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NC_031087.1__YP_009288720.1__kpv477_044__00044

Bact-Vir

NC_031087.1__YP_009288720.1__kpv477_044__00044

Identity

Accession:
NC_031087 ↗
Kingdom:
phage

Quality

64.3 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 medium residues 85-148
PDB
Domain cluster: representative
CATH (54)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wdqC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.83 73.0 5.83e-01 95.3% 53.7%
5svlA01 1.10.287.940 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › atp-gated p2x4 ion channel 0.79 67.0 6.61e-01 92.2% 86.8%
4cb8A00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.76 64.0 3.78e-01 96.9% 12.3%
1zoyD00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.76 60.0 5.14e-01 89.1% 53.9%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.76 68.0 5.28e-01 98.4% 47.4%
1ma1A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.75 51.0 5.12e-01 75.0% 70.3%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.75 59.0 4.65e-01 90.6% 41.4%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.74 62.0 5.92e-01 100.0% 81.1%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.74 63.0 5.89e-01 92.2% 77.9%
1u00A02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.73 59.0 5.12e-01 87.5% 66.7%
2ig3A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.73 49.0 3.95e-01 75.0% 35.4%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 56.0 5.25e-01 90.6% 68.8%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.72 49.0 4.91e-01 92.2% 70.3%
2d2sA02 1.20.58.1220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, C-terminal helical domain 0.72 56.0 4.86e-01 85.9% 56.4%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.71 58.0 5.02e-01 92.2% 59.8%
1b06A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.71 51.0 5.01e-01 75.0% 71.6%
2fb5A01 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.70 58.0 5.63e-01 89.1% 81.9%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.70 54.0 5.25e-01 90.6% 76.1%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.70 48.0 4.25e-01 76.6% 50.5%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.69 60.0 5.43e-01 96.9% 70.1%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.68 53.0 4.34e-01 87.5% 47.2%
1pd3A00 1.10.287.230 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 49.0 5.26e-01 76.6% 94.4%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.67 53.0 5.05e-01 89.1% 72.7%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 51.0 4.97e-01 90.6% 74.6%
2kg7B00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.67 57.0 4.99e-01 96.9% 70.1%
1owaA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 50.0 4.29e-01 84.4% 50.0%
2p5tA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.66 56.0 5.04e-01 96.9% 76.1%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 47.0 4.90e-01 85.9% 83.1%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.65 54.0 4.83e-01 96.9% 63.8%
3l1nA02 1.20.1280.140 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.65 49.0 4.44e-01 85.9% 58.6%
2etsA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.65 51.0 4.25e-01 85.9% 47.8%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.65 45.0 4.57e-01 76.6% 74.2%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.65 48.0 4.66e-01 84.4% 70.3%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.65 53.0 4.53e-01 90.6% 57.5%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.65 53.0 4.89e-01 90.6% 80.5%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.63 49.0 4.67e-01 84.4% 76.0%
2y1vA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 47.0 3.38e-01 79.7% 27.6%
2xubA05 6.10.140.1450 Special › Helix non-globular › Helix Hairpins › 0.63 56.0 4.85e-01 98.4% 82.3%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.62 42.0 3.98e-01 70.3% 70.1%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.62 47.0 5.18e-01 82.8% 100.0%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.62 52.0 3.68e-01 92.2% 75.1%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.62 49.0 4.94e-01 100.0% 88.9%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.62 45.0 4.21e-01 79.7% 63.3%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 51.0 5.02e-01 96.9% 88.2%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 51.0 4.89e-01 98.4% 83.3%
2lhjA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.60 41.0 3.90e-01 81.2% 57.5%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.58 42.0 4.12e-01 95.3% 70.4%
3evyA00 1.20.58.910 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 42.0 3.88e-01 82.8% 60.2%
3cbuA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.58 49.0 3.79e-01 95.3% 44.0%
