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NC_041928.1__YP_009601027.1__FDH45_gp102__00102

Bact-Vir

NC_041928.1__YP_009601027.1__FDH45_gp102__00102

Identity

Accession:
NC_041928 ↗
Kingdom:
phage

Quality

86.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Sepunavirus› Staphylococcus_phage_phiIBB-SEP1

TaxID: 1340769

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 1-60
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.92 67.0 7.57e-01 76.7% 100.0%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.89 80.0 6.61e-01 98.3% 57.3%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.89 69.0 7.41e-01 85.0% 96.1%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.87 69.0 6.37e-01 85.0% 67.1%
1e2aA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.87 79.0 6.53e-01 100.0% 58.8%
3zc0D00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.87 78.0 5.39e-01 100.0% 31.6%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.86 65.0 6.92e-01 83.3% 92.3%
3k59A06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.85 56.0 6.30e-01 70.0% 87.2%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.85 78.0 6.42e-01 100.0% 59.8%
2hfsA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.84 63.0 4.67e-01 85.0% 32.9%
2rklF00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.83 66.0 7.03e-01 86.7% 100.0%
2qvaA02 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.83 64.0 6.80e-01 86.7% 94.3%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.82 70.0 5.57e-01 93.3% 57.6%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 72.0 6.97e-01 100.0% 88.1%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.81 73.0 7.33e-01 100.0% 98.3%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.81 64.0 5.73e-01 85.0% 62.2%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.81 70.0 6.49e-01 96.7% 96.0%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.81 72.0 5.66e-01 100.0% 75.8%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.80 70.0 4.99e-01 96.7% 33.7%
1wfdA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.79 57.0 4.87e-01 75.0% 48.4%
1hr5A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.79 58.0 6.25e-01 91.7% 97.9%
3hiuD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 70.0 5.17e-01 100.0% 40.1%
2gnxA01 1.10.3450.30 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › 0.79 70.0 4.91e-01 98.3% 60.9%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.78 63.0 6.42e-01 98.3% 91.5%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.78 59.0 5.73e-01 83.3% 74.2%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 66.0 6.55e-01 96.7% 91.9%
3pwfA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.78 68.0 5.30e-01 100.0% 45.8%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.78 67.0 5.01e-01 96.7% 38.9%
4gczA03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.77 66.0 6.45e-01 100.0% 87.7%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 66.0 5.59e-01 95.0% 61.2%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 66.0 5.07e-01 100.0% 44.0%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.76 67.0 4.98e-01 100.0% 41.7%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 68.0 4.67e-01 100.0% 69.0%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 66.0 4.98e-01 100.0% 77.2%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.75 63.0 6.46e-01 98.3% 100.0%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.74 64.0 5.64e-01 98.3% 69.2%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.74 64.0 5.92e-01 96.7% 81.8%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.73 58.0 4.67e-01 91.7% 44.6%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.72 60.0 5.97e-01 96.7% 91.9%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.71 60.0 4.42e-01 100.0% 34.9%
1ucuA01 6.10.280.190 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 59.0 5.75e-01 100.0% 89.7%
2kj8A00 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.69 53.0 4.21e-01 81.7% 75.4%
1dd3A01 1.20.5.710 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Single helix bin 0.69 49.0 5.00e-01 78.3% 78.9%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2576237 632.18.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 0.94 77.0 6.84e-01 88.3% 63.7%
4682355 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.92 82.0 7.17e-01 96.7% 67.1%
4172303 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.91 77.0 5.89e-01 90.0% 43.2%
3907712 5086.1.1.150 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › LUC7 0.91 85.0 7.80e-01 100.0% 81.3%
4029165 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 0.90 82.0 4.83e-01 100.0% 16.4%
3166880 906.1.1.0 ↗ few secondary structure elements › CCCH zinc finger › CCCH zinc finger › CCCH zinc finger 0.89 82.0 7.73e-01 98.3% 85.7%
4469597 192.17.1.11 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › UVR 0.89 62.0 6.46e-01 75.0% 78.2%
3942653 632.22.1.118 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › YciZ 0.89 70.0 6.64e-01 85.0% 71.4%
5076902 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.88 81.0 6.52e-01 100.0% 54.5%
3484742 3922.1.1.197 ↗ 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 › BBS2_hp 0.87 80.0 7.03e-01 100.0% 74.1%
4551675 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.87 81.0 6.46e-01 100.0% 56.4%
3560750 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.87 79.0 7.51e-01 100.0% 85.7%
4152566 4274.1.1.1 ↗ extended segments › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › MalF_N_TM 0.86 70.0 7.27e-01 88.3% 94.5%
4618805 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 0.86 72.0 7.46e-01 91.7% 100.0%
3677185 4992.1.1.27 ↗ extended segments › RelB-like › RelB-like › RelB-like › Ist1 0.86 79.0 6.78e-01 100.0% 68.9%
3527434 6006.1.1.6 ↗ extended segments › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › PF27661 0.85 78.0 5.65e-01 100.0% 38.7%
3797638 3456.1.1.0 ↗ extended segments › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A 0.85 77.0 6.14e-01 100.0% 52.2%
3968647 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 0.84 71.0 6.94e-01 93.3% 93.8%
3233409 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.83 76.0 6.01e-01 100.0% 53.9%
3175368 376.1.3.81 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › Rbsn 0.82 74.0 6.90e-01 100.0% 80.0%
4012407 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 0.82 69.0 6.93e-01 100.0% 95.0%
3971727 5043.2.1.0 ↗ extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain 0.81 67.0 6.92e-01 96.7% 100.0%
3262528 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.80 69.0 6.27e-01 95.0% 87.5%
4386662 3291.1.1.158 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Seryl_tRNA_N 0.78 69.0 5.58e-01 100.0% 53.0%
5016327 605.1.1.2 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.78 66.0 6.35e-01 96.7% 82.9%
4784166 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.76 65.0 6.29e-01 100.0% 87.1%
3273862 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.75 66.0 5.68e-01 100.0% 62.1%
437078 3713.1.1.1 ↗ alpha bundles › Small terminase central domain › Small terminase central domain › Small terminase central domain › DNA_Packaging 0.75 65.0 5.75e-01 100.0% 67.0%
4961158 5076.2.1.3 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › DUF4013 0.71 59.0 3.98e-01 91.7% 25.0%
3614494 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 0.65 56.0 3.73e-01 98.3% 22.7%