binding]; other site 879243000525 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 879243000526 PhoH-like protein; Region: PhoH; pfam02562 879243000527 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 879243000528 nucleotide binding site/active site [active] 879243000529 HIT family signature motif; other site 879243000530 catalytic residue [active] 879243000531 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 879243000532 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 879243000533 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 879243000534 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 879243000535 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 879243000536 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 879243000537 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 879243000538 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 879243000539 tetramerization interface [polypeptide binding]; other site 879243000540 active site 879243000541 signal recognition particle protein; Provisional; Region: PRK10867 879243000542 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 879243000543 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 879243000544 P loop; other site 879243000545 GTP binding site [chemical binding]; other site 879243000546 Signal peptide binding domain; Region: SRP_SPB; pfam02978 879243000547 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; cl00298 879243000548 active site 879243000549 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 879243000550 Peptidase family M23; Region: Peptidase_M23; pfam01551 879243000551 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879243000552 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 879243000553 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 879243000554 catalytic core [active] 879243000555 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 879243000556 homotrimer interface [polypeptide binding]; other site 879243000557 Walker A motif; other site 879243000558 GTP binding site [chemical binding]; other site 879243000559 Walker B motif; other site 879243000560 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 879243000561 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 879243000562 putative dimer interface [polypeptide binding]; other site 879243000563 active site pocket [active] 879243000564 putative cataytic base [active] 879243000565 cobalamin synthase; Reviewed; Region: cobS; PRK00235 879243000566 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 879243000567 catalytic core [active] 879243000568 cobyric acid synthase; Provisional; Region: PRK00784 879243000569 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 879243000570 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 879243000571 catalytic triad [active] 879243000572 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 879243000573 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 879243000574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243000575 homodimer interface [polypeptide binding]; other site 879243000576 catalytic residue [active] 879243000577 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 879243000578 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 879243000579 DHH family; Region: DHH; pfam01368 879243000580 DHHA1 domain; Region: DHHA1; pfam02272 879243000581 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 879243000582 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 879243000583 active site 879243000584 substrate binding site [chemical binding]; other site 879243000585 metal binding site [ion binding]; metal-binding site 879243000586 TRAM domain; Region: TRAM; pfam01938 879243000587 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 879243000588 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 879243000589 S-adenosylmethionine binding site [chemical binding]; other site 879243000590 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 879243000591 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 879243000592 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 879243000593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879243000594 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 879243000595 DNA binding residues [nucleotide binding] 879243000596 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879243000597 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 879243000598 catalytic residues [active] 879243000599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 879243000600 Transposase; Region: DDE_Tnp_ISL3; pfam01610 879243000601 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 879243000602 putative substrate translocation pore; other site 879243000603 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 879243000604 biotin synthase; Region: bioB; TIGR00433 879243000605 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 879243000606 FeS/SAM binding site; other site 879243000607 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 879243000608 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 879243000609 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 879243000610 inhibitor-cofactor binding pocket; inhibition site 879243000611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243000612 catalytic residue [active] 879243000613 protoporphyrinogen oxidase; Region: PLN02576 879243000614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 879243000615 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 879243000616 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 879243000617 Tetramer interface [polypeptide binding]; other site 879243000618 active site 879243000619 FMN-binding site [chemical binding]; other site 879243000620 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 879243000621 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 879243000622 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 879243000623 Peptidase family U32; Region: Peptidase_U32; pfam01136 879243000624 Collagenase; Region: DUF3656; pfam12392 879243000625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879243000626 active site 879243000627 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243000628 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 879243000629 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 879243000630 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 879243000631 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 879243000632 glycyl-tRNA synthetase; Provisional; Region: PRK04173 879243000633 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 879243000634 motif 1; other site 879243000635 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 879243000636 active site 879243000637 motif 2; other site 879243000638 motif 3; other site 879243000639 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 879243000640 anticodon binding site; other site 879243000641 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 879243000642 RecX family; Region: RecX; pfam02631 879243000643 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 879243000644 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 879243000645 S-adenosylmethionine binding site [chemical binding]; other site 879243000646 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 879243000647 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 879243000648 catalytic motif [active] 879243000649 Zn binding site [ion binding]; other site 879243000650 RibD C-terminal domain; Region: RibD_C; cl17279 879243000651 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 879243000652 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 879243000653 metal-binding site [ion binding] 879243000654 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879243000655 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 879243000656 motif II; other site 879243000657 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 879243000658 active site 879243000659 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 879243000660 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 879243000661 active site 879243000662 catalytic site [active] 879243000663 substrate binding site [chemical binding]; other site 879243000664 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 879243000665 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 879243000666 active site 879243000667 metal binding site [ion binding]; metal-binding site 879243000668 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 879243000669 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 879243000670 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879243000671 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 879243000672 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 879243000673 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 879243000674 inhibitor-cofactor binding pocket; inhibition site 879243000675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243000676 catalytic residue [active] 879243000677 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 879243000678 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 879243000679 active site 879243000680 HIGH motif; other site 879243000681 KMSKS motif; other site 879243000682 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 879243000683 tRNA binding surface [nucleotide binding]; other site 879243000684 anticodon binding site; other site 879243000685 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 879243000686 putative tRNA-binding site [nucleotide binding]; other site 879243000687 dimer interface [polypeptide binding]; other site 879243000688 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243000689 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 879243000690 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243000691 catalytic residues [active] 879243000692 Outer membrane protein Omp28; Region: Omp28; pfam11551 879243000693 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 879243000694 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243000695 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243000696 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 879243000697 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 879243000698 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 879243000699 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 879243000700 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 879243000701 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 879243000702 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 879243000703 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 879243000704 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 879243000705 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 879243000706 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 879243000707 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 879243000708 Ligand Binding Site [chemical binding]; other site 879243000709 TilS substrate C-terminal domain; Region: TilS_C; smart00977 879243000710 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 879243000711 Putative zinc ribbon domain; Region: DUF164; pfam02591 879243000712 Uncharacterized conserved protein [Function unknown]; Region: COG0327 879243000713 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 879243000714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 879243000715 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 879243000716 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 879243000717 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 879243000718 dimer interface [polypeptide binding]; other site 879243000719 anticodon binding site; other site 879243000720 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 879243000721 homodimer interface [polypeptide binding]; other site 879243000722 motif 1; other site 879243000723 active site 879243000724 motif 2; other site 879243000725 GAD domain; Region: GAD; pfam02938 879243000726 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 879243000727 motif 3; other site 879243000728 zinc transporter ZupT; Provisional; Region: PRK04201 879243000729 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 879243000730 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 879243000731 Cl binding site [ion binding]; other site 879243000732 oligomer interface [polypeptide binding]; other site 879243000733 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 879243000734 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 879243000735 TPP-binding site [chemical binding]; other site 879243000736 dimer interface [polypeptide binding]; other site 879243000737 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 879243000738 PYR/PP interface [polypeptide binding]; other site 879243000739 dimer interface [polypeptide binding]; other site 879243000740 TPP binding site [chemical binding]; other site 879243000741 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879243000742 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 879243000743 TPR motif; other site 879243000744 binding surface 879243000745 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 879243000746 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 879243000747 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 879243000748 active site 879243000749 RNA/DNA hybrid binding site [nucleotide binding]; other site 879243000750 elongation factor Ts; Provisional; Region: tsf; PRK09377 879243000751 UBA/TS-N domain; Region: UBA; pfam00627 879243000752 Elongation factor TS; Region: EF_TS; pfam00889 879243000753 Elongation factor TS; Region: EF_TS; pfam00889 879243000754 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 879243000755 rRNA interaction site [nucleotide binding]; other site 879243000756 S8 interaction site; other site 879243000757 putative laminin-1 binding site; other site 879243000758 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 879243000759 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 879243000760 23S rRNA interface [nucleotide binding]; other site 879243000761 L3 interface [polypeptide binding]; other site 879243000762 pyruvate phosphate dikinase; Provisional; Region: PRK09279 879243000763 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 879243000764 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 879243000765 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 879243000766 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 879243000767 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243000768 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243000769 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 879243000770 L-aspartate oxidase; Provisional; Region: PRK06175 879243000771 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 879243000772 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 879243000773 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 879243000774 dimerization interface [polypeptide binding]; other site 879243000775 active site 879243000776 Quinolinate synthetase A protein; Region: NadA; pfam02445 879243000777 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 879243000778 SmpB-tmRNA interface; other site 879243000779 seryl-tRNA synthetase; Provisional; Region: PRK05431 879243000780 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 879243000781 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 879243000782 dimer interface [polypeptide binding]; other site 879243000783 active site 879243000784 motif 1; other site 879243000785 motif 2; other site 879243000786 motif 3; other site 879243000787 Preprotein translocase SecG subunit; Region: SecG; pfam03840 879243000788 Lipopolysaccharide-assembly; Region: LptE; pfam04390 879243000789 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 879243000790 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 879243000791 Walker A motif; other site 879243000792 ATP binding site [chemical binding]; other site 879243000793 Walker B motif; other site 879243000794 arginine finger; other site 879243000795 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 879243000796 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 879243000797 Shikimate kinase; Region: SKI; pfam01202 879243000798 ADP binding site [chemical binding]; other site 879243000799 magnesium binding site [ion binding]; other site 879243000800 putative shikimate binding site; other site 879243000801 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 879243000802 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879243000803 Zn2+ binding site [ion binding]; other site 879243000804 Mg2+ binding site [ion binding]; other site 879243000805 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 879243000806 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 879243000807 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 879243000808 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 879243000809 amidase catalytic site [active] 879243000810 Zn binding residues [ion binding]; other site 879243000811 substrate binding site [chemical binding]; other site 879243000812 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 879243000813 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 879243000814 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 879243000815 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243000816 ligand binding site [chemical binding]; other site 879243000817 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 879243000818 TPR motif; other site 879243000819 binding surface 879243000820 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 879243000821 Right handed beta helix region; Region: Beta_helix; pfam13229 879243000822 Leucine rich repeat; Region: LRR_8; pfam13855 879243000823 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 879243000824 reactive center loop; other site 879243000825 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 879243000826 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 879243000827 active site 879243000828 HIGH motif; other site 879243000829 dimer interface [polypeptide binding]; other site 879243000830 KMSKS motif; other site 879243000831 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 879243000832 RNA binding surface [nucleotide binding]; other site 879243000833 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 879243000834 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 879243000835 Probable Catalytic site; other site 879243000836 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 879243000837 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 879243000838 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 879243000839 ATP-binding site [chemical binding]; other site 879243000840 Sugar specificity; other site 879243000841 Pyrimidine base specificity; other site 879243000842 Predicted membrane protein [Function unknown]; Region: COG2860 879243000843 UPF0126 domain; Region: UPF0126; pfam03458 879243000844 UPF0126 domain; Region: UPF0126; pfam03458 879243000845 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 879243000846 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 879243000847 16S/18S rRNA binding site [nucleotide binding]; other site 879243000848 S13e-L30e interaction site [polypeptide binding]; other site 879243000849 25S rRNA binding site [nucleotide binding]; other site 879243000850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 879243000851 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 879243000852 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 879243000853 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 879243000854 active site 879243000855 substrate binding site [chemical binding]; other site 879243000856 cosubstrate binding site; other site 879243000857 catalytic site [active] 879243000858 acyl carrier protein; Provisional; Region: acpP; PRK00982 879243000859 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 879243000860 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 879243000861 dimer interface [polypeptide binding]; other site 879243000862 active site 879243000863 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 879243000864 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 879243000865 dimerization interface [polypeptide binding]; other site 879243000866 active site 879243000867 metal binding site [ion binding]; metal-binding site 879243000868 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 879243000869 dsRNA binding site [nucleotide binding]; other site 879243000870 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 879243000871 DNA methylase; Region: N6_N4_Mtase; pfam01555 879243000872 Transposase IS200 like; Region: Y1_Tnp; pfam01797 879243000873 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 879243000874 DHH family; Region: DHH; pfam01368 879243000875 DHHA1 domain; Region: DHHA1; pfam02272 879243000876 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 879243000877 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 879243000878 ATP binding site [chemical binding]; other site 879243000879 putative Mg++ binding site [ion binding]; other site 879243000880 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 879243000881 nucleotide binding region [chemical binding]; other site 879243000882 ATP-binding site [chemical binding]; other site 879243000883 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 879243000884 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 879243000885 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 879243000886 Transposase IS200 like; Region: Y1_Tnp; pfam01797 879243000887 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 879243000888 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 879243000889 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 879243000890 ATP binding site [chemical binding]; other site 879243000891 putative Mg++ binding site [ion binding]; other site 879243000892 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 879243000893 nucleotide binding region [chemical binding]; other site 879243000894 ATP-binding site [chemical binding]; other site 879243000895 TRCF domain; Region: TRCF; pfam03461 879243000896 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 879243000897 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 879243000898 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 879243000899 homodimer interface [polypeptide binding]; other site 879243000900 NADP binding site [chemical binding]; other site 879243000901 substrate binding site [chemical binding]; other site 879243000902 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 879243000903 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 879243000904 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 879243000905 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 879243000906 Walker A/P-loop; other site 879243000907 ATP binding site [chemical binding]; other site 879243000908 Q-loop/lid; other site 879243000909 ABC transporter signature motif; other site 879243000910 Walker B; other site 879243000911 D-loop; other site 879243000912 H-loop/switch region; other site 879243000913 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 879243000914 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 879243000915 ABC-ATPase subunit interface; other site 879243000916 dimer interface [polypeptide binding]; other site 879243000917 putative PBP binding regions; other site 879243000918 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 879243000919 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 879243000920 intersubunit interface [polypeptide binding]; other site 879243000921 C-N hydrolase family amidase; Provisional; Region: PRK10438 879243000922 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 879243000923 active site 879243000924 catalytic triad [active] 879243000925 dimer interface [polypeptide binding]; other site 879243000926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 879243000927 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 879243000928 putative acyl-acceptor binding pocket; other site 879243000929 putative transporter; Validated; Region: PRK03818 879243000930 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 879243000931 TrkA-C domain; Region: TrkA_C; pfam02080 879243000932 TrkA-C domain; Region: TrkA_C; pfam02080 879243000933 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 879243000934 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 879243000935 C-terminal peptidase (prc); Region: prc; TIGR00225 879243000936 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 879243000937 protein binding site [polypeptide binding]; other site 879243000938 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 879243000939 Catalytic dyad [active] 879243000940 DNA topoisomerase III; Provisional; Region: PRK07726 879243000941 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 879243000942 active site 879243000943 putative interdomain interaction site [polypeptide binding]; other site 879243000944 putative metal-binding site [ion binding]; other site 879243000945 putative nucleotide binding site [chemical binding]; other site 879243000946 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 879243000947 domain I; other site 879243000948 DNA binding groove [nucleotide binding] 879243000949 phosphate binding site [ion binding]; other site 879243000950 domain II; other site 879243000951 domain III; other site 879243000952 nucleotide binding site [chemical binding]; other site 879243000953 catalytic site [active] 879243000954 domain IV; other site 879243000955 peptide chain release factor 2; Validated; Region: prfB; PRK00578 879243000956 This domain is found in peptide chain release factors; Region: PCRF; smart00937 879243000957 RF-1 domain; Region: RF-1; pfam00472 879243000958 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 879243000959 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 879243000960 acyl-activating enzyme (AAE) consensus motif; other site 879243000961 putative AMP binding site [chemical binding]; other site 879243000962 putative active site [active] 879243000963 putative CoA binding site [chemical binding]; other site 879243000964 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 879243000965 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 879243000966 PspC domain; Region: PspC; pfam04024 879243000967 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 879243000968 IHF - DNA interface [nucleotide binding]; other site 879243000969 IHF dimer interface [polypeptide binding]; other site 879243000970 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 879243000971 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879243000972 cation binding site [ion binding]; other site 879243000973 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 879243000974 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 879243000975 nucleotide binding pocket [chemical binding]; other site 879243000976 K-X-D-G motif; other site 879243000977 catalytic site [active] 879243000978 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 879243000979 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 879243000980 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 879243000981 Dimer interface [polypeptide binding]; other site 879243000982 BRCT sequence motif; other site 879243000983 recombination protein RecR; Reviewed; Region: recR; PRK00076 879243000984 RecR protein; Region: RecR; pfam02132 879243000985 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 879243000986 putative active site [active] 879243000987 putative metal-binding site [ion binding]; other site 879243000988 tetramer interface [polypeptide binding]; other site 879243000989 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 879243000990 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 879243000991 substrate binding site [chemical binding]; other site 879243000992 tetramer interface [polypeptide binding]; other site 879243000993 catalytic residue [active] 879243000994 enolase; Provisional; Region: eno; PRK00077 879243000995 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 879243000996 dimer interface [polypeptide binding]; other site 879243000997 metal binding site [ion binding]; metal-binding site 879243000998 substrate binding pocket [chemical binding]; other site 879243000999 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 879243001000 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 879243001001 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 879243001002 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 879243001003 alphaNTD - beta interaction site [polypeptide binding]; other site 879243001004 alphaNTD homodimer interface [polypeptide binding]; other site 879243001005 alphaNTD - beta' interaction site [polypeptide binding]; other site 879243001006 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 879243001007 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 879243001008 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 879243001009 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 879243001010 RNA binding surface [nucleotide binding]; other site 879243001011 30S ribosomal protein S11; Validated; Region: PRK05309 879243001012 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 879243001013 30S ribosomal protein S13; Region: bact_S13; TIGR03631 879243001014 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 879243001015 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 879243001016 rRNA binding site [nucleotide binding]; other site 879243001017 predicted 30S ribosome binding site; other site 879243001018 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 879243001019 active site 879243001020 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 879243001021 SecY translocase; Region: SecY; pfam00344 879243001022 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 879243001023 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 879243001024 23S rRNA binding site [nucleotide binding]; other site 879243001025 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 879243001026 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 879243001027 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 879243001028 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 879243001029 5S rRNA interface [nucleotide binding]; other site 879243001030 L27 interface [polypeptide binding]; other site 879243001031 23S rRNA interface [nucleotide binding]; other site 879243001032 L5 interface [polypeptide binding]; other site 879243001033 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 879243001034 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 879243001035 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 879243001036 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 879243001037 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 879243001038 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 879243001039 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 879243001040 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 879243001041 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 879243001042 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 879243001043 RNA binding site [nucleotide binding]; other site 879243001044 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 879243001045 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 879243001046 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 879243001047 L23 interface [polypeptide binding]; other site 879243001048 trigger factor interaction site; other site 879243001049 23S rRNA interface [nucleotide binding]; other site 879243001050 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 879243001051 23S rRNA interface [nucleotide binding]; other site 879243001052 5S rRNA interface [nucleotide binding]; other site 879243001053 putative antibiotic binding site [chemical binding]; other site 879243001054 L25 interface [polypeptide binding]; other site 879243001055 L27 interface [polypeptide binding]; other site 879243001056 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 879243001057 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 879243001058 G-X-X-G motif; other site 879243001059 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 879243001060 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 879243001061 putative translocon binding site; other site 879243001062 protein-rRNA interface [nucleotide binding]; other site 879243001063 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 879243001064 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 879243001065 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 879243001066 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 879243001067 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 879243001068 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 879243001069 