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NC_020845.1__YP_007673874.1__CPMG_00128__00128

Bact-Vir

NC_020845.1__YP_007673874.1__CPMG_00128__00128

Identity

Accession:
NC_020845 ↗
Kingdom:
phage

Quality

71.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Eurybiavirus› Prochlorococcus_phage_MED4-213

TaxID: 889956

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 1-85
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.84 50.0 5.20e-01 83.5% 64.2%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.82 43.0 5.00e-01 72.9% 71.0%
7zmgL01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.81 61.0 6.26e-01 77.6% 85.0%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 51.0 5.03e-01 71.8% 62.0%
3rkoG00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.79 57.0 5.36e-01 75.3% 64.0%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.76 49.0 4.96e-01 77.6% 65.1%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.75 54.0 5.74e-01 76.5% 88.0%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.75 57.0 6.11e-01 80.0% 98.6%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 52.0 5.61e-01 74.1% 91.8%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.73 53.0 5.58e-01 77.6% 84.4%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 50.0 5.42e-01 72.9% 91.0%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.71 53.0 4.22e-01 80.0% 38.9%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 51.0 5.47e-01 77.6% 91.5%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.69 48.0 5.21e-01 71.8% 91.2%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 52.0 5.47e-01 85.9% 88.2%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 46.0 5.06e-01 80.0% 85.5%
1sg2A00 3.30.910.20 Alpha Beta › 2-Layer Sandwich › Protein Binding, DinI Protein; Chain A › Skp domain 0.69 54.0 4.58e-01 84.7% 56.7%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 51.0 5.30e-01 77.6% 88.5%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 50.0 5.22e-01 76.5% 84.4%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.68 48.0 5.51e-01 72.9% 100.0%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.67 54.0 4.90e-01 89.4% 70.0%
2e5yA02 1.20.5.440 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain 0.66 35.0 4.65e-01 71.8% 97.8%
2pihA00 1.20.1500.10 Mainly Alpha › Up-down Bundle › YheA-like fold › YheA/YmcA-like 0.65 54.0 4.75e-01 89.4% 90.2%
2o5vA02 1.20.1050.90 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › RecF/RecN/SMC, N-terminal domain 0.65 47.0 3.71e-01 83.5% 36.9%
1wn0A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.60 45.0 3.94e-01 100.0% 52.7%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4253651 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.83 59.0 5.96e-01 74.1% 74.1%
3721382 192.29.1.175 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Pkr1 0.81 62.0 6.28e-01 81.2% 81.2%
3412831 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.78 56.0 4.55e-01 74.1% 42.0%
3620725 5041.1.1.17 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › Periphilin_C 0.77 61.0 5.70e-01 84.7% 72.4%
4225217 3710.1.1.1 ↗ alpha bundles › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › CHD5 0.76 60.0 5.52e-01 84.7% 78.2%
3401938 3602.1.1.14 ↗ alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › DUF733 0.76 51.0 5.40e-01 70.6% 78.7%
437078 3713.1.1.1 ↗ alpha bundles › Small terminase central domain › Small terminase central domain › Small terminase central domain › DNA_Packaging 0.75 54.0 5.35e-01 76.5% 72.5%
3588291 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.74 52.0 5.39e-01 72.9% 87.5%
4998774 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.73 56.0 3.48e-01 82.4% 15.0%
3684015 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.72 57.0 5.39e-01 84.7% 78.0%
3638319 192.7.1.56 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › CHD5 0.72 57.0 5.40e-01 84.7% 87.0%
3315495 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.71 52.0 5.28e-01 76.5% 81.2%
4798159 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.71 53.0 5.56e-01 78.8% 88.2%
5010597 5058.1.1.99 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › DUF373 0.70 58.0 4.91e-01 90.6% 60.7%
4479100 192.29.1.244 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › CHD5 0.69 58.0 5.38e-01 89.4% 84.8%
4663861 5069.1.3.78 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › MIS13 0.68 49.0 5.07e-01 77.6% 80.0%
3672772 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.68 49.0 5.33e-01 75.3% 90.0%
3194777 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.68 52.0 4.70e-01 83.5% 60.0%
3240634 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.67 60.0 4.83e-01 96.5% 96.1%
3344575 9.26.1.0 ↗ beta barrels › Lipocalins/Streptavidin 0.66 52.0 3.98e-01 84.7% 70.3%
2841849 3710.1.1.0 ↗ alpha bundles › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain 0.66 46.0 5.23e-01 72.9% 100.0%
4670545 3711.1.1.61 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › CHD5 0.66 52.0 5.16e-01 84.7% 87.8%
3834457 7026.1.1.0 ↗ beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 0.66 52.0 5.45e-01 84.7% 100.0%
3626229 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.66 53.0 5.33e-01 88.2% 88.2%
3503594 192.8.1.391 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › EMC3_TMCO1 0.65 50.0 5.07e-01 82.4% 83.5%
3849547 4992.1.1.25 ↗ extended segments › RelB-like › RelB-like › RelB-like › SHCBP_N 0.64 52.0 5.08e-01 88.2% 96.8%
4933737 3567.1.1.192 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › EMC3_TMCO1 0.64 49.0 4.75e-01 82.4% 86.3%
3175368 376.1.3.81 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › Rbsn 0.63 42.0 4.47e-01 70.6% 78.7%
4928539 4323.1.1.0 ↗ alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C 0.62 47.0 4.16e-01 82.4% 69.5%