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SR-VP_0-2_scaffold_141_6063796_prodigal-single.1__X__X__00036

Bact-Vir

SR-VP_0-2_scaffold_141_6063796_prodigal-single.1__X__X__00036

Identity

Kingdom:
phage

Quality

89.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 17-85
PDB
Domain cluster: representative
CATH (66)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.88 81.0 6.76e-01 97.1% 69.7%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.86 68.0 6.70e-01 85.5% 94.6%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.86 78.0 5.49e-01 100.0% 67.5%
4dylA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.85 77.0 5.17e-01 100.0% 51.2%
1i4dA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.84 73.0 5.28e-01 97.1% 61.7%
6xj1A01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.81 73.0 4.92e-01 100.0% 55.1%
4ymuD00 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.79 66.0 4.59e-01 89.9% 35.3%
6vq6G02 1.20.1460.10 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 0.79 71.0 5.13e-01 98.6% 92.9%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.79 59.0 6.04e-01 79.7% 87.7%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.79 71.0 6.60e-01 100.0% 82.4%
7wivA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.78 70.0 4.47e-01 97.1% 23.1%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.78 67.0 6.56e-01 100.0% 87.8%
2pmsC00 6.10.140.920 Special › Helix non-globular › Helix Hairpins › 0.78 60.0 5.08e-01 81.2% 57.8%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.78 69.0 6.64e-01 100.0% 93.6%
4nv0A02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.77 56.0 5.26e-01 79.7% 63.4%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 57.0 4.98e-01 79.7% 54.3%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.76 64.0 6.04e-01 95.7% 76.8%
3sfvB02 6.10.140.2010 Special › Helix non-globular › Helix Hairpins › 0.76 60.0 4.22e-01 84.1% 70.5%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.74 62.0 5.97e-01 91.3% 96.2%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 66.0 5.42e-01 98.6% 55.7%
1gaxA05 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.73 51.0 5.05e-01 73.9% 74.0%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 59.0 6.04e-01 98.6% 92.5%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.72 64.0 5.66e-01 100.0% 89.2%
2rd0B00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.72 64.0 5.09e-01 100.0% 50.4%
1jalA03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.72 50.0 4.73e-01 72.5% 97.5%
4mh6A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.72 63.0 4.86e-01 100.0% 67.3%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.71 63.0 6.15e-01 100.0% 89.6%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 53.0 5.60e-01 81.2% 87.1%
3cazB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.71 65.0 4.54e-01 100.0% 77.6%
2gl2B00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 60.0 5.10e-01 91.3% 59.6%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 52.0 5.62e-01 100.0% 91.4%
1z72A00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.70 53.0 3.75e-01 87.0% 26.4%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 63.0 6.29e-01 98.6% 97.2%
1y1uA01 1.20.1050.20 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › STAT transcription factor, all-alpha domain 0.70 63.0 4.53e-01 100.0% 55.4%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.70 52.0 5.38e-01 79.7% 85.9%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 58.0 5.62e-01 91.3% 96.1%
4h63K00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 58.0 5.14e-01 97.1% 64.3%
3o39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 52.0 4.67e-01 81.2% 80.2%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.69 55.0 5.74e-01 89.9% 95.3%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.69 60.0 5.18e-01 100.0% 94.6%
3fd9A03 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.68 59.0 5.87e-01 97.1% 91.8%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.68 55.0 5.66e-01 89.9% 98.4%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 60.0 5.72e-01 98.6% 85.2%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 56.0 5.48e-01 94.2% 84.4%
2xubA05 6.10.140.1450 Special › Helix non-globular › Helix Hairpins › 0.67 60.0 5.41e-01 100.0% 100.0%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.67 53.0 5.53e-01 89.9% 98.4%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 57.0 5.22e-01 94.2% 73.9%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.66 57.0 4.93e-01 100.0% 64.0%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.66 57.0 5.03e-01 100.0% 98.1%
3rx6A00 1.20.58.1090 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer 0.66 56.0 4.16e-01 97.1% 36.9%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.66 56.0 5.24e-01 100.0% 75.6%
4bwcA02 1.10.439.20 Mainly Alpha › Orthogonal Bundle › Penicillin Amidohydrolase; domain 1 › Phospholipase B-like, domain 2 0.65 49.0 4.08e-01 79.7% 69.2%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 50.0 4.80e-01 82.6% 75.6%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.65 55.0 4.93e-01 100.0% 67.7%
1ucuA01 6.10.280.190 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 54.0 5.52e-01 95.7% 98.5%