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 879243001070 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 879243001071 elongation factor G; Reviewed; Region: PRK12739 879243001072 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 879243001073 G1 box; other site 879243001074 putative GEF interaction site [polypeptide binding]; other site 879243001075 GTP/Mg2+ binding site [chemical binding]; other site 879243001076 Switch I region; other site 879243001077 G2 box; other site 879243001078 G3 box; other site 879243001079 Switch II region; other site 879243001080 G4 box; other site 879243001081 G5 box; other site 879243001082 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 879243001083 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 879243001084 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 879243001085 30S ribosomal protein S7; Validated; Region: PRK05302 879243001086 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 879243001087 S17 interaction site [polypeptide binding]; other site 879243001088 S8 interaction site; other site 879243001089 16S rRNA interaction site [nucleotide binding]; other site 879243001090 streptomycin interaction site [chemical binding]; other site 879243001091 23S rRNA interaction site [nucleotide binding]; other site 879243001092 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 879243001093 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 879243001094 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 879243001095 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 879243001096 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 879243001097 Leucine rich repeat; Region: LRR_8; pfam13855 879243001098 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001099 Leucine rich repeat; Region: LRR_8; pfam13855 879243001100 Leucine rich repeat; Region: LRR_8; pfam13855 879243001101 Leucine rich repeat; Region: LRR_8; pfam13855 879243001102 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001103 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243001104 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243001105 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243001106 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001107 fumarate hydratase; Provisional; Region: PRK06246 879243001108 Fumarase C-terminus; Region: Fumerase_C; cl00795 879243001109 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 879243001110 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 879243001111 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 879243001112 Protein export membrane protein; Region: SecD_SecF; pfam02355 879243001113 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 879243001114 Domain of unknown function DUF20; Region: UPF0118; pfam01594 879243001115 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 879243001116 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 879243001117 Walker A motif; other site 879243001118 ATP binding site [chemical binding]; other site 879243001119 Walker B motif; other site 879243001120 arginine finger; other site 879243001121 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 879243001122 active site 879243001123 dimer interface [polypeptide binding]; other site 879243001124 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 879243001125 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 879243001126 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 879243001127 trimer interface [polypeptide binding]; other site 879243001128 active site 879243001129 UDP-GlcNAc binding site [chemical binding]; other site 879243001130 lipid binding site [chemical binding]; lipid-binding site 879243001131 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 879243001132 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 879243001133 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 879243001134 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 879243001135 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 879243001136 active site 879243001137 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 879243001138 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 879243001139 putative substrate binding site [chemical binding]; other site 879243001140 putative ATP binding site [chemical binding]; other site 879243001141 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 879243001142 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 879243001143 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 879243001144 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 879243001145 RNase E interface [polypeptide binding]; other site 879243001146 trimer interface [polypeptide binding]; other site 879243001147 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 879243001148 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 879243001149 RNase E interface [polypeptide binding]; other site 879243001150 trimer interface [polypeptide binding]; other site 879243001151 active site 879243001152 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 879243001153 putative nucleic acid binding region [nucleotide binding]; other site 879243001154 G-X-X-G motif; other site 879243001155 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 879243001156 RNA binding site [nucleotide binding]; other site 879243001157 domain interface; other site 879243001158 glucose/galactose transporter; Region: gluP; TIGR01272 879243001159 L-fucose transporter; Provisional; Region: PRK10133; cl17665 879243001160 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 879243001161 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 879243001162 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 879243001163 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 879243001164 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 879243001165 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 879243001166 putative active site [active] 879243001167 putative metal binding site [ion binding]; other site 879243001168 Domain of unknown function DUF59; Region: DUF59; cl00941 879243001169 Peptidase S46; Region: Peptidase_S46; pfam10459 879243001170 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243001171 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243001172 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 879243001173 putative active site [active] 879243001174 putative metal binding residues [ion binding]; other site 879243001175 signature motif; other site 879243001176 putative dimer interface [polypeptide binding]; other site 879243001177 putative phosphate binding site [ion binding]; other site 879243001178 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 879243001179 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001180 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001181 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001182 Leucine rich repeat; Region: LRR_8; pfam13855 879243001183 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243001184 Leucine rich repeat; Region: LRR_8; pfam13855 879243001185 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243001186 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 879243001187 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 879243001188 homodimer interface [polypeptide binding]; other site 879243001189 substrate-cofactor binding pocket; other site 879243001190 catalytic residue [active] 879243001191 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 879243001192 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 879243001193 putative active site [active] 879243001194 putative NTP binding site [chemical binding]; other site 879243001195 putative nucleic acid binding site [nucleotide binding]; other site 879243001196 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 879243001197 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 879243001198 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 879243001199 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 879243001200 DNA binding residues [nucleotide binding] 879243001201 dimerization interface [polypeptide binding]; other site 879243001202 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 879243001203 active site 879243001204 metal binding site [ion binding]; metal-binding site 879243001205 homotetramer interface [polypeptide binding]; other site 879243001206 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 879243001207 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 879243001208 ATP binding site [chemical binding]; other site 879243001209 Mg++ binding site [ion binding]; other site 879243001210 motif III; other site 879243001211 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 879243001212 nucleotide binding region [chemical binding]; other site 879243001213 ATP-binding site [chemical binding]; other site 879243001214 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 879243001215 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 879243001216 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 879243001217 Urea transporter; Region: UT; pfam03253 879243001218 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 879243001219 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879243001220 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 879243001221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243001222 Walker A/P-loop; other site 879243001223 ATP binding site [chemical binding]; other site 879243001224 Q-loop/lid; other site 879243001225 ABC transporter signature motif; other site 879243001226 Walker B; other site 879243001227 D-loop; other site 879243001228 H-loop/switch region; other site 879243001229 ABC transporter; Region: ABC_tran_2; pfam12848 879243001230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879243001231 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 879243001232 N-acetyl-D-glucosamine binding site [chemical binding]; other site 879243001233 catalytic residue [active] 879243001234 Leucine rich repeat N-terminal domain; Region: LRRNT_2; pfam08263 879243001235 Leucine rich repeat; Region: LRR_8; pfam13855 879243001236 Immunoglobulin domain; Region: Ig_3; pfam13927 879243001237 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 879243001238 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 879243001239 NADP-binding site; other site 879243001240 homotetramer interface [polypeptide binding]; other site 879243001241 substrate binding site [chemical binding]; other site 879243001242 homodimer interface [polypeptide binding]; other site 879243001243 active site 879243001244 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 879243001245 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 879243001246 NADP binding site [chemical binding]; other site 879243001247 active site 879243001248 putative substrate binding site [chemical binding]; other site 879243001249 Response regulator receiver domain; Region: Response_reg; pfam00072 879243001250 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 879243001251 active site 879243001252 phosphorylation site [posttranslational modification] 879243001253 intermolecular recognition site; other site 879243001254 dimerization interface [polypeptide binding]; other site 879243001255 PglZ domain; Region: PglZ; pfam08665 879243001256 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 879243001257 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001258 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001259 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001260 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 879243001261 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 879243001262 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001263 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 879243001264 Interferon-induced transmembrane protein; Region: CD225; pfam04505 879243001265 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 879243001266 Interferon-induced transmembrane protein; Region: CD225; pfam04505 879243001267 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 879243001268 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001269 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 879243001270 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 879243001271 putative catalytic cysteine [active] 879243001272 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 879243001273 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 879243001274 active site 879243001275 NAD binding site [chemical binding]; other site 879243001276 metal binding site [ion binding]; metal-binding site 879243001277 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 879243001278 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 879243001279 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 879243001280 NifU-like domain; Region: NifU; cl00484 879243001281 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 879243001282 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 879243001283 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 879243001284 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 879243001285 Leucine rich repeat; Region: LRR_8; pfam13855 879243001286 Leucine rich repeat; Region: LRR_8; pfam13855 879243001287 Leucine rich repeat; Region: LRR_8; pfam13855 879243001288 Leucine rich repeat; Region: LRR_8; pfam13855 879243001289 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001290 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 879243001291 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 879243001292 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 879243001293 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 879243001294 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 879243001295 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 879243001296 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 879243001297 GIY-YIG motif/motif A; other site 879243001298 active site 879243001299 catalytic site [active] 879243001300 putative DNA binding site [nucleotide binding]; other site 879243001301 metal binding site [ion binding]; metal-binding site 879243001302 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 879243001303 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 879243001304 putative active site [active] 879243001305 dimerization interface [polypeptide binding]; other site 879243001306 putative tRNAtyr binding site [nucleotide binding]; other site 879243001307 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 879243001308 homodimer interface [polypeptide binding]; other site 879243001309 metal binding site [ion binding]; metal-binding site 879243001310 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 879243001311 intersubunit interface [polypeptide binding]; other site 879243001312 active site 879243001313 catalytic residue [active] 879243001314 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 879243001315 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 879243001316 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879243001317 catalytic residue [active] 879243001318 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 879243001319 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 879243001320 G1 box; other site 879243001321 putative GEF interaction site [polypeptide binding]; other site 879243001322 GTP/Mg2+ binding site [chemical binding]; other site 879243001323 Switch I region; other site 879243001324 G2 box; other site 879243001325 G3 box; other site 879243001326 Switch II region; other site 879243001327 G4 box; other site 879243001328 G5 box; other site 879243001329 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 879243001330 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243001331 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243001332 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001333 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 879243001334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879243001335 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 879243001336 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 879243001337 RNA binding surface [nucleotide binding]; other site 879243001338 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 879243001339 putative active site [active] 879243001340 catalytic residue [active] 879243001341 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 879243001342 NlpC/P60 family; Region: NLPC_P60; pfam00877 879243001343 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 879243001344 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 879243001345 ligand binding site [chemical binding]; other site 879243001346 flexible hinge region; other site 879243001347 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 879243001348 hybrid cluster protein; Provisional; Region: PRK05290 879243001349 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 879243001350 ACS interaction site; other site 879243001351 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 879243001352 hybrid metal cluster; other site 879243001353 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001354 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001355 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001356 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001357 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001358 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 879243001359 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 879243001360 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 879243001361 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 879243001362 DJ-1 family protein; Region: not_thiJ; TIGR01383 879243001363 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 879243001364 conserved cys residue [active] 879243001365 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 879243001366 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 879243001367 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 879243001368 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 879243001369 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 879243001370 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 879243001371 active site 879243001372 hydrophilic channel; other site 879243001373 dimerization interface [polypeptide binding]; other site 879243001374 catalytic residues [active] 879243001375 active site lid [active] 879243001376 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879243001377 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 879243001378 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 879243001379 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 879243001380 NADP binding site [chemical binding]; other site 879243001381 active site 879243001382 putative substrate binding site [chemical binding]; other site 879243001383 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879243001384 Ribosome-binding factor A; Region: RBFA; pfam02033 879243001385 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001386 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001387 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001388 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001389 Leucine rich repeat; Region: LRR_8; pfam13855 879243001390 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 879243001391 Leucine rich repeat; Region: LRR_8; pfam13855 879243001392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879243001393 active site 879243001394 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 879243001395 adenylate kinase; Reviewed; Region: adk; PRK00279 879243001396 AMP-binding site [chemical binding]; other site 879243001397 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 879243001398 GTPase CgtA; Reviewed; Region: obgE; PRK12299 879243001399 GTP1/OBG; Region: GTP1_OBG; pfam01018 879243001400 Obg GTPase; Region: Obg; cd01898 879243001401 G1 box; other site 879243001402 GTP/Mg2+ binding site [chemical binding]; other site 879243001403 Switch I region; other site 879243001404 G2 box; other site 879243001405 G3 box; other site 879243001406 Switch II region; other site 879243001407 G4 box; other site 879243001408 G5 box; other site 879243001409 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 879243001410 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 879243001411 active site 879243001412 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 879243001413 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 879243001414 HflX GTPase family; Region: HflX; cd01878 879243001415 G1 box; other site 879243001416 GTP/Mg2+ binding site [chemical binding]; other site 879243001417 Switch I region; other site 879243001418 G2 box; other site 879243001419 G3 box; other site 879243001420 Switch II region; other site 879243001421 G4 box; other site 879243001422 G5 box; other site 879243001423 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 879243001424 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 879243001425 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 879243001426 putative acyl-acceptor binding pocket; other site 879243001427 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 879243001428 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 879243001429 active site 879243001430 metal binding site [ion binding]; metal-binding site 879243001431 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 879243001432 Domain of unknown function (DUF389); Region: DUF389; pfam04087 879243001433 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 879243001434 Peptidase S46; Region: Peptidase_S46; pfam10459 879243001435 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243001436 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 879243001437 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 879243001438 catalytic motif [active] 879243001439 Zn binding site [ion binding]; other site 879243001440 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 879243001441 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 879243001442 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 879243001443 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 879243001444 Catalytic dyad [active] 879243001445 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 879243001446 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 879243001447 methionine gamma-lyase; Provisional; Region: PRK06234 879243001448 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 879243001449 homodimer interface [polypeptide binding]; other site 879243001450 substrate-cofactor binding pocket; other site 879243001451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243001452 catalytic residue [active] 879243001453 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879243001454 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 879243001455 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001456 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243001457 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 879243001458 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 879243001459 active site 879243001460 intersubunit interactions; other site 879243001461 catalytic residue [active] 879243001462 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 879243001463 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 879243001464 trimer interface [polypeptide binding]; other site 879243001465 putative metal binding site [ion binding]; other site 879243001466 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 879243001467 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 879243001468 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 879243001469 active site 879243001470 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 879243001471 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 879243001472 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 879243001473 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 879243001474 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 879243001475 dimer interface [polypeptide binding]; other site 879243001476 PYR/PP interface [polypeptide binding]; other site 879243001477 TPP binding site [chemical binding]; other site 879243001478 substrate binding site [chemical binding]; other site 879243001479 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 879243001480 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 879243001481 TPP-binding site [chemical binding]; other site 879243001482 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243001483 active site 879243001484 HIGH motif; other site 879243001485 nucleotide binding site [chemical binding]; other site 879243001486 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 879243001487 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243001488 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 879243001489 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243001490 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243001491 active site 879243001492 KMSKS motif; other site 879243001493 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 879243001494 tRNA binding surface [nucleotide binding]; other site 879243001495 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 879243001496 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 879243001497 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879243001498 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243001499 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243001500 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879243001501 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 879243001502 PAP2_like_5 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_5; cd03394 879243001503 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 879243001504 active site 879243001505 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243001506 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243001507 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001508 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 879243001509 putative transporter; Validated; Region: PRK03818 879243001510 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 879243001511 TrkA-C domain; Region: TrkA_C; pfam02080 879243001512 TrkA-C domain; Region: TrkA_C; pfam02080 879243001513 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 879243001514 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 879243001515 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 879243001516 Walker A/P-loop; other site 879243001517 ATP binding site [chemical binding]; other site 879243001518 Q-loop/lid; other site 879243001519 ABC transporter signature motif; other site 879243001520 Walker B; other site 879243001521 D-loop; other site 879243001522 H-loop/switch region; other site 879243001523 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 879243001524 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 879243001525 heterodimer interface [polypeptide binding]; other site 879243001526 substrate interaction site [chemical binding]; other site 879243001527 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 879243001528 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 879243001529 active site 879243001530 substrate binding site [chemical binding]; other site 879243001531 coenzyme B12 binding site [chemical binding]; other site 879243001532 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 879243001533 B12 binding site [chemical binding]; other site 879243001534 cobalt ligand [ion binding]; other site 879243001535 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 879243001536 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 879243001537 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879243001538 active site 879243001539 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 879243001540 iron-sulfur cluster [ion binding]; other site 879243001541 [2Fe-2S] cluster binding site [ion binding]; other site 879243001542 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 879243001543 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 879243001544 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 879243001545 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 879243001546 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 879243001547 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 879243001548 active site 879243001549 catalytic site [active] 879243001550 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 879243001551 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 879243001552 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 879243001553 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; cl17512 879243001554 putative DNA binding surface [nucleotide binding]; other site 879243001555 dimer interface [polypeptide binding]; other site 879243001556 beta-clamp/clamp loader binding surface; other site 879243001557 beta-clamp/translesion DNA polymerase binding surface; other site 879243001558 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 879243001559 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 879243001560 active site 879243001561 catalytic site [active] 879243001562 substrate binding site [chemical binding]; other site 879243001563 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 879243001564 Flavoprotein; Region: Flavoprotein; pfam02441 879243001565 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 879243001566 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 879243001567 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 879243001568 Walker A/P-loop; other site 879243001569 ATP binding site [chemical binding]; other site 879243001570 Q-loop/lid; other site 879243001571 N-terminal domain conserved in slingshot (SSH) phosphatases; Region: SSH-N; cd11652 879243001572 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 879243001573 ABC transporter signature motif; other site 879243001574 Walker B; other site 879243001575 D-loop; other site 879243001576 H-loop/switch region; other site 879243001577 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 879243001578 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 879243001579 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 879243001580 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 879243001581 homotrimer interaction site [polypeptide binding]; other site 879243001582 putative active site [active] 879243001583 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 879243001584 ribonuclease P; Reviewed; Region: rnpA; PRK01903 879243001585 Haemolytic domain; Region: Haemolytic; pfam01809 879243001586 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 879243001587 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 879243001588 active site 879243001589 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 879243001590 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 879243001591 CoA-binding site [chemical binding]; other site 879243001592 ATP-binding [chemical binding]; other site 879243001593 YbbR-like protein; Region: YbbR; pfam07949 879243001594 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 879243001595 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879243001596 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243001597 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243001598 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879243001599 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 879243001600 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 879243001601 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 879243001602 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243001603 active site 879243001604 HIGH motif; other site 879243001605 nucleotide binding site [chemical binding]; other site 879243001606 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 879243001607 KMSK motif region; other site 879243001608 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 879243001609 tRNA binding surface [nucleotide binding]; other site 879243001610 anticodon binding site; other site 879243001611 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 879243001612 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 879243001613 Ligand Binding Site [chemical binding]; other site 879243001614 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 879243001615 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 879243001616 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 879243001617 putative active site [active] 879243001618 catalytic site [active] 879243001619 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 879243001620 putative active site [active] 879243001621 catalytic site [active] 879243001622 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 879243001623 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001624 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001625 