4iv6B01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.57 42.0 3.55e-01 81.2% 50.0%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 50.0 4.33e-01 98.4% 73.7%
3mpiA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.56 41.0 3.42e-01 81.2% 49.6%
2jifA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.55 43.0 3.56e-01 87.5% 49.2%
8b6jF01 1.10.287.20 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Ubiquinol-cytochrome C reductase hinge domain 0.50 41.0 4.08e-01 98.4% 94.0%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4033954 5058.1.1.2 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.84 75.0 6.45e-01 100.0% 68.0%
4964132 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 0.81 68.0 5.76e-01 100.0% 56.2%
4353218 605.1.1.167 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › PKK 0.80 68.0 6.48e-01 93.8% 80.0%
4964387 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 0.80 68.0 5.87e-01 100.0% 61.0%
5026085 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.80 68.0 5.67e-01 100.0% 55.6%
4107135 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.77 67.0 5.78e-01 96.9% 67.0%
4541657 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.77 62.0 5.76e-01 92.2% 71.2%
5018636 605.1.1.3 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_2 0.76 60.0 5.86e-01 85.9% 85.7%
4630202 5041.1.1.1 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.75 65.0 5.89e-01 98.4% 75.3%
4026047 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.75 66.0 5.97e-01 96.9% 72.9%
3277724 150.5.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.74 59.0 5.14e-01 85.9% 61.1%
3904356 3755.3.1.9 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › SH3BP5 0.74 62.0 4.28e-01 90.6% 28.3%
3366617 3560.1.1.5 a+b complex topology › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › PF28579 0.74 60.0 4.42e-01 90.6% 35.0%
4930860 5058.1.1.16 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.73 64.0 5.76e-01 100.0% 75.6%
4951918 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 0.73 63.0 5.60e-01 100.0% 77.9%
3946159 5086.1.1.85 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_AAEA_pHBA 0.72 56.0 5.29e-01 82.8% 72.0%
4359331 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 0.72 55.0 5.69e-01 84.4% 86.7%
3591835 632.5.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylocoagulase › Staphylocoagulase 0.72 63.0 5.54e-01 100.0% 71.6%
3199608 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.71 59.0 4.89e-01 96.9% 52.7%
5034026 5058.1.1.16 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.70 59.0 5.18e-01 100.0% 68.6%
2832654 5058.1.1.1 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1,MS_channel_1st 0.70 60.0 5.39e-01 100.0% 72.3%
4562953 2004.1.1.43 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SRP54 0.70 61.0 3.96e-01 96.9% 22.5%
4981035 5058.1.1.16 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.70 58.0 5.82e-01 96.9% 93.8%
3258047 5041.1.1.0 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.70 59.0 4.48e-01 98.4% 40.0%
3741801 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.70 58.0 4.68e-01 92.2% 51.2%
3484074 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.69 58.0 4.38e-01 89.1% 50.7%
3602776 605.6.1.12 alpha duplicates or obligate multimers › ROP-like › HP1531-like › HP1531-like › PF27273 0.69 58.0 5.38e-01 90.6% 87.5%
3734442 192.8.1.35 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › DUF6594 0.69 50.0 3.91e-01 76.6% 38.5%
4996194 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 0.68 56.0 5.09e-01 96.9% 67.8%
3827397 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.68 58.0 4.91e-01 100.0% 63.5%
3966348 5058.1.1.16 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.67 56.0 5.23e-01 98.4% 74.1%
4110261 3748.1.1.2 extended segments › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › CSN5_C 0.67 53.0 4.82e-01 87.5% 64.7%
3266339 5042.1.1.0 extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region 0.67 54.0 5.38e-01 96.9% 95.4%
4219465 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.66 55.0 4.58e-01 92.2% 52.7%
4081214 605.1.1.290 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Phage_Nu1 0.65 53.0 5.17e-01 92.2% 88.6%
3742136 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.65 45.0 4.25e-01 73.4% 61.3%
3232850 3684.1.1.48 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BBS2_hp 0.65 53.0 4.70e-01 92.2% 64.2%
4007900 304.48.1.14 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF 0.64 52.0 3.66e-01 89.1% 27.0%
4521514 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 0.62 54.0 5.12e-01 96.9% 85.3%
3285714 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.62 55.0 4.66e-01 98.4% 74.3%
5040661 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 0.60 50.0 4.93e-01 96.9% 91.4%