3fb2A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 49.0 4.42e-01 89.9% 58.1%
4rm7A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 54.0 4.36e-01 97.1% 97.1%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.63 50.0 5.31e-01 88.4% 98.3%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.63 47.0 5.09e-01 81.2% 98.3%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.62 50.0 5.32e-01 85.5% 100.0%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.62 52.0 5.17e-01 97.1% 88.7%
3nrxA00 1.20.58.1520 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 52.0 4.34e-01 94.2% 54.5%
6h9xA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.62 55.0 4.85e-01 100.0% 71.6%
3pe0A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 47.0 4.23e-01 89.9% 60.4%
4ielA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 46.0 3.90e-01 95.7% 56.0%
3fkjA02 1.10.10.2240 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.51 34.0 3.54e-01 73.9% 75.0%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3373451 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.95 84.0 6.65e-01 92.8% 52.0%
3951780 4246.1.1.2 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_1 0.93 87.0 5.19e-01 100.0% 17.4%
4276514 3826.1.1.88 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › CC_BshC 0.92 76.0 7.62e-01 88.4% 85.7%
3735933 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.90 84.0 6.42e-01 100.0% 50.3%
3696717 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.90 84.0 5.91e-01 100.0% 38.9%
4970333 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.90 79.0 6.96e-01 92.8% 68.4%
4086475 3755.3.1.466 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › CC_BshC 0.89 82.0 6.08e-01 100.0% 43.2%
5064991 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.89 80.0 6.16e-01 97.1% 67.6%
3180963 304.60.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein L10-like › Ribosomal protein L10-like 0.89 81.0 6.17e-01 98.6% 46.0%
2674763 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.86 70.0 6.81e-01 87.0% 94.7%
3750377 605.1.1.254 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › MRVI1 0.85 75.0 7.11e-01 95.7% 100.0%
3404270 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.84 77.0 6.15e-01 100.0% 55.4%
5055977 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.83 72.0 6.24e-01 97.1% 64.0%
4944884 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.82 72.0 6.41e-01 97.1% 69.5%
5040194 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.81 74.0 6.47e-01 100.0% 69.0%
5019542 622.4.1.67 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › DUF5518 0.81 74.0 6.48e-01 100.0% 74.7%
4933898 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.81 70.0 6.70e-01 95.7% 83.3%
4009623 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.80 69.0 7.06e-01 95.7% 100.0%
3191997 5041.1.1.15 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › Tmemb_170 0.79 71.0 6.06e-01 100.0% 65.5%
3888264 2004.1.1.118 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AIG1 0.78 69.0 4.51e-01 100.0% 24.3%
4660205 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.78 72.0 5.67e-01 100.0% 72.6%
2795737 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.78 66.0 6.56e-01 95.7% 90.4%
3709619 1008.1.1.0 ↗ alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain 0.78 70.0 6.54e-01 100.0% 84.7%
2799599 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.78 70.0 6.48e-01 100.0% 81.4%
4536670 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.77 70.0 5.65e-01 100.0% 53.8%
4868876 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.76 67.0 5.11e-01 100.0% 41.8%
4945900 5041.1.1.0 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.76 62.0 5.49e-01 89.9% 64.0%
3508186 7558.1.1.1 ↗ a/b three-layered sandwiches › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Acyltransferase 0.75 64.0 4.18e-01 97.1% 81.0%
5043558 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.74 63.0 6.20e-01 95.7% 89.2%
3584995 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.74 66.0 6.43e-01 100.0% 93.3%
3543713 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.73 65.0 5.98e-01 100.0% 83.3%
144301 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.72 59.0 5.86e-01 94.2% 90.4%
3708789 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.71 64.0 5.74e-01 100.0% 75.8%
3571433 3939.1.1.220 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › KIF21A 0.70 63.0 4.76e-01 100.0% 42.5%
5066104 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.69 64.0 3.71e-01 100.0% 39.1%
4315986 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.69 56.0 5.12e-01 89.9% 66.7%
4206858 4992.1.1.23 ↗ extended segments › RelB-like › RelB-like › RelB-like › Seryl_tRNA_N 0.67 59.0 5.03e-01 100.0% 87.8%
3725377 192.15.1.44 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF6604 0.64 51.0 4.75e-01 89.9% 71.1%
3973208 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.63 51.0 4.98e-01 89.9% 84.0%
4275409 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.63 55.0 4.78e-01 100.0% 94.5%
4013967 2004.1.1.184 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 0.63 55.0 3.37e-01 100.0% 15.6%