RNA polymerase sigma factor; Provisional; Region: PRK12513 879243001626 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879243001627 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 879243001628 DNA binding residues [nucleotide binding] 879243001629 Bacterial sugar transferase; Region: Bac_transf; pfam02397 879243001630 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 879243001631 active site 879243001632 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 879243001633 active site 879243001634 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 879243001635 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 879243001636 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 879243001637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879243001638 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 879243001639 active site 879243001640 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 879243001641 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 879243001642 active site 2 [active] 879243001643 active site 1 [active] 879243001644 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 879243001645 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 879243001646 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 879243001647 NAD(P) binding site [chemical binding]; other site 879243001648 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 879243001649 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 879243001650 FeS/SAM binding site; other site 879243001651 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 879243001652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243001653 Walker A/P-loop; other site 879243001654 ATP binding site [chemical binding]; other site 879243001655 Q-loop/lid; other site 879243001656 ABC transporter signature motif; other site 879243001657 Walker B; other site 879243001658 D-loop; other site 879243001659 H-loop/switch region; other site 879243001660 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 879243001661 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 879243001662 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 879243001663 B12 binding site [chemical binding]; other site 879243001664 cobalt ligand [ion binding]; other site 879243001665 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 879243001666 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 879243001667 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 879243001668 FAD binding site [chemical binding]; other site 879243001669 homotetramer interface [polypeptide binding]; other site 879243001670 substrate binding pocket [chemical binding]; other site 879243001671 catalytic base [active] 879243001672 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 879243001673 Ligand binding site [chemical binding]; other site 879243001674 Electron transfer flavoprotein domain; Region: ETF; pfam01012 879243001675 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 879243001676 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 879243001677 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 879243001678 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 879243001679 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 879243001680 substrate binding site [chemical binding]; other site 879243001681 oxyanion hole (OAH) forming residues; other site 879243001682 trimer interface [polypeptide binding]; other site 879243001683 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 879243001684 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 879243001685 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 879243001686 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 879243001687 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 879243001688 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 879243001689 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 879243001690 active site 879243001691 metal binding site [ion binding]; metal-binding site 879243001692 recombination factor protein RarA; Reviewed; Region: PRK13342 879243001693 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 879243001694 Walker A motif; other site 879243001695 ATP binding site [chemical binding]; other site 879243001696 Walker B motif; other site 879243001697 arginine finger; other site 879243001698 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 879243001699 Ribosomal protein S27a; Region: Ribosomal_S27; cl00876 879243001700 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 879243001701 nudix motif; other site 879243001702 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 879243001703 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 879243001704 nucleotide binding site [chemical binding]; other site 879243001705 Peptidase family C69; Region: Peptidase_C69; cl17793 879243001706 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 879243001707 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 879243001708 active site 879243001709 homodimer interface [polypeptide binding]; other site 879243001710 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 879243001711 active site residue [active] 879243001712 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243001713 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001714 Penicillinase repressor; Region: Pencillinase_R; cl17580 879243001715 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 879243001716 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 879243001717 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 879243001718 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 879243001719 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 879243001720 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 879243001721 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 879243001722 active site 879243001723 (T/H)XGH motif; other site 879243001724 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 879243001725 ApbE family; Region: ApbE; pfam02424 879243001726 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 879243001727 putative FMN binding site [chemical binding]; other site 879243001728 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 879243001729 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 879243001730 Ligand binding site; other site 879243001731 Putative Catalytic site; other site 879243001732 DXD motif; other site 879243001733 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001734 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243001735 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 879243001736 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243001737 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 879243001738 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 879243001739 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243001740 Histidine kinase; Region: His_kinase; pfam06580 879243001741 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 879243001742 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 879243001743 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 879243001744 active site 879243001745 phosphorylation site [posttranslational modification] 879243001746 intermolecular recognition site; other site 879243001747 dimerization interface [polypeptide binding]; other site 879243001748 LytTr DNA-binding domain; Region: LytTR; smart00850 879243001749 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 879243001750 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 879243001751 HlyD family secretion protein; Region: HlyD_3; pfam13437 879243001752 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 879243001753 Protein export membrane protein; Region: SecD_SecF; cl14618 879243001754 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 879243001755 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 879243001756 putative active site [active] 879243001757 putative NTP binding site [chemical binding]; other site 879243001758 putative nucleic acid binding site [nucleotide binding]; other site 879243001759 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 879243001760 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 879243001761 MutS domain I; Region: MutS_I; pfam01624 879243001762 MutS domain II; Region: MutS_II; pfam05188 879243001763 MutS domain III; Region: MutS_III; pfam05192 879243001764 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 879243001765 Walker A/P-loop; other site 879243001766 ATP binding site [chemical binding]; other site 879243001767 Q-loop/lid; other site 879243001768 ABC transporter signature motif; other site 879243001769 Walker B; other site 879243001770 D-loop; other site 879243001771 H-loop/switch region; other site 879243001772 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 879243001773 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 879243001774 DNA binding residues [nucleotide binding] 879243001775 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 879243001776 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879243001777 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879243001778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243001779 Walker A/P-loop; other site 879243001780 ATP binding site [chemical binding]; other site 879243001781 Q-loop/lid; other site 879243001782 ABC transporter signature motif; other site 879243001783 Walker B; other site 879243001784 D-loop; other site 879243001785 H-loop/switch region; other site 879243001786 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 879243001787 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 879243001788 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879243001789 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 879243001790 Soluble P-type ATPase [General function prediction only]; Region: COG4087 879243001791 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 879243001792 urocanate hydratase; Provisional; Region: PRK05414 879243001793 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 879243001794 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001795 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243001796 Uncharacterized conserved protein [Function unknown]; Region: COG1624 879243001797 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 879243001798 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 879243001799 dihydropteroate synthase; Region: DHPS; TIGR01496 879243001800 substrate binding pocket [chemical binding]; other site 879243001801 dimer interface [polypeptide binding]; other site 879243001802 inhibitor binding site; inhibition site 879243001803 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 879243001804 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 879243001805 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 879243001806 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 879243001807 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 879243001808 active site 879243001809 oxyanion hole [active] 879243001810 catalytic triad [active] 879243001811 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 879243001812 active site 879243001813 oxyanion hole [active] 879243001814 catalytic triad [active] 879243001815 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 879243001816 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 879243001817 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 879243001818 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 879243001819 PAS fold; Region: PAS_4; pfam08448 879243001820 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 879243001821 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 879243001822 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 879243001823 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 879243001824 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 879243001825 active site 879243001826 HIGH motif; other site 879243001827 dimer interface [polypeptide binding]; other site 879243001828 KMSKS motif; other site 879243001829 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001830 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001831 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001832 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243001833 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 879243001834 putative catalytic site [active] 879243001835 putative metal binding site [ion binding]; other site 879243001836 putative phosphate binding site [ion binding]; other site 879243001837 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 879243001838 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 879243001839 Uncharacterized conserved protein [Function unknown]; Region: COG2968 879243001840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 879243001841 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 879243001842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879243001843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879243001844 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 879243001845 electron transport complex RsxE subunit; Provisional; Region: PRK12405 879243001846 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 879243001847 FMN-binding domain; Region: FMN_bind; cl01081 879243001848 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 879243001849 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 879243001850 SLBB domain; Region: SLBB; pfam10531 879243001851 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 879243001852 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 879243001853 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 879243001854 4Fe-4S binding domain; Region: Fer4; pfam00037 879243001855 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 879243001856 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 879243001857 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 879243001858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243001859 homodimer interface [polypeptide binding]; other site 879243001860 catalytic residue [active] 879243001861 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 879243001862 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 879243001863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 879243001864 Helix-turn-helix domain; Region: HTH_38; pfam13936 879243001865 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 879243001866 DNA-binding interface [nucleotide binding]; DNA binding site 879243001867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 879243001868 Helix-turn-helix domain; Region: HTH_38; pfam13936 879243001869 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 879243001870 DNA-binding interface [nucleotide binding]; DNA binding site 879243001871 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 879243001872 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 879243001873 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 879243001874 Ferritin-like domain; Region: Ferritin; pfam00210 879243001875 binuclear metal center [ion binding]; other site 879243001876 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 879243001877 iron binding site [ion binding]; other site 879243001878 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 879243001879 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 879243001880 putative active site [active] 879243001881 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 879243001882 hypothetical protein; Region: PHA00684 879243001883 recombinase A; Provisional; Region: recA; PRK09354 879243001884 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 879243001885 hexamer interface [polypeptide binding]; other site 879243001886 Walker A motif; other site 879243001887 ATP binding site [chemical binding]; other site 879243001888 Walker B motif; other site 879243001889 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 879243001890 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 879243001891 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 879243001892 G1 box; other site 879243001893 GTP/Mg2+ binding site [chemical binding]; other site 879243001894 Switch I region; other site 879243001895 G2 box; other site 879243001896 G3 box; other site 879243001897 Switch II region; other site 879243001898 G4 box; other site 879243001899 G5 box; other site 879243001900 Nucleoside recognition; Region: Gate; pfam07670 879243001901 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 879243001902 Nucleoside recognition; Region: Gate; pfam07670 879243001903 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 879243001904 putative substrate translocation pore; other site 879243001905 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879243001906 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 879243001907 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 879243001908 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 879243001909 FeS/SAM binding site; other site 879243001910 TRAM domain; Region: TRAM; cl01282 879243001911 4Fe-4S binding domain; Region: Fer4; cl02805 879243001912 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 879243001913 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 879243001914 TPP-binding site; other site 879243001915 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 879243001916 PYR/PP interface [polypeptide binding]; other site 879243001917 dimer interface [polypeptide binding]; other site 879243001918 TPP binding site [chemical binding]; other site 879243001919 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879243001920 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 879243001921 TrkA-N domain; Region: TrkA_N; pfam02254 879243001922 TrkA-C domain; Region: TrkA_C; pfam02080 879243001923 TrkA-N domain; Region: TrkA_N; pfam02254 879243001924 TrkA-C domain; Region: TrkA_C; pfam02080 879243001925 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 879243001926 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 879243001927 Predicted permeases [General function prediction only]; Region: COG0795 879243001928 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 879243001929 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 879243001930 phosphodiesterase; Provisional; Region: PRK12704 879243001931 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879243001932 Zn2+ binding site [ion binding]; other site 879243001933 Mg2+ binding site [ion binding]; other site 879243001934 Cell division protein ZapA; Region: ZapA; pfam05164 879243001935 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 879243001936 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 879243001937 homodimer interface [polypeptide binding]; other site 879243001938 oligonucleotide binding site [chemical binding]; other site 879243001939 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 879243001940 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 879243001941 IHF - DNA interface [nucleotide binding]; other site 879243001942 IHF dimer interface [polypeptide binding]; other site 879243001943 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 879243001944 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 879243001945 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 879243001946 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 879243001947 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; cl02542 879243001948 HSP70 interaction site [polypeptide binding]; other site 879243001949 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 879243001950 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 879243001951 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 879243001952 Substrate binding site; other site 879243001953 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 879243001954 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 879243001955 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 879243001956 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 879243001957 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 879243001958 rod shape-determining protein MreC; Provisional; Region: PRK13922 879243001959 rod shape-determining protein MreC; Region: MreC; pfam04085 879243001960 rod shape-determining protein MreB; Provisional; Region: PRK13927 879243001961 MreB and similar proteins; Region: MreB_like; cd10225 879243001962 nucleotide binding site [chemical binding]; other site 879243001963 Mg binding site [ion binding]; other site 879243001964 putative protofilament interaction site [polypeptide binding]; other site 879243001965 RodZ interaction site [polypeptide binding]; other site 879243001966 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 879243001967 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 879243001968 purine monophosphate binding site [chemical binding]; other site 879243001969 dimer interface [polypeptide binding]; other site 879243001970 putative catalytic residues [active] 879243001971 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 879243001972 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 879243001973 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 879243001974 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 879243001975 NAD(P) binding site [chemical binding]; other site 879243001976 LDH/MDH dimer interface [polypeptide binding]; other site 879243001977 substrate binding site [chemical binding]; other site 879243001978 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 879243001979 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 879243001980 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 879243001981 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 879243001982 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 879243001983 5S rRNA interface [nucleotide binding]; other site 879243001984 CTC domain interface [polypeptide binding]; other site 879243001985 L16 interface [polypeptide binding]; other site 879243001986 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 879243001987 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 879243001988 RNA binding site [nucleotide binding]; other site 879243001989 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 879243001990 RNA binding site [nucleotide binding]; other site 879243001991 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 879243001992 RNA binding site [nucleotide binding]; other site 879243001993 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 879243001994 RNA binding site [nucleotide binding]; other site 879243001995 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 879243001996 RNA binding site [nucleotide binding]; other site 879243001997 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 879243001998 Uncharacterized conserved protein [Function unknown]; Region: COG1479 879243001999 Protein of unknown function DUF262; Region: DUF262; pfam03235 879243002000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 879243002001 Transposase; Region: DDE_Tnp_ISL3; pfam01610 879243002002 Helicase_C-like; Region: Helicase_C_4; pfam13871 879243002003 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243002004 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 879243002005 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 879243002006 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 879243002007 dimer interface [polypeptide binding]; other site 879243002008 motif 1; other site 879243002009 active site 879243002010 motif 2; other site 879243002011 motif 3; other site 879243002012 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 879243002013 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 879243002014 minor groove reading motif; other site 879243002015 helix-hairpin-helix signature motif; other site 879243002016 substrate binding pocket [chemical binding]; other site 879243002017 active site 879243002018 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 879243002019 peptide chain release factor 1; Validated; Region: prfA; PRK00591 879243002020 This domain is found in peptide chain release factors; Region: PCRF; smart00937 879243002021 RF-1 domain; Region: RF-1; pfam00472 879243002022 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 879243002023 dimerization interface [polypeptide binding]; other site 879243002024 ATP binding site [chemical binding]; other site 879243002025 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 879243002026 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879243002027 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 879243002028 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879243002029 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 879243002030 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243002031 Walker A/P-loop; other site 879243002032 ATP binding site [chemical binding]; other site 879243002033 Q-loop/lid; other site 879243002034 ABC transporter signature motif; other site 879243002035 Walker B; other site 879243002036 D-loop; other site 879243002037 H-loop/switch region; other site 879243002038 ABC transporter; Region: ABC_tran_2; pfam12848 879243002039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879243002040 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 879243002041 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 879243002042 active site 879243002043 catalytic residues [active] 879243002044 metal binding site [ion binding]; metal-binding site 879243002045 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 879243002046 TPR motif; other site 879243002047 binding surface 879243002048 TPR repeat; Region: TPR_11; pfam13414 879243002049 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 879243002050 binding surface 879243002051 TPR motif; other site 879243002052 TPR repeat; Region: TPR_11; pfam13414 879243002053 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 879243002054 binding surface 879243002055 TPR motif; other site 879243002056 Tetratricopeptide repeat; Region: TPR_16; pfam13432 879243002057 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 879243002058 TPR motif; other site 879243002059 Tetratricopeptide repeat; Region: TPR_16; pfam13432 879243002060 binding surface 879243002061 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 879243002062 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879243002063 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879243002064 ABC transporter; Region: ABC_tran_2; pfam12848 879243002065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 879243002066 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879243002067 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879243002068 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 879243002069 Walker A/P-loop; other site 879243002070 ATP binding site [chemical binding]; other site 879243002071 Q-loop/lid; other site 879243002072 ABC transporter signature motif; other site 879243002073 Walker B; other site 879243002074 D-loop; other site 879243002075 H-loop/switch region; other site 879243002076 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 879243002077 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 879243002078 G1 box; other site 879243002079 GTP/Mg2+ binding site [chemical binding]; other site 879243002080 Switch I region; other site 879243002081 G2 box; other site 879243002082 Switch II region; other site 879243002083 G3 box; other site 879243002084 G4 box; other site 879243002085 G5 box; other site 879243002086 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 879243002087 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 879243002088 FeS/SAM binding site; other site 879243002089 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 879243002090 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 879243002091 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 879243002092 FeS/SAM binding site; other site 879243002093 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 879243002094 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 879243002095 4Fe-4S binding domain; Region: Fer4; cl02805 879243002096 4Fe-4S binding domain; Region: Fer4; pfam00037 879243002097 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 879243002098 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 879243002099 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243002100 Leucine rich repeat; Region: LRR_8; pfam13855 879243002101 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243002102 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243002103 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 879243002104 Active site serine [active] 879243002105 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 879243002106 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 879243002107 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 879243002108 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 879243002109 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 879243002110 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 879243002111 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 879243002112 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 879243002113 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 879243002114 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 879243002115 DNA binding site [nucleotide binding] 879243002116 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 879243002117 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 879243002118 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 879243002119 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 879243002120 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 879243002121 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 879243002122 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 879243002123 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 879243002124 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 879243002125 RPB3 interaction site [polypeptide binding]; other site 879243002126 RPB1 interaction site [polypeptide binding]; other site 879243002127 RPB11 interaction site [polypeptide binding]; other site 879243002128 RPB10 interaction site [polypeptide binding]; other site 879243002129 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 879243002130 L11 interface [polypeptide binding]; other site 879243002131 putative EF-Tu interaction site [polypeptide binding]; other site 879243002132 putative EF-G interaction site [polypeptide binding]; other site 879243002133 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 879243002134 23S rRNA interface [nucleotide binding]; other site 879243002135 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 879243002136 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 879243002137 mRNA/rRNA interface [nucleotide binding]; other site 879243002138 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 879243002139 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 879243002140 23S rRNA interface [nucleotide binding]; other site 879243002141 L7/L12 interface [polypeptide binding]; other site 879243002142 putative thiostrepton binding site; other site 879243002143 L25 interface [polypeptide binding]; other site 879243002144 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 879243002145 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 879243002146 putative homodimer interface [polypeptide binding]; other site 879243002147 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 879243002148 heterodimer interface [polypeptide binding]; other site 879243002149 homodimer interface [polypeptide binding]; other site 879243002150 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 879243002151 elongation factor Tu; Reviewed; Region: PRK12735 879243002152 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 879243002153 G1 box; other site 879243002154 GEF interaction site [polypeptide binding]; other site 879243002155 GTP/Mg2+ binding site [chemical binding]; other site 879243002156 Switch I region; other site 879243002157 G2 box; other site 879243002158 G3 box; other site 879243002159 Switch II region; other site 879243002160 G4 box; other site 879243002161 G5 box; other site 879243002162 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 879243002163 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 879243002164 Antibiotic Binding Site [chemical binding]; other site 879243002165 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 879243002166 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 879243002167 active site 879243002168 DNA binding site [nucleotide binding] 879243002169 Int/Topo IB signature motif; other site 879243002170 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 879243002171 30S subunit binding site; other site 879243002172 hypothetical protein; Provisional; Region: PRK08201 879243002173 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 879243002174 metal binding site [ion binding]; metal-binding