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SR-VP_0-2_scaffold_141_6534022_prodigal-single.1__X__X__00194

Bact-Vir

SR-VP_0-2_scaffold_141_6534022_prodigal-single.1__X__X__00194

Identity

Kingdom:
phage

Quality

87.3 mean pLDDT

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 7-72
PDB
Domain cluster: representative
D2 medium residues 73-153
PDB
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2b78A02 3.30.750.80 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › RNA methyltransferase domain (HRMD) like 0.69 52.0 4.88e-01 93.8% 64.7%
4hlbA00 3.30.70.2960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 51.0 4.85e-01 80.2% 83.2%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.68 57.0 3.99e-01 91.4% 63.3%
2ob0C01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.68 54.0 4.29e-01 86.4% 87.7%
3ieyA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.67 50.0 4.67e-01 79.0% 99.0%
1uwvA03 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 58.0 4.83e-01 97.5% 92.0%
2pffB05 3.30.70.2430 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 35.0 3.99e-01 87.7% 70.5%
2fr5A00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.63 47.0 4.01e-01 80.2% 75.0%
3ezjA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.63 35.0 3.80e-01 87.7% 64.7%
2xswB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.62 52.0 3.55e-01 96.3% 56.1%
7r7eA01 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.62 44.0 3.88e-01 74.1% 82.4%
3kxwA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.62 47.0 4.12e-01 82.7% 79.8%
2l72A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.61 42.0 3.72e-01 70.4% 70.3%
1bo7A00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.61 45.0 3.03e-01 79.0% 27.5%
4qtpD00 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.61 52.0 4.65e-01 95.1% 99.1%
4jyjB00 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.61 50.0 3.54e-01 92.6% 69.8%
3u9rB02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.61 50.0 3.56e-01 92.6% 75.3%
3n2qA02 3.30.300.190 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.60 46.0 4.19e-01 84.0% 67.2%
4di1B01 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.60 50.0 3.79e-01 91.4% 97.5%
3egyX00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.60 44.0 3.22e-01 79.0% 41.9%
1tisA00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.60 44.0 3.07e-01 79.0% 34.6%
3v8hC00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.60 44.0 3.04e-01 79.0% 26.0%
1bkpA00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.59 44.0 3.05e-01 79.0% 31.7%
3n9vB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.59 50.0 3.47e-01 96.3% 59.5%
1auzA00 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.58 49.0 4.39e-01 93.8% 100.0%
1xm7A00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.58 49.0 3.72e-01 91.4% 57.5%
1tm0A02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.57 45.0 3.71e-01 85.2% 74.0%
3bamA00 3.40.91.20 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.57 43.0 3.27e-01 82.7% 41.7%
2ookA00 3.40.50.10600 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SpoIIaa-like domains 0.56 48.0 4.21e-01 97.5% 96.0%
2gjwC01 3.40.1350.150 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.56 42.0 3.53e-01 80.2% 54.3%
1m4jA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.56 45.0 3.97e-01 93.8% 67.7%
1vc1A00 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.56 48.0 4.37e-01 97.5% 98.2%
1hf2A01 3.30.750.50 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › Cell-division inhibitor MinC, N-terminal domain 0.55 42.0 4.16e-01 85.2% 96.7%
3lklA00 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.55 44.0 4.26e-01 88.9% 83.9%
4aibA01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.55 40.0 3.55e-01 77.8% 64.8%
2wvlB00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.55 46.0 3.08e-01 98.8% 86.9%
4l8kD02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.55 49.0 3.61e-01 98.8% 75.5%
2ozgA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 48.0 3.76e-01 93.8% 70.7%
6xzqA01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.55 44.0 3.54e-01 88.9% 67.9%
3tghA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.54 47.0 3.25e-01 100.0% 58.4%
4c89C00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 45.0 3.08e-01 97.5% 72.9%
3s5jA02 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 38.0 3.26e-01 75.3% 67.2%
4a0gC03 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.54 43.0 3.11e-01 87.7% 65.3%
3bt7A02 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 45.0 3.83e-01 98.8% 62.8%
3n29B01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.52 38.0 3.20e-01 79.0% 58.3%
2yfqB03 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 37.0 3.14e-01 75.3% 51.4%
3memA01 3.90.960.10 Alpha Beta › Alpha-Beta Complex › YbaK protein › YbaK/aminoacyl-tRNA synthetase-associated domain 0.51 37.0 3.06e-01 75.3% 76.8%