site 879243002175 putative dimer interface [polypeptide binding]; other site 879243002176 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 879243002177 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 879243002178 active site 879243002179 putative substrate binding pocket [chemical binding]; other site 879243002180 purine nucleoside phosphorylase; Provisional; Region: PRK08202 879243002181 A new structural DNA glycosylase; Region: AlkD_like; cl11434 879243002182 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 879243002183 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 879243002184 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 879243002185 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 879243002186 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243002187 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243002188 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243002189 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243002190 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 879243002191 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 879243002192 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 879243002193 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 879243002194 non-specific DNA binding site [nucleotide binding]; other site 879243002195 salt bridge; other site 879243002196 sequence-specific DNA binding site [nucleotide binding]; other site 879243002197 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 879243002198 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 879243002199 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 879243002200 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 879243002201 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243002202 catalytic residues [active] 879243002203 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 879243002204 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 879243002205 Protein of unknown function (DUF452); Region: DUF452; cl01062 879243002206 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 879243002207 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 879243002208 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879243002209 catalytic residue [active] 879243002210 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 879243002211 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 879243002212 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 879243002213 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 879243002214 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 879243002215 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 879243002216 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 879243002217 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 879243002218 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 879243002219 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 879243002220 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 879243002221 dimer interface [polypeptide binding]; other site 879243002222 motif 1; other site 879243002223 active site 879243002224 motif 2; other site 879243002225 motif 3; other site 879243002226 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 879243002227 anticodon binding site; other site 879243002228 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 879243002229 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 879243002230 folate binding site [chemical binding]; other site 879243002231 NADP+ binding site [chemical binding]; other site 879243002232 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243002233 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243002234 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 879243002235 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243002236 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 879243002237 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243002238 putative transposase OrfB; Reviewed; Region: PHA02517 879243002239 Integrase core domain; Region: rve; pfam00665 879243002240 Integrase core domain; Region: rve_3; pfam13683 879243002241 Transposase; Region: HTH_Tnp_1; cl17663 879243002242 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 879243002243 catalytic residues [active] 879243002244 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 879243002245 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 879243002246 active site 879243002247 PHP Thumb interface [polypeptide binding]; other site 879243002248 metal binding site [ion binding]; metal-binding site 879243002249 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 879243002250 generic binding surface I; other site 879243002251 generic binding surface II; other site 879243002252 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 879243002253 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 879243002254 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 879243002255 ATP-grasp domain; Region: ATP-grasp_4; cl17255 879243002256 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 879243002257 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 879243002258 RNA binding surface [nucleotide binding]; other site 879243002259 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 879243002260 active site 879243002261 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 879243002262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 879243002263 Transposase; Region: DDE_Tnp_ISL3; pfam01610 879243002264 Transposase [DNA replication, recombination, and repair]; Region: COG5421 879243002265 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 879243002266 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 879243002267 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 879243002268 NAD(P) binding site [chemical binding]; other site 879243002269 homodimer interface [polypeptide binding]; other site 879243002270 substrate binding site [chemical binding]; other site 879243002271 active site 879243002272 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 879243002273 Chain length determinant protein; Region: Wzz; cl15801 879243002274 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 879243002275 AAA domain; Region: AAA_31; pfam13614 879243002276 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 879243002277 SLBB domain; Region: SLBB; pfam10531 879243002278 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 879243002279 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 879243002280 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 879243002281 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 879243002282 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 879243002283 putative active site [active] 879243002284 putative NTP binding site [chemical binding]; other site 879243002285 putative nucleic acid binding site [nucleotide binding]; other site 879243002286 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 879243002287 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 879243002288 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 879243002289 active site 879243002290 Zn binding site [ion binding]; other site 879243002291 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 879243002292 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 879243002293 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 879243002294 putative ligand binding site [chemical binding]; other site 879243002295 putative NAD binding site [chemical binding]; other site 879243002296 catalytic site [active] 879243002297 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 879243002298 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 879243002299 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 879243002300 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 879243002301 active site 879243002302 Uncharacterized conserved protein [Function unknown]; Region: COG1284 879243002303 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243002304 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 879243002305 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 879243002306 active site 2 [active] 879243002307 active site 1 [active] 879243002308 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 879243002309 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 879243002310 N-acetyl-D-glucosamine binding site [chemical binding]; other site 879243002311 catalytic residue [active] 879243002312 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879243002313 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 879243002314 ParB-like nuclease domain; Region: ParBc; pfam02195 879243002315 Helix-turn-helix; Region: HTH_3; pfam01381 879243002316 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 879243002317 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 879243002318 P-loop; other site 879243002319 Magnesium ion binding site [ion binding]; other site 879243002320 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 879243002321 Magnesium ion binding site [ion binding]; other site 879243002322 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 879243002323 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 879243002324 putative dimer interface [polypeptide binding]; other site 879243002325 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 879243002326 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 879243002327 Walker A/P-loop; other site 879243002328 ATP binding site [chemical binding]; other site 879243002329 Q-loop/lid; other site 879243002330 ABC transporter signature motif; other site 879243002331 Walker B; other site 879243002332 D-loop; other site 879243002333 H-loop/switch region; other site 879243002334 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879243002335 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 879243002336 Walker A/P-loop; other site 879243002337 ATP binding site [chemical binding]; other site 879243002338 Q-loop/lid; other site 879243002339 ABC transporter signature motif; other site 879243002340 Walker B; other site 879243002341 D-loop; other site 879243002342 H-loop/switch region; other site 879243002343 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 879243002344 HlyD family secretion protein; Region: HlyD_3; pfam13437 879243002345 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 879243002346 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 879243002347 Walker A/P-loop; other site 879243002348 ATP binding site [chemical binding]; other site 879243002349 Q-loop/lid; other site 879243002350 ABC transporter signature motif; other site 879243002351 Walker B; other site 879243002352 D-loop; other site 879243002353 H-loop/switch region; other site 879243002354 Permease; Region: Permease; pfam02405 879243002355 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 879243002356 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879243002357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243002358 Walker A/P-loop; other site 879243002359 ATP binding site [chemical binding]; other site 879243002360 Q-loop/lid; other site 879243002361 ABC transporter signature motif; other site 879243002362 Walker B; other site 879243002363 D-loop; other site 879243002364 H-loop/switch region; other site 879243002365 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG1102 879243002366 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 879243002367 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243002368 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 879243002369 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 879243002370 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 879243002371 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 879243002372 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 879243002373 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 879243002374 glycine dehydrogenase; Provisional; Region: PRK05367 879243002375 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 879243002376 tetramer interface [polypeptide binding]; other site 879243002377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243002378 catalytic residue [active] 879243002379 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 879243002380 tetramer interface [polypeptide binding]; other site 879243002381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243002382 catalytic residue [active] 879243002383 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 879243002384 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 879243002385 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 879243002386 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 879243002387 Clp amino terminal domain; Region: Clp_N; pfam02861 879243002388 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 879243002389 Walker A motif; other site 879243002390 ATP binding site [chemical binding]; other site 879243002391 Walker B motif; other site 879243002392 arginine finger; other site 879243002393 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 879243002394 Walker A motif; other site 879243002395 ATP binding site [chemical binding]; other site 879243002396 Walker B motif; other site 879243002397 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 879243002398 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243002399 ligand binding site [chemical binding]; other site 879243002400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 879243002401 Transposase; Region: DDE_Tnp_ISL3; pfam01610 879243002402 DNA primase, catalytic core; Region: dnaG; TIGR01391 879243002403 CHC2 zinc finger; Region: zf-CHC2; pfam01807 879243002404 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 879243002405 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 879243002406 active site 879243002407 metal binding site [ion binding]; metal-binding site 879243002408 interdomain interaction site; other site 879243002409 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 879243002410 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 879243002411 DNA polymerase III subunit delta'; Validated; Region: PRK08485 879243002412 Acyltransferase family; Region: Acyl_transf_3; pfam01757 879243002413 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 879243002414 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 879243002415 Lumazine binding domain; Region: Lum_binding; pfam00677 879243002416 Lumazine binding domain; Region: Lum_binding; pfam00677 879243002417 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 879243002418 FMN binding site [chemical binding]; other site 879243002419 dimer interface [polypeptide binding]; other site 879243002420 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 879243002421 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 879243002422 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 879243002423 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 879243002424 active site 879243002425 Septum formation initiator; Region: DivIC; cl17659 879243002426 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 879243002427 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 879243002428 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 879243002429 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 879243002430 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 879243002431 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 879243002432 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_2; cd04602 879243002433 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 879243002434 active site 879243002435 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 879243002436 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 879243002437 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 879243002438 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 879243002439 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 879243002440 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 879243002441 active site 879243002442 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 879243002443 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 879243002444 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 879243002445 ligand binding site [chemical binding]; other site 879243002446 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; cl02429 879243002447 TPR motif; other site 879243002448 binding surface 879243002449 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 879243002450 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 879243002451 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 879243002452 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243002453 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243002454 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 879243002455 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 879243002456 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 879243002457 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 879243002458 active site 879243002459 substrate binding site [chemical binding]; other site 879243002460 Mg2+ binding site [ion binding]; other site 879243002461 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 879243002462 active site 879243002463 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 879243002464 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 879243002465 dimer interface [polypeptide binding]; other site 879243002466 PYR/PP interface [polypeptide binding]; other site 879243002467 TPP binding site [chemical binding]; other site 879243002468 substrate binding site [chemical binding]; other site 879243002469 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 879243002470 Domain of unknown function; Region: EKR; smart00890 879243002471 4Fe-4S binding domain; Region: Fer4_6; pfam12837 879243002472 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 879243002473 TPP-binding site [chemical binding]; other site 879243002474 dimer interface [polypeptide binding]; other site 879243002475 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 879243002476 AAA domain; Region: AAA_14; pfam13173 879243002477 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 879243002478 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 879243002479 active site 879243002480 nucleophile elbow; other site 879243002481 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 879243002482 Peptidase family U32; Region: Peptidase_U32; pfam01136 879243002483 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 879243002484 active site 879243002485 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 879243002486 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 879243002487 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 879243002488 putative active site [active] 879243002489 catalytic site [active] 879243002490 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 879243002491 putative active site [active] 879243002492 catalytic site [active] 879243002493 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 879243002494 transcription termination factor Rho; Provisional; Region: PRK12608 879243002495 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 879243002496 RNA binding site [nucleotide binding]; other site 879243002497 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 879243002498 multimer interface [polypeptide binding]; other site 879243002499 Walker A motif; other site 879243002500 ATP binding site [chemical binding]; other site 879243002501 Walker B motif; other site 879243002502 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 879243002503 putative transporter; Provisional; Region: PRK11660 879243002504 Sulfate transporter family; Region: Sulfate_transp; pfam00916 879243002505 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 879243002506 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 879243002507 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 879243002508 FeS/SAM binding site; other site 879243002509 ribonuclease R; Region: RNase_R; TIGR02063 879243002510 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 879243002511 RNB domain; Region: RNB; pfam00773 879243002512 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 879243002513 RNA binding site [nucleotide binding]; other site 879243002514 GTPase RsgA; Reviewed; Region: PRK00098 879243002515 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 879243002516 RNA binding site [nucleotide binding]; other site 879243002517 homodimer interface [polypeptide binding]; other site 879243002518 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 879243002519 GTPase/Zn-binding domain interface [polypeptide binding]; other site 879243002520 GTP/Mg2+ binding site [chemical binding]; other site 879243002521 G4 box; other site 879243002522 G5 box; other site 879243002523 G1 box; other site 879243002524 Switch I region; other site 879243002525 G2 box; other site 879243002526 G3 box; other site 879243002527 Switch II region; other site 879243002528 ribosome recycling factor; Reviewed; Region: frr; PRK00083 879243002529 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 879243002530 hinge region; other site 879243002531 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 879243002532 putative nucleotide binding site [chemical binding]; other site 879243002533 uridine monophosphate binding site [chemical binding]; other site 879243002534 homohexameric interface [polypeptide binding]; other site 879243002535 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 879243002536 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 879243002537 FtsH Extracellular; Region: FtsH_ext; pfam06480 879243002538 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 879243002539 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 879243002540 Walker A motif; other site 879243002541 ATP binding site [chemical binding]; other site 879243002542 Walker B motif; other site 879243002543 arginine finger; other site 879243002544 Peptidase family M41; Region: Peptidase_M41; pfam01434 879243002545 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 879243002546 Lamin Tail Domain; Region: LTD; pfam00932 879243002547 Peptidase C10 family; Region: Peptidase_C10; pfam01640 879243002548 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243002549 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243002550 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243002551 Leucine rich repeat; Region: LRR_8; pfam13855 879243002552 Leucine rich repeat; Region: LRR_8; pfam13855 879243002553 Leucine rich repeat; Region: LRR_8; pfam13855 879243002554 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243002555 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 879243002556 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 879243002557 putative active site [active] 879243002558 putative NTP binding site [chemical binding]; other site 879243002559 putative nucleic acid binding site [nucleotide binding]; other site 879243002560 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 879243002561 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 879243002562 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 879243002563 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 879243002564 FeS/SAM binding site; other site 879243002565 HemN C-terminal domain; Region: HemN_C; pfam06969 879243002566 flavodoxin FldA; Validated; Region: PRK09267 879243002567 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 879243002568 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 879243002569 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 879243002570 active site 879243002571 metal binding site [ion binding]; metal-binding site 879243002572 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 879243002573 mce related protein; Region: MCE; pfam02470 879243002574 Chromate transporter; Region: Chromate_transp; pfam02417 879243002575 Chromate transporter; Region: Chromate_transp; pfam02417 879243002576 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 879243002577 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 879243002578 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 879243002579 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 879243002580 Probable Catalytic site; other site 879243002581 metal-binding site 879243002582 Protein of unknown function, DUF486; Region: DUF486; cl01236 879243002583 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 879243002584 catalytic residues [active] 879243002585 dimer interface [polypeptide binding]; other site 879243002586 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 879243002587 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 879243002588 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 879243002589 BRO family, N-terminal domain; Region: Bro-N; cl10591 879243002590 Fic/DOC family; Region: Fic; pfam02661 879243002591 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 879243002592 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 879243002593 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 879243002594 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 879243002595 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 879243002596 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 879243002597 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 879243002598 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 879243002599 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 879243002600 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 879243002601 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 879243002602 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 879243002603 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 879243002604 active site 879243002605 HIGH motif; other site 879243002606 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 879243002607 KMSKS motif; other site 879243002608 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 879243002609 tRNA binding surface [nucleotide binding]; other site 879243002610 anticodon binding site; other site 879243002611 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 879243002612 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 879243002613 active site 879243002614 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 879243002615 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 879243002616 binding surface 879243002617 TPR motif; other site 879243002618 Tetratricopeptide repeat; Region: TPR_12; pfam13424 879243002619 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 879243002620 acyl-activating enzyme (AAE) consensus motif; other site 879243002621 AMP binding site [chemical binding]; other site 879243002622 active site 879243002623 CoA binding site [chemical binding]; other site 879243002624 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 879243002625 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 879243002626 active site 879243002627 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 879243002628 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 879243002629 substrate binding site [chemical binding]; other site 879243002630 oxyanion hole (OAH) forming residues; other site 879243002631 trimer interface [polypeptide binding]; other site 879243002632 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 879243002633 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 879243002634 dimer interface [polypeptide binding]; other site 879243002635 tetramer interface [polypeptide binding]; other site 879243002636 PYR/PP interface [polypeptide binding]; other site 879243002637 TPP binding site [chemical binding]; other site 879243002638 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 879243002639 TPP-binding site [chemical binding]; other site 879243002640 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 879243002641 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 879243002642 HD domain; Region: HD_4; pfam13328 879243002643 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 879243002644 synthetase active site [active] 879243002645 NTP binding site [chemical binding]; other site 879243002646 metal binding site [ion binding]; metal-binding site 879243002647 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 879243002648 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; cl00233 879243002649 catalytic center binding site [active] 879243002650 ATP binding site [chemical binding]; other site 879243002651 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 879243002652 Chorismate mutase type II; Region: CM_2; smart00830 879243002653 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879243002654 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879243002655 Walker A/P-loop; other site 879243002656 ATP binding site [chemical binding]; other site 879243002657 Q-loop/lid; other site 879243002658 ABC transporter signature motif; other site 879243002659 Walker B; other site 879243002660 D-loop; other site 879243002661 H-loop/switch region; other site 879243002662 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879243002663 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 879243002664 FtsX-like permease family; Region: FtsX; pfam02687 879243002665 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 879243002666 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 879243002667 FtsX-like permease family; Region: FtsX; pfam02687 879243002668 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 879243002669 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 879243002670 HlyD family secretion protein; Region: HlyD_3; pfam13437 879243002671 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 879243002672 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879243002673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243002674 Walker A/P-loop; other site 879243002675 ATP binding site [chemical binding]; other site 879243002676 Q-loop/lid; other site 879243002677 ABC transporter signature motif; other site 879243002678 Walker B; other site 879243002679 D-loop; other site 879243002680 H-loop/switch region; other site 879243002681 Predicted transcriptional regulators [Transcription]; Region: COG1725 879243002682 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 879243002683 DNA-binding site [nucleotide binding]; DNA binding site 879243002684 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 879243002685 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 879243002686 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 879243002687 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 879243002688 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 879243002689 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 879243002690 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 879243002691 ligand binding site [chemical binding]; other site 879243002692 homodimer interface [polypeptide binding]; other site 879243002693 NAD(P) binding site [chemical binding]; other site 879243002694 trimer interface B [polypeptide binding]; other site 879243002695 trimer interface A [polypeptide binding]; other site 879243002696 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 879243002697 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 879243002698 active site 879243002699 substrate-binding site [chemical binding]; other site 879243002700 metal-binding site [ion binding] 879243002701 ATP binding site [chemical binding]; other site 879243002702 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 879243002703 Uncharacterized conserved protein [Function unknown]; Region: COG2966 879243002704 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 879243002705 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 879243002706 metal binding site 2 [ion binding]; metal-binding site 879243002707 putative DNA binding helix; other site 879243002708 metal binding site 1 [ion binding]; metal-binding site 879243002709 dimer interface [polypeptide binding]; other site 879243002710 structural Zn2+ binding site [ion binding]; other site 879243002711 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 879243002712 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 879243002713 nucleotide binding site [chemical binding]; other site 879243002714 NEF interaction site [polypeptide binding]; other site 879243002715 SBD interface [polypeptide binding]; other site 879243002716 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243002717 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 879243002718 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243002719 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 879243002720 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 879243002721 Soluble P-type ATPase [General function prediction only]; Region: COG4087 879243002722 putative transposase OrfB; Reviewed; Region: PHA02517 879243002723 Integrase core domain; Region: rve; pfam00665 879243002724 Integrase core domain; Region: rve_3; pfam13683 879243002725 Transposase; Region: HTH_Tnp_1; cl17663 879243002726 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 879243002727 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879243002728 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 879243002729 Maf-like protein; Region: Maf; pfam02545 879243002730 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 879243002731 active site 879243002732 dimer interface [polypeptide binding]; other site 879243002733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879243002734 NAD(P) binding site [chemical binding]; other site 879243002735 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 879243002736 active site 879243002737 ligand binding site [chemical binding]; other site 879243002738 NAD(P) binding site [chemical binding]; other site 879243002739 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 879243002740 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 879243002741 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 879243002742 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879243002743 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 879243002744 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 879243002745 TrkA-N domain; Region: TrkA_N; pfam02254 879243002746 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 879243002747 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 879243002748 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 879243002749 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 879243002750 Ligand binding site; other site 879243002751 Bacterial sugar transferase; Region: Bac_transf; pfam02397 879243002752 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 879243002753 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 879243002754 inhibitor-cofactor binding pocket; inhibition site 879243002755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243002756 catalytic residue [active] 879243002757 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 879243002758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243002759 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 879243002760 AAA domain; Region: AAA_21; pfam13304 879243002761 Walker A/P-loop; other site 879243002762 ATP binding site [chemical binding]; other site 879243002763 TIGR02646 family protein; Region: TIGR02646 879243002764 elongation factor P; Validated; Region: PRK00529 879243002765 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 879243002766 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 879243002767 RNA binding site [nucleotide binding]; other site 879243002768 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 879243002769 RNA binding site [nucleotide binding]; other site 879243002770 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 879243002771 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 879243002772 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 879243002773 GTP-binding protein YchF; Reviewed; Region: PRK09601 879243002774 YchF GTPase; Region: YchF; cd01900 879243002775 G1 box; other site 879243002776 GTP/Mg2+ binding site [chemical binding]; other site 879243002777 Switch I region; other site 879243002778 G2 box; other site 879243002779 Switch II region; other site 879243002780 G3 box; other site 879243002781 G4 box; other site 879243002782 G5 box; other site 879243002783 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 879243002784 GMP synthase; Reviewed; Region: guaA; PRK00074 879243002785 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 879243002786 AMP/PPi binding site [chemical binding]; other site 879243002787 candidate oxyanion hole; other site 879243002788 catalytic triad [active] 879243002789 potential glutamine specificity residues [chemical binding]; other site 879243002790 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 879243002791 ATP Binding subdomain [chemical binding]; other site 879243002792 Ligand Binding sites [chemical binding]; other site 879243002793 Dimerization subdomain; other site 879243002794 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 879243002795 oligomerization interface [polypeptide binding]; other site 879243002796 active site 879243002797 metal binding site [ion binding]; metal-binding site 879243002798 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 879243002799 nucleoside/Zn binding site; other site 879243002800 dimer interface [polypeptide binding]; other site 879243002801 catalytic motif [active] 879243002802 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 879243002803 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 879243002804 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 879243002805 catalytic residues [active] 879243002806 NAD-dependent deacetylase; Provisional; Region: PRK00481 879243002807 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 879243002808 NAD+ binding site [chemical binding]; other site 879243002809 substrate binding site [chemical binding]; other site 879243002810 Zn binding site [ion binding]; other site 879243002811 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 879243002812 RNA/DNA hybrid binding site [nucleotide binding]; other site 879243002813 active site 879243002814 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 879243002815 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 879243002816 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879243002817 catalytic residue [active] 879243002818 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 879243002819 UbiA prenyltransferase family; Region: UbiA; pfam01040 879243002820 aspartate kinase III; Validated; Region: PRK09084 879243002821 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 879243002822 nucleotide binding site [chemical binding]; other site 879243002823 substrate binding site [chemical binding]; other site 879243002824 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 879243002825 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879243002826 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 879243002827 Walker A/P-loop; other site 879243002828 ATP binding site [chemical binding]; other site 879243002829 Q-loop/lid; other site 879243002830 ABC transporter signature motif; other site 879243002831 Walker B; other site 879243002832 D-loop; other site 879243002833 H-loop/switch region; other site 879243002834 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 879243002835 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243002836 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 879243002837 putative FMN binding site [chemical binding]; other site 879243002838 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 879243002839 DNA methylase; Region: N6_N4_Mtase; cl17433 879243002840 DNA methylase; Region: N6_N4_Mtase; cl17433 879243002841 Restriction endonuclease [Defense mechanisms]; Region: COG3587 879243002842 Abortive infection C-terminus; Region: Abi_C; pfam14355 879243002843 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 879243002844 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 879243002845 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 879243002846 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 879243002847 ATP binding site [chemical binding]; other site 879243002848 substrate interface [chemical binding]; other site 879243002849 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 879243002850 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 879243002851 FeS/SAM binding site; other site 879243002852 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 879243002853 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 879243002854 ThiS interaction site; other site 879243002855 putative active site [active] 879243002856 tetramer interface [polypeptide binding]; other site 879243002857 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 879243002858 active site 879243002859 thiamine phosphate binding site [chemical binding]; other site 879243002860 pyrophosphate binding site [ion binding]; other site 879243002861 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 879243002862 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 879243002863 substrate binding site [chemical binding]; other site 879243002864 ATP binding site [chemical binding]; other site 879243002865 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 879243002866 thiamine phosphate binding site [chemical binding]; other site 879243002867 active site 879243002868 pyrophosphate binding site [ion binding]; other site 879243002869 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 879243002870 ThiC-associated domain; Region: ThiC-associated; pfam13667 879243002871 ThiC family; Region: ThiC; pfam01964 879243002872 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 879243002873 thiS-thiF/thiG interaction site; other site 879243002874 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 879243002875 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 879243002876 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 879243002877 HlyD family secretion protein; Region: HlyD_3; pfam13437 879243002878 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 879243002879 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879243002880 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879243002881 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 879243002882 WbqC-like protein family; Region: WbqC; pfam08889 879243002883 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 879243002884 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 879243002885 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 879243002886 Catalytic site [active] 879243002887 Peptidase S24-like; Region: Peptidase_S24; pfam00717 879243002888 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 879243002889 dihydrodipicolinate reductase; Provisional; Region: PRK00048 879243002890 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 879243002891 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 879243002892 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 879243002893 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 879243002894 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 879243002895 metal binding site [ion binding]; metal-binding site 879243002896 dimer interface [polypeptide binding]; other site 879243002897 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 879243002898 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 879243002899 putative active site [active] 879243002900 putative NTP binding site [chemical binding]; other site 879243002901 putative nucleic acid binding site [nucleotide binding]; other site 879243002902 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 879243002903 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243002904 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243002905 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 879243002906 Tandemly repeated domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like; cl17916 879243002907 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 879243002908 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 879243002909 active site 879243002910 substrate binding site [chemical binding]; other site 879243002911 Mg2+ binding site [ion binding]; other site 879243002912 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 879243002913 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 879243002914 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 879243002915 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 879243002916 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 879243002917 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 879243002918 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 879243002919 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 879243002920 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 879243002921 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 879243002922 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 879243002923 Walker A/P-loop; other site 879243002924 ATP binding site [chemical binding]; other site 879243002925 Q-loop/lid; other site 879243002926 ABC transporter signature motif; other site 879243002927 Walker B; other site 879243002928 D-loop; other site 879243002929 H-loop/switch region; other site 879243002930 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 879243002931 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 879243002932 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 879243002933 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 879243002934 Transposase; Region: DEDD_Tnp_IS110; pfam01548 879243002935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 879243002936 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 879243002937 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 879243002938 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 879243002939 active site 879243002940 Zn binding site [ion binding]; other site 879243002941 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 879243002942 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 879243002943 putative active site [active] 879243002944 catalytic site [active] 879243002945 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 879243002946 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 879243002947 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 879243002948 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 879243002949 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 879243002950 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 879243002951 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 879243002952 catalytic residue [active] 879243002953 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 879243002954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879243002955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879243002956 peroxiredoxin; Region: AhpC; TIGR03137 879243002957 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 879243002958 dimer interface [polypeptide binding]; other site 879243002959 decamer (pentamer of dimers) interface [polypeptide binding]; other site 879243002960 catalytic triad [active] 879243002961 peroxidatic and resolving cysteines [active] 879243002962 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243002963 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243002964 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 879243002965 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 879243002966 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 879243002967 ATP binding site [chemical binding]; other site 879243002968 Mg2+ binding site [ion binding]; other site 879243002969 G-X-G motif; other site 879243002970 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 879243002971 ATP binding site [chemical binding]; other site 879243002972 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 879243002973 OstA-like protein; Region: OstA_2; pfam13100 879243002974 OstA-like protein; Region: OstA; cl00844 879243002975 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 879243002976 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 879243002977 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 879243002978 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 879243002979 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 879243002980 ATP binding site [chemical binding]; other site 879243002981 putative Mg++ binding site [ion binding]; other site 879243002982 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 879243002983 nucleotide binding region [chemical binding]; other site 879243002984 ATP-binding site [chemical binding]; other site 879243002985 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 879243002986 HRDC domain; Region: HRDC; pfam00570 879243002987 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 879243002988 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 879243002989 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 879243002990 Walker A motif; other site 879243002991 ATP binding site [chemical binding]; other site 879243002992 Walker B motif; other site 879243002993 arginine finger; other site 879243002994 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 879243002995 Clp protease; Region: CLP_protease; pfam00574 879243002996 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 879243002997 oligomer interface [polypeptide binding]; other site 879243002998 active site residues [active] 879243002999 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 879243003000 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003001 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003002 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 879243003003 FeS/SAM binding site; other site 879243003004 Radical SAM superfamily; Region: Radical_SAM; pfam04055 879243003005 DNA polymerase I; Provisional; Region: PRK05755 879243003006 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 879243003007 active site 879243003008 metal binding site 1 [ion binding]; metal-binding site 879243003009 putative 5' ssDNA interaction site; other site 879243003010 metal binding site 3; metal-binding site 879243003011 metal binding site 2 [ion binding]; metal-binding site 879243003012 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 879243003013 putative DNA binding site [nucleotide binding]; other site 879243003014 putative metal binding site [ion binding]; other site 879243003015 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 879243003016 active site 879243003017 catalytic site [active] 879243003018 substrate binding site [chemical binding]; other site 879243003019 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 879243003020 active site 879243003021 DNA binding site [nucleotide binding] 879243003022 catalytic site [active] 879243003023 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 879243003024 trimer interface [polypeptide binding]; other site 879243003025 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 879243003026 active site 879243003027 substrate binding site [chemical binding]; other site 879243003028 CoA binding site [chemical binding]; other site 879243003029 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 879243003030 Response regulator receiver domain; Region: Response_reg; pfam00072 879243003031 active site 879243003032 phosphorylation site [posttranslational modification] 879243003033 intermolecular recognition site; other site 879243003034 dimerization interface [polypeptide binding]; other site 879243003035 LytTr DNA-binding domain; Region: LytTR; smart00850 879243003036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 879243003037 Histidine kinase; Region: His_kinase; pfam06580 879243003038 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 879243003039 ATP binding site [chemical binding]; other site 879243003040 Mg2+ binding site [ion binding]; other site 879243003041 G-X-G motif; other site 879243003042 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003043 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 879243003044 Leucine-rich repeats; other site 879243003045 Substrate binding site [chemical binding]; other site 879243003046 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003047 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003048 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003049 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003050 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003051 Transposase; Region: HTH_Tnp_1; cl17663 879243003052 putative transposase OrfB; Reviewed; Region: PHA02517 879243003053 Integrase core domain; Region: rve; pfam00665 879243003054 Integrase core domain; Region: rve_3; pfam13683 879243003055 Peptidase C10 family; Region: Peptidase_C10; pfam01640 879243003056 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003057 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003058 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003059 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003060 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 879243003061 translation initiation factor IF-2; Region: IF-2; TIGR00487 879243003062 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 879243003063 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 879243003064 G1 box; other site 879243003065 putative GEF interaction site [polypeptide binding]; other site 879243003066 GTP/Mg2+ binding site [chemical binding]; other site 879243003067 Switch I region; other site 879243003068 G2 box; other site 879243003069 G3 box; other site 879243003070 Switch II region; other site 879243003071 G4 box; other site 879243003072 G5 box; other site 879243003073 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 879243003074 Translation-initiation factor 2; Region: IF-2; pfam11987 879243003075 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 879243003076 transcription termination factor NusA; Region: NusA; TIGR01953 879243003077 NusA N-terminal domain; Region: NusA_N; pfam08529 879243003078 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 879243003079 RNA binding site [nucleotide binding]; other site 879243003080 homodimer interface [polypeptide binding]; other site 879243003081 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 879243003082 G-X-X-G motif; other site 879243003083 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 879243003084 G-X-X-G motif; other site 879243003085 Sm and related proteins; Region: Sm_like; cl00259 879243003086 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 879243003087 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 879243003088 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 879243003089 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 879243003090 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 879243003091 TPR motif; other site 879243003092 binding surface 879243003093 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 879243003094 active site 879243003095 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 879243003096 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 879243003097 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 879243003098 Walker A/P-loop; other site 879243003099 ATP binding site [chemical binding]; other site 879243003100 Q-loop/lid; other site 879243003101 ABC transporter signature motif; other site 879243003102 Walker B; other site 879243003103 D-loop; other site 879243003104 H-loop/switch region; other site 879243003105 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 879243003106 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 879243003107 putative ATP binding site [chemical binding]; other site 879243003108 putative substrate interface [chemical binding]; other site 879243003109 YceG-like family; Region: YceG; pfam02618 879243003110 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 879243003111 dimerization interface [polypeptide binding]; other site 879243003112 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 879243003113 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 879243003114 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 879243003115 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 879243003116 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 879243003117 Part of AAA domain; Region: AAA_19; pfam13245 879243003118 Family description; Region: UvrD_C_2; pfam13538 879243003119 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 879243003120 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 879243003121 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879243003122 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 879243003123 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 879243003124 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 879243003125 homotrimer interaction site [polypeptide binding]; other site 879243003126 zinc binding site [ion binding]; other site 879243003127 CDP-binding sites; other site 879243003128 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 879243003129 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 879243003130 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 879243003131 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 879243003132 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 879243003133 LytB protein; Region: LYTB; cl00507 879243003134 cytidylate kinase; Provisional; Region: cmk; PRK00023 879243003135 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 879243003136 CMP-binding site; other site 879243003137 The sites determining sugar specificity; other site 879243003138 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 879243003139 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 879243003140 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 879243003141 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 879243003142 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 879243003143 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 879243003144 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 879243003145 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 879243003146 Domain interface; other site 879243003147 Peptide binding site; other site 879243003148 Active site tetrad [active] 879243003149 heat shock protein 90; Provisional; Region: PRK05218 879243003150 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 879243003151 ATP binding site [chemical binding]; other site 879243003152 Mg2+ binding site [ion binding]; other site 879243003153 G-X-G motif; other site 879243003154 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 879243003155 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 879243003156 Walker A motif; other site 879243003157 ATP binding site [chemical binding]; other site 879243003158 Walker B motif; other site 879243003159 arginine finger; other site 879243003160 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 879243003161 Walker A motif; other site 879243003162 ATP binding site [chemical binding]; other site 879243003163 Walker B motif; other site 879243003164 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 879243003165 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 879243003166 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 879243003167 S-adenosylmethionine binding site [chemical binding]; other site 879243003168 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 879243003169 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 879243003170 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 879243003171 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 879243003172 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 879243003173 ATP-grasp domain; Region: ATP-grasp_4; cl17255 879243003174 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 879243003175 probable substrate binding site [chemical binding]; other site 879243003176 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 879243003177 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 879243003178 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 879243003179 catalytic site [active] 879243003180 subunit interface [polypeptide binding]; other site 879243003181 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 879243003182 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 879243003183 active site 879243003184 membrane protein insertase; Provisional; Region: PRK01318 879243003185 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 879243003186 CTP synthetase; Validated; Region: pyrG; PRK05380 879243003187 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 879243003188 Catalytic site [active] 879243003189 active site 879243003190 UTP binding site [chemical binding]; other site 879243003191 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 879243003192 active site 879243003193 putative oxyanion hole; other site 879243003194 catalytic triad [active] 879243003195 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879243003196 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879243003197 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 879243003198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243003199 Walker A/P-loop; other site 879243003200 ATP binding site [chemical binding]; other site 879243003201 Q-loop/lid; other site 879243003202 ABC transporter signature motif; other site 879243003203 Walker B; other site 879243003204 D-loop; other site 879243003205 H-loop/switch region; other site 879243003206 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243003207 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243003208 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243003209 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 879243003210 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 879243003211 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 879243003212 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 879243003213 replicative DNA helicase; Region: DnaB; TIGR00665 879243003214 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 879243003215 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 879243003216 Walker A motif; other site 879243003217 ATP binding site [chemical binding]; other site 879243003218 Walker B motif; other site 879243003219 DNA binding loops [nucleotide binding] 879243003220 GTP-binding protein LepA; Provisional; Region: PRK05433 879243003221 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 879243003222 G1 box; other site 879243003223 putative GEF interaction site [polypeptide binding]; other site 879243003224 GTP/Mg2+ binding site [chemical binding]; other site 879243003225 Switch I region; other site 879243003226 G2 box; other site 879243003227 G3 box; other site 879243003228 Switch II region; other site 879243003229 G4 box; other site 879243003230 G5 box; other site 879243003231 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 879243003232 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 879243003233 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 879243003234 hypothetical protein; Provisional; Region: PRK12378 879243003235 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 879243003236 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 879243003237 putative tRNA-binding site [nucleotide binding]; other site 879243003238 B3/4 domain; Region: B3_4; pfam03483 879243003239 tRNA synthetase B5 domain; Region: B5; pfam03484 879243003240 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 879243003241 dimer interface [polypeptide binding]; other site 879243003242 motif 1; other site 879243003243 motif 3; other site 879243003244 motif 2; other site 879243003245 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 879243003246 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 879243003247 Mechanosensitive ion channel; Region: MS_channel; pfam00924 879243003248 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 879243003249 Leucine rich repeat; Region: LRR_8; pfam13855 879243003250 thiamine-monophosphate kinase; Region: thiL; TIGR01379 879243003251 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 879243003252 ATP binding site [chemical binding]; other site 879243003253 dimerization interface [polypeptide binding]; other site 879243003254 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 879243003255 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 879243003256 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 879243003257 tandem repeat interface [polypeptide binding]; other site 879243003258 oligomer interface [polypeptide binding]; other site 879243003259 active site residues [active] 879243003260 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 879243003261 tandem repeat interface [polypeptide binding]; other site 879243003262 oligomer interface [polypeptide binding]; other site 879243003263 active site residues [active] 879243003264 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243003265 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003266 LrgB-like family; Region: LrgB; pfam04172 879243003267 LrgA family; Region: LrgA; pfam03788 879243003268 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243003269 Leucine rich repeat; Region: LRR_8; pfam13855 879243003270 Leucine rich repeat; Region: LRR_8; pfam13855 879243003271 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 879243003272 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 879243003273 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 879243003274 FeS/SAM binding site; other site 879243003275 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 879243003276 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 879243003277 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 879243003278 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 879243003279 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 879243003280 dimer interface [polypeptide binding]; other site 879243003281 active site 879243003282 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 879243003283 catalytic residues [active] 879243003284 substrate binding site [chemical binding]; other site 879243003285 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 879243003286 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 879243003287 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 879243003288 HD domain; Region: HD_4; pfam13328 879243003289 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 879243003290 synthetase active site [active] 879243003291 NTP binding site [chemical binding]; other site 879243003292 metal binding site [ion binding]; metal-binding site 879243003293 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 879243003294 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 879243003295 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 879243003296 AAA domain; Region: AAA_26; pfam13500 879243003297 Rubredoxin [Energy production and conversion]; Region: COG1773 879243003298 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 879243003299 iron binding site [ion binding]; other site 879243003300 Outer membrane efflux protein; Region: OEP; pfam02321 879243003301 Outer membrane efflux protein; Region: OEP; pfam02321 879243003302 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 879243003303 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 879243003304 HlyD family secretion protein; Region: HlyD_3; pfam13437 879243003305 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 879243003306 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 879243003307 S-adenosylmethionine synthetase; Validated; Region: PRK05250 879243003308 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 879243003309 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 879243003310 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 879243003311 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 879243003312 metal binding site 2 [ion binding]; metal-binding site 879243003313 putative DNA binding helix; other site 879243003314 metal binding site 1 [ion binding]; metal-binding site 879243003315 structural Zn2+ binding site [ion binding]; other site 879243003316 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 879243003317 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 879243003318 minor groove reading motif; other site 879243003319 helix-hairpin-helix signature motif; other site 879243003320 substrate binding pocket [chemical binding]; other site 879243003321 active site 879243003322 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 879243003323 nudix motif; other site 879243003324 6-phosphofructokinase; Provisional; Region: PRK03202 879243003325 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 879243003326 active site 879243003327 ADP/pyrophosphate binding site [chemical binding]; other site 879243003328 dimerization interface [polypeptide binding]; other site 879243003329 allosteric effector site; other site 879243003330 fructose-1,6-bisphosphate binding site; other site 879243003331 hypothetical protein; Reviewed; Region: PRK00024 879243003332 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 879243003333 MPN+ (JAMM) motif; other site 879243003334 Zinc-binding site [ion binding]; other site 879243003335 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 879243003336 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; cd01983 879243003337 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 879243003338 homodecamer interface [polypeptide binding]; other site 879243003339 GTP cyclohydrolase I; Provisional; Region: PLN03044 879243003340 active site 879243003341 putative catalytic site residues [active] 879243003342 zinc binding site [ion binding]; other site 879243003343 GTP-CH-I/GFRP interaction surface; other site 879243003344 Sporulation related domain; Region: SPOR; pfam05036 879243003345 triosephosphate isomerase; Provisional; Region: PRK14567 879243003346 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 879243003347 substrate binding site [chemical binding]; other site 879243003348 dimer interface [polypeptide binding]; other site 879243003349 catalytic triad [active] 879243003350 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 879243003351 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 879243003352 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 879243003353 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 879243003354 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 879243003355 Walker A motif; other site 879243003356 ATP binding site [chemical binding]; other site 879243003357 Walker B motif; other site 879243003358 arginine finger; other site 879243003359 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 879243003360 Sulfatase; Region: Sulfatase; cl17466 879243003361 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879243003362 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 879243003363 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 879243003364 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 879243003365 active site 879243003366 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 879243003367 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 879243003368 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 879243003369 ATP binding site [chemical binding]; other site 879243003370 Mg2+ binding site [ion binding]; other site 879243003371 G-X-G motif; other site 879243003372 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 879243003373 anchoring element; other site 879243003374 dimer interface [polypeptide binding]; other site 879243003375 ATP binding site [chemical binding]; other site 879243003376 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 879243003377 active site 879243003378 putative metal-binding site [ion binding]; other site 879243003379 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 879243003380 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 879243003381 Methyltransferase domain; Region: Methyltransf_18; pfam12847 879243003382 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879243003383 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 879243003384 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 879243003385 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 879243003386 distal heme binding site [chemical binding]; other site 879243003387 proximal heme binding site [chemical binding]; other site 879243003388 putative dimer interface [polypeptide binding]; other site 879243003389 putative Iron-sulfur protein interface [polypeptide binding]; other site 879243003390 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 879243003391 L-aspartate oxidase; Provisional; Region: PRK06175 879243003392 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 879243003393 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 879243003394 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 879243003395 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 879243003396 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 879243003397 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 879243003398 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 879243003399 membrane ATPase/protein kinase; Provisional; Region: PRK09435 879243003400 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 879243003401 Walker A; other site 879243003402 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 879243003403 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 879243003404 S-adenosylmethionine binding site [chemical binding]; other site 879243003405 Domain of unknown function DUF59; Region: DUF59; pfam01883 879243003406 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 879243003407 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 879243003408 Walker A motif; other site 879243003409 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 879243003410 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 879243003411 catalytic residue [active] 879243003412 putative FPP diphosphate binding site; other site 879243003413 putative FPP binding hydrophobic cleft; other site 879243003414 dimer interface [polypeptide binding]; other site 879243003415 putative IPP diphosphate binding site; other site 879243003416 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 879243003417 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 879243003418 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 879243003419 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 879243003420 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 879243003421 Surface antigen; Region: Bac_surface_Ag; pfam01103 879243003422 periplasmic chaperone; Provisional; Region: PRK10780 879243003423 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 879243003424 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 879243003425 periplasmic chaperone; Provisional; Region: PRK10780 879243003426 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 879243003427 B12 binding site [chemical binding]; other site 879243003428 heterodimer interface [polypeptide binding]; other site 879243003429 cobalt ligand [ion binding]; other site 879243003430 MutL protein; Region: MutL; pfam13941 879243003431 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 879243003432 substrate binding site [chemical binding]; other site 879243003433 B12 cofactor binding site [chemical binding]; other site 879243003434 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 879243003435 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 879243003436 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 879243003437 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 879243003438 dimer interface [polypeptide binding]; other site 879243003439 active site 879243003440 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 879243003441 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 879243003442 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 879243003443 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 879243003444 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 879243003445 primosome assembly protein PriA; Validated; Region: PRK05580 879243003446 putative oxidoreductase; Provisional; Region: PRK12831 879243003447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 879243003448 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879243003449 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 879243003450 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 879243003451 FAD binding pocket [chemical binding]; other site 879243003452 FAD binding motif [chemical binding]; other site 879243003453 phosphate binding motif [ion binding]; other site 879243003454 beta-alpha-beta structure motif; other site 879243003455 NAD binding pocket [chemical binding]; other site 879243003456 Iron coordination center [ion binding]; other site 879243003457 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 879243003458 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 879243003459 active site 879243003460 catalytic site [active] 879243003461 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 879243003462 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 879243003463 active site 879243003464 nucleophile elbow; other site 879243003465 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 879243003466 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 879243003467 putative active site [active] 879243003468 catalytic residue [active] 879243003469 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 879243003470 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 879243003471 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 879243003472 active site 879243003473 NTP binding site [chemical binding]; other site 879243003474 metal binding triad [ion binding]; metal-binding site 879243003475 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 879243003476 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879243003477 Zn2+ binding site [ion binding]; other site 879243003478 Mg2+ binding site [ion binding]; other site 879243003479 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 879243003480 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 879243003481 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 879243003482 Divergent AAA domain; Region: AAA_4; pfam04326 879243003483 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 879243003484 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 879243003485 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243003486 active site 879243003487 HIGH motif; other site 879243003488 nucleotide binding site [chemical binding]; other site 879243003489 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243003490 active site 879243003491 KMSKS motif; other site 879243003492 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 879243003493 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 879243003494 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 879243003495 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 879243003496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879243003497 NAD(P) binding site [chemical binding]; other site 879243003498 active site 879243003499 putative transposase OrfB; Reviewed; Region: PHA02517 879243003500 Integrase core domain; Region: rve; pfam00665 879243003501 Integrase core domain; Region: rve_3; pfam13683 879243003502 Transposase; Region: HTH_Tnp_1; cl17663 879243003503 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 879243003504 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 879243003505 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 879243003506 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 879243003507 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 879243003508 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 879243003509 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 879243003510 N-terminal plug; other site 879243003511 ligand-binding site [chemical binding]; other site 879243003512 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 879243003513 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 879243003514 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243003515 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003516 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 879243003517 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 879243003518 active site 879243003519 trimer interface [polypeptide binding]; other site 879243003520 allosteric site; other site 879243003521 active site lid [active] 879243003522 hexamer (dimer of trimers) interface [polypeptide binding]; other site 879243003523 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 879243003524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 879243003525 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 879243003526 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 879243003527 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 879243003528 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 879243003529 Predicted metalloprotease [General function prediction only]; Region: COG2321 879243003530 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 879243003531 putative hydrolase; Provisional; Region: PRK02113 879243003532 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 879243003533 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 879243003534 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 879243003535 FAD binding domain; Region: FAD_binding_4; pfam01565 879243003536 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 879243003537 Sporulation related domain; Region: SPOR; pfam05036 879243003538 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 879243003539 RuvA N terminal domain; Region: RuvA_N; pfam01330 879243003540 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 879243003541 cell surface protein SprA; Region: surface_SprA; TIGR04189 879243003542 Motility related/secretion protein; Region: SprA_N; pfam14349 879243003543 Motility related/secretion protein; Region: SprA_N; pfam14349 879243003544 Motility related/secretion protein; Region: SprA_N; pfam14349 879243003545 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 879243003546 V-type ATP synthase subunit K; Provisional; Region: PRK09621 879243003547 V-type ATP synthase subunit I; Validated; Region: PRK05771 879243003548 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 879243003549 V-type ATP synthase subunit D; Provisional; Region: PRK02195 879243003550 V-type ATP synthase subunit B; Provisional; Region: PRK02118 879243003551 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 879243003552 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 879243003553 Walker A motif homologous position; other site 879243003554 Walker B motif; other site 879243003555 V-type ATP synthase subunit A; Provisional; Region: PRK04192 879243003556 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 879243003557 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 879243003558 Walker A motif/ATP binding site; other site 879243003559 Walker B motif; other site 879243003560 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 879243003561 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 879243003562 V-type ATP synthase subunit E; Provisional; Region: PRK01558 879243003563 Outer membrane protein Omp28; Region: Omp28; pfam11551 879243003564 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003565 putative transposase OrfB; Reviewed; Region: PHA02517 879243003566 Integrase core domain; Region: rve; pfam00665 879243003567 Integrase core domain; Region: rve_3; pfam13683 879243003568 Transposase; Region: HTH_Tnp_1; cl17663 879243003569 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 879243003570 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 879243003571 Substrate binding site [chemical binding]; other site 879243003572 Leucine rich repeat; Region: LRR_8; pfam13855 879243003573 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 879243003574 Leucine-rich repeats; other site 879243003575 Substrate binding site [chemical binding]; other site 879243003576 Leucine rich repeat; Region: LRR_8; pfam13855 879243003577 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243003578 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 879243003579 DNA protecting protein DprA; Region: dprA; TIGR00732 879243003580 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 879243003581 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 879243003582 dimerization interface [polypeptide binding]; other site 879243003583 ATP binding site [chemical binding]; other site 879243003584 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 879243003585 dimerization interface [polypeptide binding]; other site 879243003586 ATP binding site [chemical binding]; other site 879243003587 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 879243003588 putative active site [active] 879243003589 catalytic triad [active] 879243003590 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 879243003591 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 879243003592 Uncharacterized conserved protein [Function unknown]; Region: COG1479 879243003593 Protein of unknown function DUF262; Region: DUF262; pfam03235 879243003594 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 879243003595 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 879243003596 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 879243003597 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243003598 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243003599 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 879243003600 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 879243003601 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 879243003602 catalytic site [active] 879243003603 putative active site [active] 879243003604 putative substrate binding site [chemical binding]; other site 879243003605 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 879243003606 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 879243003607 putative RNA binding site [nucleotide binding]; other site 879243003608 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 879243003609 S-adenosylmethionine binding site [chemical binding]; other site 879243003610 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 879243003611 OsmC-like protein; Region: OsmC; pfam02566 879243003612 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 879243003613 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 879243003614 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 879243003615 active site 879243003616 dimer interface [polypeptide binding]; other site 879243003617 effector binding site; other site 879243003618 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 879243003619 TSCPD domain; Region: TSCPD; cl14834 879243003620 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 879243003621 G1 box; other site 879243003622 GTP/Mg2+ binding site [chemical binding]; other site 879243003623 Switch I region; other site 879243003624 G2 box; other site 879243003625 G3 box; other site 879243003626 Switch II region; other site 879243003627 G4 box; other site 879243003628 G5 box; other site 879243003629 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 879243003630 Zn2+ binding site [ion binding]; other site 879243003631 Mg2+ binding site [ion binding]; other site 879243003632 MG2 domain; Region: A2M_N; pfam01835 879243003633 Alpha-2-macroglobulin family; Region: A2M; pfam00207 879243003634 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 879243003635 binding surface 879243003636 TPR motif; other site 879243003637 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 879243003638 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 879243003639 Uncharacterized conserved protein [Function unknown]; Region: COG3189 879243003640 Uncharacterized conserved protein [Function unknown]; Region: COG2461 879243003641 Family of unknown function (DUF438); Region: DUF438; pfam04282 879243003642 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 879243003643 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 879243003644 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 879243003645 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 879243003646 active site 879243003647 metal binding site [ion binding]; metal-binding site 879243003648 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 879243003649 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 879243003650 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 879243003651 generic binding surface II; other site 879243003652 generic binding surface I; other site 879243003653 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 879243003654 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 879243003655 Walker A motif; other site 879243003656 ATP binding site [chemical binding]; other site 879243003657 Walker B motif; other site 879243003658 arginine finger; other site 879243003659 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 879243003660 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 879243003661 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 879243003662 dimer interface [polypeptide binding]; other site 879243003663 phosphorylation site [posttranslational modification] 879243003664 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 879243003665 ATP binding site [chemical binding]; other site 879243003666 Mg2+ binding site [ion binding]; other site 879243003667 G-X-G motif; other site 879243003668 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879243003669 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 879243003670 active site 879243003671 phosphorylation site [posttranslational modification] 879243003672 intermolecular recognition site; other site 879243003673 dimerization interface [polypeptide binding]; other site 879243003674 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 879243003675 DNA binding site [nucleotide binding] 879243003676 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 879243003677 PhoU domain; Region: PhoU; pfam01895 879243003678 PhoU domain; Region: PhoU; pfam01895 879243003679 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 879243003680 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 879243003681 Walker A/P-loop; other site 879243003682 ATP binding site [chemical binding]; other site 879243003683 Q-loop/lid; other site 879243003684 ABC transporter signature motif; other site 879243003685 Walker B; other site 879243003686 D-loop; other site 879243003687 H-loop/switch region; other site 879243003688 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 879243003689 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 879243003690 dimer interface [polypeptide binding]; other site 879243003691 conserved gate region; other site 879243003692 putative PBP binding loops; other site 879243003693 ABC-ATPase subunit interface; other site 879243003694 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 879243003695 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 879243003696 dimer interface [polypeptide binding]; other site 879243003697 conserved gate region; other site 879243003698 putative PBP binding loops; other site 879243003699 ABC-ATPase subunit interface; other site 879243003700 PBP superfamily domain; Region: PBP_like_2; cl17296 879243003701 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 879243003702 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 879243003703 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 879243003704 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 879243003705 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 879243003706 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 879243003707 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 879243003708 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 879243003709 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 879243003710 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243003711 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243003712 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243003713 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243003714 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243003715 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879243003716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879243003717 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 879243003718 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 879243003719 DNA binding residues [nucleotide binding] 879243003720 dimerization interface [polypeptide binding]; other site 879243003721 GrpE; Region: GrpE; pfam01025 879243003722 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 879243003723 dimer interface [polypeptide binding]; other site 879243003724 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 879243003725 chaperone protein DnaJ; Provisional; Region: PRK14289 879243003726 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 879243003727 HSP70 interaction site [polypeptide binding]; other site 879243003728 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 879243003729 Zn binding sites [ion binding]; other site 879243003730 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 879243003731 dimer interface [polypeptide binding]; other site 879243003732 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 879243003733 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 879243003734 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 879243003735 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 879243003736 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 879243003737 nucleotide binding region [chemical binding]; other site 879243003738 ATP-binding site [chemical binding]; other site 879243003739 SEC-C motif; Region: SEC-C; pfam02810 879243003740 hypothetical protein; Provisional; Region: PRK11820 879243003741 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 879243003742 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 879243003743 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 879243003744 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 879243003745 catalytic site [active] 879243003746 G-X2-G-X-G-K; other site 879243003747 Surface antigen; Region: Bac_surface_Ag; pfam01103 879243003748 Family of unknown function (DUF490); Region: DUF490; pfam04357 879243003749 Transposase [DNA replication, recombination, and repair]; Region: COG5421 879243003750 Peptidase family C69; Region: Peptidase_C69; cl17793 879243003751 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 879243003752 Predicted membrane protein [Function unknown]; Region: COG2855 879243003753 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243003754 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243003755 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 879243003756 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 879243003757 cell division protein FtsZ; Validated; Region: PRK09330 879243003758 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 879243003759 nucleotide binding site [chemical binding]; other site 879243003760 SulA interaction site; other site 879243003761 Cell division protein FtsA; Region: FtsA; smart00842 879243003762 Cell division protein FtsA; Region: FtsA; pfam14450 879243003763 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 879243003764 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879243003765 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879243003766 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879243003767 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 879243003768 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 879243003769 active site 879243003770 homodimer interface [polypeptide binding]; other site 879243003771 Transposase; Region: HTH_Tnp_1; cl17663 879243003772 Integrase core domain; Region: rve; pfam00665 879243003773 Integrase core domain; Region: rve_3; pfam13683 879243003774 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 879243003775 non-specific DNA binding site [nucleotide binding]; other site 879243003776 salt bridge; other site 879243003777 sequence-specific DNA binding site [nucleotide binding]; other site 879243003778 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 879243003779 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 879243003780 FAD binding pocket [chemical binding]; other site 879243003781 FAD binding motif [chemical binding]; other site 879243003782 phosphate binding motif [ion binding]; other site 879243003783 beta-alpha-beta structure motif; other site 879243003784 NAD binding pocket [chemical binding]; other site 879243003785 Iron coordination center [ion binding]; other site 879243003786 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 879243003787 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 879243003788 heterodimer interface [polypeptide binding]; other site 879243003789 active site 879243003790 FMN binding site [chemical binding]; other site 879243003791 homodimer interface [polypeptide binding]; other site 879243003792 substrate binding site [chemical binding]; other site 879243003793 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 879243003794 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 879243003795 FMN binding site [chemical binding]; other site 879243003796 substrate binding site [chemical binding]; other site 879243003797 putative catalytic residue [active] 879243003798 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 879243003799 dihydrodipicolinate synthase; Region: dapA; TIGR00674 879243003800 dimer interface [polypeptide binding]; other site 879243003801 active site 879243003802 catalytic residue [active] 879243003803 recombination protein F; Reviewed; Region: recF; PRK00064 879243003804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243003805 Walker A/P-loop; other site 879243003806 ATP binding site [chemical binding]; other site 879243003807 Q-loop/lid; other site 879243003808 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 879243003809 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 879243003810 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 879243003811 catalytic residue [active] 879243003812 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 879243003813 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 879243003814 NAD binding site [chemical binding]; other site 879243003815 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 879243003816 Uncharacterized conserved protein [Function unknown]; Region: COG4198 879243003817 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 