1zfjA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 42.0 2.64e-01 92.6% 60.5%
3mt1A01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.51 37.0 3.17e-01 79.0% 56.9%
2j9lF01 3.90.1280.20 Alpha Beta › Alpha-Beta Complex › CBS domain Like › 0.50 34.0 3.57e-01 76.5% 76.7%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5072012 2008.1.1.3 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.74 51.0 4.95e-01 71.6% 66.7%
3591961 2008.2.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.72 50.0 4.65e-01 71.6% 65.0%
3714022 304.24.1.3 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_III 0.71 37.0 4.19e-01 88.9% 66.7%
4358836 4267.1.1.1 a+b duplicates or obligate multimers › YefM-like › YefM-like › YefM-like › PhdYeFM_antitox 0.69 44.0 4.52e-01 70.4% 66.3%
2629018 4267.1.1.1 a+b duplicates or obligate multimers › YefM-like › YefM-like › YefM-like › PhdYeFM_antitox 0.66 47.0 4.59e-01 79.0% 66.3%
4298327 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.66 55.0 4.81e-01 93.8% 97.6%
4207826 2003.1.5.174 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr, Methyltransf_15 0.65 57.0 3.74e-01 100.0% 41.4%
None 0.64 57.0 3.69e-01 100.0% 54.3%
3178317 327.5.1.6 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-dom_DIP2-like 0.63 49.0 4.24e-01 84.0% 78.5%
3164821 2486.1.1.8 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Peptidase_S41,DUF3340 0.63 57.0 3.72e-01 100.0% 66.6%
175525 327.5.1.6 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-dom_DIP2-like 0.62 47.0 4.09e-01 82.7% 79.4%
3386923 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.62 43.0 3.47e-01 72.8% 45.0%
4937005 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.62 46.0 3.03e-01 79.0% 41.8%
3680604 246.3.1.17 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › PF27823 0.60 54.0 3.68e-01 98.8% 56.1%
3674852 2486.1.1.7 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Peptidase_S41 0.60 54.0 4.00e-01 98.8% 94.1%
1821687 2486.1.1.15 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans, ACCA 0.60 50.0 3.55e-01 92.6% 73.2%
4225236 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.60 45.0 3.09e-01 79.0% 30.7%
1900468 266.1.1.1 a+b two layers › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylate synthase/dCMP hydroxymethylase › Thymidylat_synt 0.60 45.0 3.09e-01 79.0% 31.5%
3408608 2496.1.1.0 a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like 0.60 50.0 4.46e-01 93.8% 96.7%
4074416 2008.1.1.67 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RecC_C 0.60 45.0 3.05e-01 81.5% 44.8%
3960691 2496.1.1.0 a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like 0.60 49.0 4.43e-01 90.1% 70.9%
3175212 327.7.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like 0.59 40.0 4.10e-01 70.4% 76.2%
3475197 323.1.1.31 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-dom_DIP2-like 0.59 41.0 2.78e-01 71.6% 26.8%
4960125 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.59 50.0 3.58e-01 96.3% 81.0%
1174387 2486.1.1.3 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans 0.58 49.0 4.00e-01 93.8% 62.2%
3959492 2486.1.1.3 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans 0.58 51.0 3.71e-01 100.0% 35.2%
4263877 2486.1.1.7 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Peptidase_S41 0.57 50.0 3.76e-01 95.1% 91.1%
4844616 2486.1.1.3 a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans 0.56 47.0 4.11e-01 93.8% 89.8%
3989293 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.56 49.0 4.35e-01 96.3% 73.9%
5015049 2003.1.5.74 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltrans_SAM 0.56 45.0 3.09e-01 91.4% 45.5%
4933019 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.55 45.0 4.08e-01 93.8% 65.5%
3989471 327.11.1.2 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › KhpA-B_KH 0.55 37.0 3.77e-01 70.4% 81.2%
2323988 219.1.1.20 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_14 0.54 44.0 2.98e-01 91.4% 64.8%
3672222 246.3.1.0 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.53 45.0 3.34e-01 96.3% 77.8%
5073559 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 42.0 2.99e-01 88.9% 82.9%
4210619 323.1.1.33 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › PF27279 0.53 41.0 2.73e-01 86.4% 31.9%
3205602 101.1.2.281 alpha arrays › HTH › HTH › winged helix domain › Tfb2 0.53 41.0 4.00e-01 84.0% 97.8%
2636124 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.53 38.0 2.79e-01 77.8% 60.7%
4086723 316.1.1.43 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DUF294 0.51 44.0 3.58e-01 96.3% 50.3%
4447981 327.17.1.2 a+b two layers › Alpha-lytic protease prodomain-like › S-adenosylmethionine synthetase › S-adenosylmethionine synthetase › AdoMet_Synthase 0.51 34.0 3.13e-01 70.4% 78.3%
3439131 101.1.2.407 alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.50 39.0 3.55e-01 84.0% 89.9%