879243003818 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 879243003819 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 879243003820 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 879243003821 active site 879243003822 dimer interface [polypeptide binding]; other site 879243003823 motif 1; other site 879243003824 motif 2; other site 879243003825 motif 3; other site 879243003826 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 879243003827 anticodon binding site; other site 879243003828 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 879243003829 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 879243003830 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 879243003831 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 879243003832 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 879243003833 23S rRNA binding site [nucleotide binding]; other site 879243003834 L21 binding site [polypeptide binding]; other site 879243003835 L13 binding site [polypeptide binding]; other site 879243003836 adenylosuccinate lyase; Provisional; Region: PRK09285 879243003837 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 879243003838 tetramer interface [polypeptide binding]; other site 879243003839 active site 879243003840 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 879243003841 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 879243003842 RNA binding surface [nucleotide binding]; other site 879243003843 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 879243003844 active site 879243003845 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 879243003846 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 879243003847 putative dimer interface [polypeptide binding]; other site 879243003848 putative anticodon binding site; other site 879243003849 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 879243003850 motif 1; other site 879243003851 dimer interface [polypeptide binding]; other site 879243003852 active site 879243003853 motif 2; other site 879243003854 motif 3; other site 879243003855 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 879243003856 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 879243003857 dimerization interface 3.5A [polypeptide binding]; other site 879243003858 active site 879243003859 DNA topoisomerase I; Validated; Region: PRK05582 879243003860 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 879243003861 active site 879243003862 interdomain interaction site; other site 879243003863 putative metal-binding site [ion binding]; other site 879243003864 nucleotide binding site [chemical binding]; other site 879243003865 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 879243003866 domain I; other site 879243003867 DNA binding groove [nucleotide binding] 879243003868 phosphate binding site [ion binding]; other site 879243003869 domain II; other site 879243003870 domain III; other site 879243003871 nucleotide binding site [chemical binding]; other site 879243003872 catalytic site [active] 879243003873 domain IV; other site 879243003874 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 879243003875 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 879243003876 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 879243003877 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 879243003878 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 879243003879 TPP-binding site [chemical binding]; other site 879243003880 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 879243003881 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 879243003882 dimer interface [polypeptide binding]; other site 879243003883 PYR/PP interface [polypeptide binding]; other site 879243003884 TPP binding site [chemical binding]; other site 879243003885 substrate binding site [chemical binding]; other site 879243003886 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 879243003887 Ferredoxin [Energy production and conversion]; Region: COG1146 879243003888 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 879243003889 binding surface 879243003890 TPR motif; other site 879243003891 TPR repeat; Region: TPR_11; pfam13414 879243003892 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 879243003893 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 879243003894 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 879243003895 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 879243003896 CoenzymeA binding site [chemical binding]; other site 879243003897 subunit interaction site [polypeptide binding]; other site 879243003898 PHB binding site; other site 879243003899 peptidase T; Region: peptidase-T; TIGR01882 879243003900 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 879243003901 metal binding site [ion binding]; metal-binding site 879243003902 dimer interface [polypeptide binding]; other site 879243003903 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 879243003904 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 879243003905 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 879243003906 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 879243003907 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 879243003908 putative active site [active] 879243003909 PhoH-like protein; Region: PhoH; pfam02562 879243003910 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 879243003911 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 879243003912 active site 879243003913 substrate binding site [chemical binding]; other site 879243003914 metal binding site [ion binding]; metal-binding site 879243003915 Tetratricopeptide repeat; Region: TPR_12; pfam13424 879243003916 Phosphoglycerate kinase; Region: PGK; pfam00162 879243003917 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 879243003918 substrate binding site [chemical binding]; other site 879243003919 hinge regions; other site 879243003920 ADP binding site [chemical binding]; other site 879243003921 catalytic site [active] 879243003922 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 879243003923 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879243003924 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879243003925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243003926 Walker A/P-loop; other site 879243003927 ATP binding site [chemical binding]; other site 879243003928 Q-loop/lid; other site 879243003929 ABC transporter signature motif; other site 879243003930 Walker B; other site 879243003931 D-loop; other site 879243003932 H-loop/switch region; other site 879243003933 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879243003934 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879243003935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243003936 Walker A/P-loop; other site 879243003937 ATP binding site [chemical binding]; other site 879243003938 Q-loop/lid; other site 879243003939 ABC transporter signature motif; other site 879243003940 Walker B; other site 879243003941 D-loop; other site 879243003942 H-loop/switch region; other site 879243003943 glutamate dehydrogenase; Provisional; Region: PRK14030 879243003944 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 879243003945 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 879243003946 NAD(P) binding site [chemical binding]; other site 879243003947 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 879243003948 ligand binding site [chemical binding]; other site 879243003949 active site 879243003950 UGI interface [polypeptide binding]; other site 879243003951 catalytic site [active] 879243003952 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 879243003953 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 879243003954 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 879243003955 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 879243003956 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 879243003957 dimer interface [polypeptide binding]; other site 879243003958 active site 879243003959 metal binding site [ion binding]; metal-binding site 879243003960 exopolyphosphatase; Region: exo_poly_only; TIGR03706 879243003961 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 879243003962 polyphosphate kinase; Provisional; Region: PRK05443 879243003963 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 879243003964 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 879243003965 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 879243003966 domain interface [polypeptide binding]; other site 879243003967 active site 879243003968 catalytic site [active] 879243003969 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 879243003970 putative active site [active] 879243003971 catalytic site [active] 879243003972 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 879243003973 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 879243003974 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 879243003975 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 879243003976 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 879243003977 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 879243003978 dimer interface [polypeptide binding]; other site 879243003979 active site 879243003980 CoA binding pocket [chemical binding]; other site 879243003981 GTPase Era; Reviewed; Region: era; PRK00089 879243003982 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 879243003983 G1 box; other site 879243003984 GTP/Mg2+ binding site [chemical binding]; other site 879243003985 Switch I region; other site 879243003986 G2 box; other site 879243003987 Switch II region; other site 879243003988 G3 box; other site 879243003989 G4 box; other site 879243003990 G5 box; other site 879243003991 KH domain; Region: KH_2; pfam07650 879243003992 GTP-binding protein Der; Reviewed; Region: PRK00093 879243003993 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 879243003994 G1 box; other site 879243003995 GTP/Mg2+ binding site [chemical binding]; other site 879243003996 Switch I region; other site 879243003997 G2 box; other site 879243003998 Switch II region; other site 879243003999 G3 box; other site 879243004000 G4 box; other site 879243004001 G5 box; other site 879243004002 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 879243004003 G1 box; other site 879243004004 GTP/Mg2+ binding site [chemical binding]; other site 879243004005 Switch I region; other site 879243004006 G2 box; other site 879243004007 G3 box; other site 879243004008 Switch II region; other site 879243004009 G4 box; other site 879243004010 G5 box; other site 879243004011 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 879243004012 substrate binding site; other site 879243004013 dimer interface; other site 879243004014 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 879243004015 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 879243004016 generic binding surface II; other site 879243004017 ssDNA binding site; other site 879243004018 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 879243004019 ATP binding site [chemical binding]; other site 879243004020 putative Mg++ binding site [ion binding]; other site 879243004021 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 879243004022 nucleotide binding region [chemical binding]; other site 879243004023 ATP-binding site [chemical binding]; other site 879243004024 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 879243004025 active sites [active] 879243004026 tetramer interface [polypeptide binding]; other site 879243004027 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 879243004028 imidazolonepropionase; Validated; Region: PRK09356 879243004029 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 879243004030 active site 879243004031 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 879243004032 four helix bundle protein; Region: TIGR02436 879243004033 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 879243004034 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 879243004035 Formiminotransferase domain; Region: FTCD; pfam02971 879243004036 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 879243004037 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879243004038 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879243004039 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 879243004040 active site 879243004041 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 879243004042 dimer interface [polypeptide binding]; other site 879243004043 substrate binding site [chemical binding]; other site 879243004044 catalytic residues [active] 879243004045 GSCFA family; Region: GSCFA; pfam08885 879243004046 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 879243004047 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 879243004048 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 879243004049 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 879243004050 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 879243004051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 879243004052 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 879243004053 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 879243004054 catalytic core [active] 879243004055 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 879243004056 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 879243004057 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 879243004058 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 879243004059 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 879243004060 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 879243004061 dimerization interface [polypeptide binding]; other site 879243004062 putative DNA binding site [nucleotide binding]; other site 879243004063 putative Zn2+ binding site [ion binding]; other site 879243004064 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 879243004065 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 879243004066 Family description; Region: DsbD_2; pfam13386 879243004067 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 879243004068 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 879243004069 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 879243004070 P loop; other site 879243004071 Nucleotide binding site [chemical binding]; other site 879243004072 DTAP/Switch II; other site 879243004073 Switch I; other site 879243004074 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 879243004075 P loop; other site 879243004076 Nucleotide binding site [chemical binding]; other site 879243004077 DTAP/Switch II; other site 879243004078 Switch I; other site 879243004079 Low molecular weight phosphatase family; Region: LMWPc; cl00105 879243004080 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 879243004081 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 879243004082 arsenical-resistance protein; Region: acr3; TIGR00832 879243004083 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 879243004084 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879243004085 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879243004086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243004087 Walker A/P-loop; other site 879243004088 ATP binding site [chemical binding]; other site 879243004089 Q-loop/lid; other site 879243004090 ABC transporter signature motif; other site 879243004091 Walker B; other site 879243004092 D-loop; other site 879243004093 H-loop/switch region; other site 879243004094 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 879243004095 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 879243004096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243004097 Walker A/P-loop; other site 879243004098 ATP binding site [chemical binding]; other site 879243004099 Q-loop/lid; other site 879243004100 ABC transporter signature motif; other site 879243004101 Walker B; other site 879243004102 D-loop; other site 879243004103 H-loop/switch region; other site 879243004104 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 879243004105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879243004106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879243004107 YWFCY protein; Region: YWFCY; pfam14293 879243004108 YwiC-like protein; Region: YwiC; pfam14256 879243004109 AAA-like domain; Region: AAA_10; pfam12846 879243004110 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 879243004111 Cupin domain; Region: Cupin_2; cl17218 879243004112 Uncharacterized conserved protein [Function unknown]; Region: COG2461 879243004113 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 879243004114 PcfK-like protein; Region: PcfK; pfam14058 879243004115 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 879243004116 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 879243004117 N-terminal plug; other site 879243004118 ligand-binding site [chemical binding]; other site 879243004119 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 879243004120 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 879243004121 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 879243004122 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 879243004123 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 879243004124 Int/Topo IB signature motif; other site 879243004125 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 879243004126 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 879243004127 FeS/SAM binding site; other site 879243004128 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 879243004129 ATP cone domain; Region: ATP-cone; pfam03477 879243004130 Class III ribonucleotide reductase; Region: RNR_III; cd01675 879243004131 effector binding site; other site 879243004132 active site 879243004133 Zn binding site [ion binding]; other site 879243004134 glycine loop; other site 879243004135 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 879243004136 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 879243004137 Potassium binding sites [ion binding]; other site 879243004138 Cesium cation binding sites [ion binding]; other site 879243004139 Transposase; Region: HTH_Tnp_1; cl17663 879243004140 putative transposase OrfB; Reviewed; Region: PHA02517 879243004141 Integrase core domain; Region: rve; pfam00665 879243004142 Integrase core domain; Region: rve_3; pfam13683 879243004143 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 879243004144 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 879243004145 NAD binding site [chemical binding]; other site 879243004146 homodimer interface [polypeptide binding]; other site 879243004147 active site 879243004148 substrate binding site [chemical binding]; other site 879243004149 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 879243004150 lipoyl attachment site [posttranslational modification]; other site 879243004151 AIR carboxylase; Region: AIRC; pfam00731 879243004152 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 879243004153 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 879243004154 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 879243004155 trimer interface [polypeptide binding]; other site 879243004156 active site 879243004157 Tetratricopeptide repeat; Region: TPR_12; pfam13424 879243004158 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 879243004159 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 879243004160 Peptidase family M23; Region: Peptidase_M23; pfam01551 879243004161 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 879243004162 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 879243004163 active site 879243004164 Riboflavin kinase; Region: Flavokinase; pfam01687 879243004165 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 879243004166 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 879243004167 Bacterial sugar transferase; Region: Bac_transf; pfam02397 879243004168 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 879243004169 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 879243004170 Cl- selectivity filter; other site 879243004171 Cl- binding residues [ion binding]; other site 879243004172 pore gating glutamate residue; other site 879243004173 dimer interface [polypeptide binding]; other site 879243004174 FOG: CBS domain [General function prediction only]; Region: COG0517 879243004175 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 879243004176 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 879243004177 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 879243004178 putative active site [active] 879243004179 substrate binding site [chemical binding]; other site 879243004180 putative cosubstrate binding site; other site 879243004181 catalytic site [active] 879243004182 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 879243004183 substrate binding site [chemical binding]; other site 879243004184 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 879243004185 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 879243004186 putative active site [active] 879243004187 helicase 45; Provisional; Region: PTZ00424 879243004188 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 879243004189 ATP binding site [chemical binding]; other site 879243004190 Mg++ binding site [ion binding]; other site 879243004191 motif III; other site 879243004192 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 879243004193 nucleotide binding region [chemical binding]; other site 879243004194 ATP-binding site [chemical binding]; other site 879243004195 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 879243004196 RNA binding site [nucleotide binding]; other site 879243004197 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 879243004198 elongation factor G; Reviewed; Region: PRK12740 879243004199 G1 box; other site 879243004200 putative GEF interaction site [polypeptide binding]; other site 879243004201 GTP/Mg2+ binding site [chemical binding]; other site 879243004202 Switch I region; other site 879243004203 G2 box; other site 879243004204 G3 box; other site 879243004205 Switch II region; other site 879243004206 G4 box; other site 879243004207 G5 box; other site 879243004208 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 879243004209 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 879243004210 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 879243004211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 879243004212 Transposase; Region: DDE_Tnp_ISL3; pfam01610 879243004213 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 879243004214 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 879243004215 phosphodiesterase YaeI; Provisional; Region: PRK11340 879243004216 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 879243004217 putative active site [active] 879243004218 putative metal binding site [ion binding]; other site 879243004219 Ferrochelatase; Region: Ferrochelatase; pfam00762 879243004220 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 879243004221 active site 879243004222 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 879243004223 active site 879243004224 N-terminal domain interface [polypeptide binding]; other site 879243004225 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243004226 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243004227 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 879243004228 Transposase; Region: DEDD_Tnp_IS110; pfam01548 879243004229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 879243004230 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 879243004231 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243004232 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 879243004233 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 879243004234 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243004235 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 879243004236 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 879243004237 S-adenosylmethionine binding site [chemical binding]; other site 879243004238 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 879243004239 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 879243004240 FMN binding site [chemical binding]; other site 879243004241 active site 879243004242 catalytic residues [active] 879243004243 substrate binding site [chemical binding]; other site 879243004244 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 879243004245 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 879243004246 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 879243004247 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 879243004248 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 879243004249 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 879243004250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 879243004251 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 879243004252 active site 879243004253 dimerization interface [polypeptide binding]; other site 879243004254 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 879243004255 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 879243004256 trimer interface [polypeptide binding]; other site 879243004257 active site 879243004258 G bulge; other site 879243004259 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 879243004260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 879243004261 NAD(P) binding site [chemical binding]; other site 879243004262 active site 879243004263 acyl-CoA synthetase; Validated; Region: PRK07788 879243004264 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 879243004265 acyl-activating enzyme (AAE) consensus motif; other site 879243004266 AMP binding site [chemical binding]; other site 879243004267 active site 879243004268 CoA binding site [chemical binding]; other site 879243004269 Protein of unknown function (DUF721); Region: DUF721; pfam05258 879243004270 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 879243004271 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 879243004272 Ligand Binding Site [chemical binding]; other site 879243004273 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 879243004274 Ligand Binding Site [chemical binding]; other site 879243004275 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 879243004276 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 879243004277 S-adenosylmethionine binding site [chemical binding]; other site 879243004278 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 879243004279 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 879243004280 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 879243004281 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 879243004282 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 879243004283 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 879243004284 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 879243004285 putative acyl-acceptor binding pocket; other site 879243004286 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 879243004287 Low molecular weight phosphatase family; Region: LMWPc; cd00115 879243004288 active site 879243004289 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 879243004290 Sulfatase; Region: Sulfatase; cl17466 879243004291 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 879243004292 Sulfatase; Region: Sulfatase; cl17466 879243004293 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 879243004294 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 879243004295 homodimer interface [polypeptide binding]; other site 879243004296 metal binding site [ion binding]; metal-binding site 879243004297 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 879243004298 homodimer interface [polypeptide binding]; other site 879243004299 active site 879243004300 putative chemical substrate binding site [chemical binding]; other site 879243004301 metal binding site [ion binding]; metal-binding site 879243004302 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 879243004303 Methyltransferase domain; Region: Methyltransf_23; pfam13489 879243004304 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 879243004305 S-adenosylmethionine binding site [chemical binding]; other site 879243004306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 879243004307 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 879243004308 Malic enzyme, N-terminal domain; Region: malic; pfam00390 879243004309 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 879243004310 putative NAD(P) binding site [chemical binding]; other site 879243004311 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 879243004312 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 879243004313 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 879243004314 catalytic residue [active] 879243004315 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 879243004316 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 879243004317 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243004318 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 879243004319 Recombination protein O N terminal; Region: RecO_N; pfam11967 879243004320 Recombination protein O C terminal; Region: RecO_C; pfam02565 879243004321 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 879243004322 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 879243004323 motif II; other site 879243004324 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 879243004325 Predicted methyltransferases [General function prediction only]; Region: COG0313 879243004326 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 879243004327 putative SAM binding site [chemical binding]; other site 879243004328 putative homodimer interface [polypeptide binding]; other site 879243004329 Uncharacterized conserved protein [Function unknown]; Region: COG1739 879243004330 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 879243004331 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 879243004332 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 879243004333 CAAX protease self-immunity; Region: Abi; pfam02517 879243004334 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 879243004335 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879243004336 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 879243004337 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 879243004338 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 879243004339 ligand binding site [chemical binding]; other site 879243004340 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 879243004341 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 879243004342 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 879243004343 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 879243004344 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 879243004345 RimM N-terminal domain; Region: RimM; pfam01782 879243004346 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 879243004347 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 879243004348 hinge; other site 879243004349 active site 879243004350 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 879243004351 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 879243004352 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 879243004353 active site 879243004354 dimer interface [polypeptide binding]; other site 879243004355 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 879243004356 dimer interface [polypeptide binding]; other site 879243004357 active site 879243004358 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 879243004359 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 879243004360 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 879243004361 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 879243004362 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 879243004363 dimer interface [polypeptide binding]; other site 879243004364 putative anticodon binding site; other site 879243004365 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 879243004366 motif 1; other site 879243004367 active site 879243004368 motif 2; other site 879243004369 motif 3; other site 879243004370 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 879243004371 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 879243004372 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 879243004373 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 879243004374 Repair protein; Region: Repair_PSII; pfam04536 879243004375 LemA family; Region: LemA; pfam04011 879243004376 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 879243004377 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 879243004378 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 879243004379 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 879243004380 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 879243004381 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 879243004382 Putative phosphatase (DUF442); Region: DUF442; cl17385 879243004383 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 879243004384 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 879243004385 ATP binding site [chemical binding]; other site 879243004386 Mg2+ binding site [ion binding]; other site 879243004387 G-X-G motif; other site 879243004388 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 879243004389 ATP binding site [chemical binding]; other site 879243004390 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 879243004391 active site 879243004392 putative metal-binding site [ion binding]; other site 879243004393 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 879243004394 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 879243004395 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 879243004396 active site 879243004397 nucleotide binding site [chemical binding]; other site 879243004398 HIGH motif; other site 879243004399 KMSKS motif; other site 879243004400 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 879243004401 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 879243004402 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879243004403 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 879243004404 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 879243004405 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 879243004406 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 879243004407 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 879243004408 Cna protein B-type domain; Region: Cna_B_2; pfam13715 879243004409 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 879243004410 TrkA-C domain; Region: TrkA_C; pfam02080 879243004411 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 879243004412 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 879243004413 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 879243004414 active site 879243004415 phosphorylation site [posttranslational modification] 879243004416 intermolecular recognition site; other site 879243004417 dimerization interface [polypeptide binding]; other site 879243004418 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 879243004419 DNA binding site [nucleotide binding] 879243004420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 879243004421 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 879243004422 dimer interface [polypeptide binding]; other site 879243004423 phosphorylation site [posttranslational modification] 879243004424 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 879243004425 ATP binding site [chemical binding]; other site 879243004426 Mg2+ binding site [ion binding]; other site 879243004427 G-X-G motif; other site 879243004428 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 879243004429 catalytic core [active] 879243004430 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 879243004431 RNA binding surface [nucleotide binding]; other site 879243004432 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 879243004433 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 879243004434 HIGH motif; other site 879243004435 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 879243004436 active site 879243004437 KMSKS motif; other site 879243004438 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 879243004439 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 879243004440 phosphoserine phosphatase SerB; Region: serB; TIGR00338 879243004441 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 879243004442 motif II; other site 879243004443 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 879243004444 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 879243004445 methionine sulfoxide reductase B; Provisional; Region: PRK00222 879243004446 SelR domain; Region: SelR; pfam01641 879243004447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 879243004448 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 879243004449 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 879243004450 metal-binding site 879243004451 DNA gyrase subunit A; Validated; Region: PRK05560 879243004452 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 879243004453 CAP-like domain; other site 879243004454 active site 879243004455 primary dimer interface [polypeptide binding]; other site 879243004456 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879243004457 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879243004458 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879243004459 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879243004460 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879243004461 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 879243004462 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 879243004463 binding surface 879243004464 Tetratricopeptide repeat; Region: TPR_16; pfam13432 879243004465 TPR motif; other site 879243004466 Tetratricopeptide repeat; Region: TPR_16; pfam13432 879243004467 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 879243004468 binding surface 879243004469 TPR motif; other site 879243004470 GH3 auxin-responsive promoter; Region: GH3; pfam03321 879243004471 AAA domain; Region: AAA_21; pfam13304 879243004472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243004473 ABC transporter signature motif; other site 879243004474 Walker B; other site 879243004475 D-loop; other site 879243004476 H-loop/switch region; other site 879243004477 putative transposase OrfB; Reviewed; Region: PHA02517 879243004478 Integrase core domain; Region: rve; pfam00665 879243004479 Integrase core domain; Region: rve_3; pfam13683 879243004480 Transposase; Region: HTH_Tnp_1; cl17663 879243004481 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 879243004482 non-specific DNA binding site [nucleotide binding]; other site 879243004483 salt bridge; other site 879243004484 sequence-specific DNA binding site [nucleotide binding]; other site 879243004485 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 879243004486 Divergent AAA domain; Region: AAA_4; pfam04326 879243004487 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 879243004488 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 879243004489 Protein of unknown function DUF262; Region: DUF262; pfam03235 879243004490 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 879243004491 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 879243004492 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 879243004493 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 879243004494 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 879243004495 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 879243004496 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 879243004497 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 879243004498 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 879243004499 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 879243004500 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 879243004501 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 879243004502 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 879243004503 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 879243004504 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 879243004505 Conjugative transposon protein TraO; Region: TraO; pfam10626 879243004506 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 879243004507 HNH endonuclease; Region: HNH_5; pfam14279 879243004508 PcfJ-like protein; Region: PcfJ; pfam14284 879243004509 PcfK-like protein; Region: PcfK; pfam14058 879243004510 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 879243004511 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 879243004512 Int/Topo IB signature motif; other site 879243004513 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 879243004514 Ferritin-like domain; Region: Ferritin; pfam00210 879243004515 ferroxidase diiron center [ion binding]; other site 879243004516 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 879243004517 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 879243004518 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 879243004519 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 879243004520 active site 879243004521 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 879243004522 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 879243004523 substrate binding pocket [chemical binding]; other site 879243004524 chain length determination region; other site 879243004525 substrate-Mg2+ binding site; other site 879243004526 catalytic residues [active] 879243004527 aspartate-rich region 1; other site 879243004528 active site lid residues [active] 879243004529 aspartate-rich region 2; other site 879243004530 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 879243004531 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 879243004532 Major Facilitator Superfamily; Region: MFS_1; pfam07690 879243004533 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 879243004534 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 879243004535 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 879243004536 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 879243004537 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 879243004538 GDP-binding site [chemical binding]; other site 879243004539 ACT binding site; other site 879243004540 IMP binding site; other site 879243004541 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 879243004542 putative DNA binding helix; other site 879243004543 dimer interface [polypeptide binding]; other site 879243004544 structural Zn2+ binding site [ion binding]; other site 879243004545 metal binding site 1 [ion binding]; metal-binding site 879243004546 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004547 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004548 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004549 Leucine rich repeat; Region: LRR_8; pfam13855 879243004550 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 879243004551 Leucine-rich repeats; other site 879243004552 Substrate binding site [chemical binding]; other site 879243004553 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004554 Leucine rich repeat; Region: LRR_8; pfam13855 879243004555 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004556 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004557 Leucine rich repeat; Region: LRR_8; pfam13855 879243004558 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243004559 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 879243004560 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 879243004561 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 879243004562 Ion channel; Region: Ion_trans_2; pfam07885 879243004563 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 879243004564 putative substrate binding pocket [chemical binding]; other site 879243004565 AC domain interface; other site 879243004566 catalytic triad [active] 879243004567 AB domain interface; other site 879243004568 interchain disulfide; other site 879243004569 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 879243004570 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243004571 ligand binding site [chemical binding]; other site 879243004572 tellurium resistance terB-like protein; Region: terB_like; cd07177 879243004573 metal binding site [ion binding]; metal-binding site 879243004574 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 879243004575 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243004576 ligand binding site [chemical binding]; other site 879243004577 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 879243004578 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 879243004579 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 879243004580 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 879243004581 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 879243004582 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 879243004583 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 879243004584 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 879243004585 GldM N-terminal domain; Region: GldM_N; pfam12081 879243004586 GldM C-terminal domain; Region: GldM_C; pfam12080 879243004587 gliding motility associated protien GldN; Region: GldN; TIGR03523 879243004588 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 879243004589 Leucine rich repeat; Region: LRR_8; pfam13855 879243004590 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243004591 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243004592 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243004593 Pantoate-beta-alanine ligase; Region: PanC; cd00560 879243004594 pantoate--beta-alanine ligase; Region: panC; TIGR00018 879243004595 active site 879243004596 ATP-binding site [chemical binding]; other site 879243004597 pantoate-binding site; other site 879243004598 HXXH motif; other site 879243004599 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 879243004600 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 879243004601 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 879243004602 protein binding site [polypeptide binding]; other site 879243004603 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 879243004604 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 879243004605 protein binding site [polypeptide binding]; other site 879243004606 Competence-damaged protein; Region: CinA; pfam02464 879243004607 UGMP family protein; Validated; Region: PRK09604 879243004608 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 879243004609 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 879243004610 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 879243004611 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 879243004612 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 879243004613 dimerization interface [polypeptide binding]; other site 879243004614 active site 879243004615 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 879243004616 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 879243004617 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 879243004618 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 879243004619 transcription antitermination factor NusB; Region: nusB; TIGR01951 879243004620 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 879243004621 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 879243004622 MutS domain III; Region: MutS_III; pfam05192 879243004623 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 879243004624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 879243004625 Walker A/P-loop; other site 879243004626 ATP binding site [chemical binding]; other site 879243004627 Q-loop/lid; other site 879243004628 ABC transporter signature motif; other site 879243004629 Walker B; other site 879243004630 D-loop; other site 879243004631 H-loop/switch region; other site 879243004632 Smr domain; Region: Smr; pfam01713 879243004633 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 879243004634 RIP metalloprotease RseP; Region: TIGR00054 879243004635 active site 879243004636 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 879243004637 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 879243004638 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 879243004639 putative substrate binding region [chemical binding]; other site 879243004640 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 879243004641 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 879243004642 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 879243004643 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 879243004644 Glycoprotease family; Region: Peptidase_M22; pfam00814 879243004645 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 879243004646 Ligand binding site [chemical binding]; other site 879243004647 Electron transfer flavoprotein domain; Region: ETF; pfam01012 879243004648 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 879243004649 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 879243004650 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 879243004651 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 879243004652 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 879243004653 active site 879243004654 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 879243004655 thymidylate synthase; Reviewed; Region: thyA; PRK01827 879243004656 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 879243004657 dimerization interface [polypeptide binding]; other site 879243004658 active site 879243004659 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243004660 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 879243004661 hypothetical protein; Provisional; Region: PRK07101 879243004662 substrate-cofactor binding pocket; other site 879243004663 homodimer interface [polypeptide binding]; other site 879243004664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243004665 para-aminobenzoate synthase component I; Validated; Region: PRK07093 879243004666 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 879243004667 Glutamine amidotransferase class-I; Region: GATase; pfam00117 879243004668 glutamine binding [chemical binding]; other site 879243004669 catalytic triad [active] 879243004670 AAA domain; Region: AAA_14; pfam13173 879243004671 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 879243004672 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 879243004673 active site 879243004674 putative DNA-binding cleft [nucleotide binding]; other site 879243004675 dimer interface [polypeptide binding]; other site 879243004676 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 879243004677 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243004678 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243004679 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 879243004680 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 879243004681 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 879243004682 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 879243004683 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243004684 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 879243004685 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243004686 ligand binding site [chemical binding]; other site 879243004687 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 879243004688 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243004689 ligand binding site [chemical binding]; other site 879243004690 Type III pantothenate kinase; Region: Pan_kinase; cl17198 879243004691 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 879243004692 Tetratricopeptide repeat; Region: TPR_12; pfam13424 879243004693 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; cl02429 879243004694 binding surface 879243004695 TPR motif; other site 879243004696 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 879243004697 Domain of unknown function DUF21; Region: DUF21; pfam01595 879243004698 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 879243004699 Transporter associated domain; Region: CorC_HlyC; smart01091 879243004700 SurA N-terminal domain; Region: SurA_N_3; cl07813 879243004701 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 879243004702 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 879243004703 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 879243004704 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 879243004705 protein binding site [polypeptide binding]; other site 879243004706 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 879243004707 protein binding site [polypeptide binding]; other site 879243004708 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 879243004709 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243004710 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 879243004711 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243004712 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 879243004713 AAA domain; Region: AAA_14; pfam13173 879243004714 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 879243004715 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 879243004716 Bacitracin resistance protein BacA; Region: BacA; pfam02673 879243004717 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 879243004718 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 879243004719 RNA binding site [nucleotide binding]; other site 879243004720 active site 879243004721 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 879243004722 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 879243004723 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 879243004724 catalytic center binding site [active] 879243004725 ATP binding site [chemical binding]; other site 879243004726 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 879243004727 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 879243004728 trmE is a tRNA modification GTPase; Region: trmE; cd04164 879243004729 G1 box; other site 879243004730 GTP/Mg2+ binding site [chemical binding]; other site 879243004731 Switch I region; other site 879243004732 G2 box; other site 879243004733 Switch II region; other site 879243004734 G3 box; other site 879243004735 G4 box; other site 879243004736 G5 box; other site 879243004737 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 879243004738 hypothetical protein; Provisional; Region: PRK10410 879243004739 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879243004740 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 879243004741 Leucine-rich repeats; other site 879243004742 Substrate binding site [chemical binding]; other site 879243004743 Leucine rich repeat; Region: LRR_8; pfam13855 879243004744 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 879243004745 Leucine-rich repeats; other site 879243004746 Substrate binding site [chemical binding]; other site 879243004747 Leucine rich repeat; Region: LRR_8; pfam13855 879243004748 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 879243004749 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 879243004750 dimer interface [polypeptide binding]; other site 879243004751 ssDNA binding site [nucleotide binding]; other site 879243004752 tetramer (dimer of dimers) interface [polypeptide binding]; other site 879243004753 gliding motility-associated protein GldE; Region: GldE; TIGR03520 879243004754 Domain of unknown function DUF21; Region: DUF21; pfam01595 879243004755 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 879243004756 Transporter associated domain; Region: CorC_HlyC; smart01091 879243004757 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 879243004758 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 879243004759 non-specific DNA binding site [nucleotide binding]; other site 879243004760 salt bridge; other site 879243004761 sequence-specific DNA binding site [nucleotide binding]; other site 879243004762 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 879243004763 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 879243004764 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 879243004765 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 879243004766 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 879243004767 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 879243004768 lipoyl synthase; Provisional; Region: PRK05481 879243004769 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 879243004770 FeS/SAM binding site; other site 879243004771 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 879243004772 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 879243004773 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 879243004774 META domain; Region: META; pfam03724 879243004775 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 879243004776 Peptidase C10 family; Region: Peptidase_C10; pfam01640 879243004777 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 879243004778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 879243004779 Transposase; Region: DDE_Tnp_ISL3; pfam01610 879243004780 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 879243004781 ribosomal protein L33; Region: rpl33; CHL00104 879243004782 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 879243004783 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 879243004784 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 879243004785 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 879243004786 Outer membrane efflux protein; Region: OEP; pfam02321 879243004787 Outer membrane efflux protein; Region: OEP; pfam02321 879243004788 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 879243004789 Resistant to P. syringae 6; Provisional; Region: PLN03210 879243004790 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 879243004791 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 879243004792 active site 879243004793 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 879243004794 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 879243004795 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 879243004796 binding surface 879243004797 TPR motif; other site 879243004798 TPR repeat; Region: TPR_11; pfam13414 879243004799 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 879243004800 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 879243004801 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 879243004802 ligand binding site [chemical binding]; other site 879243004803 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 879243004804 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 879243004805 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 879243004806 NAD binding site [chemical binding]; other site 879243004807 substrate binding site [chemical binding]; other site 879243004808 homodimer interface [polypeptide binding]; other site 879243004809 active site 879243004810 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 879243004811 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 879243004812 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 879243004813 substrate binding site [chemical binding]; other site 879243004814 hexamer interface [polypeptide binding]; other site 879243004815 metal binding site [ion binding]; metal-binding site 879243004816 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 879243004817 Competence protein; Region: Competence; pfam03772 879243004818 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 879243004819 Aspartase; Region: Aspartase; cd01357 879243004820 active sites [active] 879243004821 tetramer interface [polypeptide binding]; other site 879243004822 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 879243004823 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 879243004824 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 879243004825 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 879243004826 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 879243004827 metal binding site [ion binding]; metal-binding site 879243004828 dimer interface [polypeptide binding]; other site 879243004829 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 879243004830 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 879243004831 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 879243004832 active site 879243004833 catalytic motif [active] 879243004834 Zn binding site [ion binding]; other site 879243004835 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 879243004836 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 879243004837 active site 879243004838 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 879243004839 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 879243004840 active site 879243004841 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 879243004842 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 879243004843 NAD(P) binding site [chemical binding]; other site 879243004844 homotetramer interface [polypeptide binding]; other site 879243004845 homodimer interface [polypeptide binding]; other site 879243004846 active site 879243004847 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 879243004848 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 879243004849 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 879243004850 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 879243004851 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 879243004852 ATP binding site [chemical binding]; other site 879243004853 Mg2+ binding site [ion binding]; other site 879243004854 G-X-G motif; other site 879243004855 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 879243004856 Interferon-induced transmembrane protein; Region: CD225; pfam04505 879243004857 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 879243004858 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 879243004859 S-adenosylmethionine binding site [chemical binding]; other site 879243004860 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 879243004861 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 879243004862 dimer interface [polypeptide binding]; other site 879243004863 active site 879243004864 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 879243004865 EamA-like transporter family; Region: EamA; pfam00892 879243004866 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 879243004867 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 879243004868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 879243004869 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 879243004870 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 879243004871 DNA binding residues [nucleotide binding] 879243004872 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 879243004873 Transglycosylase; Region: Transgly; pfam00912 879243004874 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 879243004875 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 879243004876 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 879243004877 putative active site [active] 879243004878 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 879243004879 non-specific DNA binding site [nucleotide binding]; other site 879243004880 salt bridge; other site 879243004881 sequence-specific DNA binding site [nucleotide binding]; other site 879243004882 Domain of unknown function (DUF955); Region: DUF955; cl01076 879243004883 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 879243004884 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 879243004885 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 879243004886 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 879243004887 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 879243004888 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 879243004889 Imelysin; Region: Peptidase_M75; pfam09375 879243004890 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 879243004891 propionate/acetate kinase; Provisional; Region: PRK12379 879243004892 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 879243004893 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 879243004894 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 879243004895 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 879243004896 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 879243004897 acyl-activating enzyme (AAE) consensus motif; other site 879243004898 AMP binding site [chemical binding]; other site 879243004899 active site 879243004900 CoA binding site [chemical binding]; other site 879243004901 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 879243004902 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 879243004903 ligand binding site [chemical binding]; other site 879243004904 NAD binding site [chemical binding]; other site 879243004905 catalytic site [active] 879243004906 homodimer interface [polypeptide binding]; other site 879243004907 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 879243004908 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 879243004909 substrate-cofactor binding pocket; other site 879243004910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 879243004911 catalytic residue [active] 879243004912 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 879243004913 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 879243004914 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 879243004915 dimer interface [polypeptide binding]; other site 879243004916 active site 879243004917 glycine-pyridoxal phosphate binding site [chemical binding]; other site 879243004918 folate binding site [chemical binding]; other site 879243004919 fumarate hydratase; Provisional; Region: PRK15389 879243004920 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 879243004921 Fumarase C-terminus; Region: Fumerase_C; pfam05683