←Back to structures
terminase
Euk-VirVombatid_gammaherpesvirus_1
terminase__YP_010087398__Vombatid_gammaherpesvirus_1__2052651
Identity
- Accession:
- YP_010087398 ↗
- Protein ID:
- terminase
- Kingdom:
- euk
Quality
72.3
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Manticavirus›
Vombatid_gammaherpesvirus_1
TaxID: 2052651
Cluster
View cluster (63 members)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 27-137
D2
high
residues 457-685
Domain cluster:
rep: rifcsphigho2-12_scaffold_combined_curated_prodigal-single.1__X__X__00331__D317-603
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02499.23 best | DNA_pack_C | 271.5 | 1.60e-80 | 100.0% | 63.5% |
D3
medium
residues 164-213
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02500.23 best | DNA_pack_N | 56.2 | 6.00e-15 | 100.0% | 18.4% |
CATH (30)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2qgsB01 | 1.10.472.50 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like | 0.78 | 52.0 | 4.32e-01 | 76.0% | 39.8% |
| 8e9gE01 | 1.10.10.1590 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E | 0.71 | 58.0 | 5.46e-01 | 94.0% | 81.0% |
| 2odmA00 | 1.10.287.750 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like | 0.70 | 51.0 | 4.39e-01 | 78.0% | 64.6% |
| 2x2vA00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.70 | 50.0 | 4.51e-01 | 76.0% | 86.8% |
| 2a2fX02 | 1.20.58.670 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain D | 0.69 | 59.0 | 4.40e-01 | 98.0% | 53.5% |
| 2rn7A01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.69 | 58.0 | 5.36e-01 | 98.0% | 74.2% |
| 2avuB00 | 1.10.4000.10 | Mainly Alpha › Orthogonal Bundle › Flagellar transcriptional activator fold › Flagellar transcriptional activator FlhD | 0.68 | 51.0 | 3.98e-01 | 80.0% | 59.6% |
| 3e3vA03 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.68 | 56.0 | 5.48e-01 | 98.0% | 96.4% |
| 2x1dA02 | 1.10.10.2120 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.67 | 50.0 | 4.38e-01 | 94.0% | 54.1% |
| 3ehfD01 | 1.20.5.1930 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.67 | 48.0 | 4.51e-01 | 78.0% | 98.4% |
| 2wgmA01 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.65 | 46.0 | 3.99e-01 | 76.0% | 46.3% |
| 4eqqA02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.65 | 53.0 | 5.43e-01 | 100.0% | 97.9% |
| 3ilxA02 | 1.10.287.2170 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.63 | 47.0 | 4.99e-01 | 100.0% | 90.9% |
| 3k2oB02 | 1.20.1280.270 | Mainly Alpha › Up-down Bundle › Monooxygenase › | 0.62 | 46.0 | 4.77e-01 | 96.0% | 91.1% |
| 2id3A01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.62 | 50.0 | 5.10e-01 | 94.0% | 98.0% |
| 1x4oA00 | 1.10.10.790 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Surp module | 0.61 | 48.0 | 4.39e-01 | 98.0% | 70.5% |
| 2e9xA01 | 1.20.58.1030 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.61 | 52.0 | 3.95e-01 | 100.0% | 84.4% |
| 1kfdA02 | 1.20.1060.10 | Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 | 0.60 | 46.0 | 4.10e-01 | 82.0% | 63.4% |
| 2dzlA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.60 | 41.0 | 3.84e-01 | 72.0% | 57.6% |
| 3nymA00 | 6.10.290.10 | Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.60 | 46.0 | 3.39e-01 | 100.0% | 33.1% |
| 2dodA00 | 1.10.10.440 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain | 0.59 | 49.0 | 4.29e-01 | 100.0% | 65.9% |
| 3rq9A00 | 1.10.287.2500 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.58 | 52.0 | 4.47e-01 | 100.0% | 93.6% |
| 1wpbG01 | 1.10.287.680 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.58 | 42.0 | 4.12e-01 | 80.0% | 79.6% |
| 1x0tA01 | 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 | 0.57 | 51.0 | 4.79e-01 | 100.0% | 83.6% |
| 2d2sA01 | 1.20.58.1210 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain | 0.57 | 49.0 | 3.82e-01 | 100.0% | 50.0% |
| 4u7iA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.57 | 48.0 | 3.92e-01 | 94.0% | 79.6% |
| 3rylA01 | 1.20.120.1210 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.56 | 44.0 | 3.47e-01 | 100.0% | 74.5% |
| 1gvnA00 | 1.10.8.130 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.56 | 41.0 | 3.47e-01 | 82.0% | 46.0% |
| 3m1cB01 | 3.30.390.170 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › | 0.54 | 41.0 | 3.27e-01 | 84.0% | 80.7% |
| 3ph0C00 | 1.25.40.1040 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.53 | 44.0 | 4.33e-01 | 100.0% | 90.6% |
ECOD (14)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4180835 | 5041.1.1.1 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C | 0.71 | 49.0 | 4.51e-01 | 76.0% | 57.1% |
| 58582 | 605.2.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › SSV1_D-63 | 0.67 | 47.0 | 4.58e-01 | 82.0% | 67.3% |
| 5016145 | 5041.1.1.1 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C | 0.66 | 47.0 | 4.14e-01 | 76.0% | 62.7% |
| 4196007 | 5041.1.1.1 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C | 0.66 | 46.0 | 4.08e-01 | 76.0% | 51.3% |
| 4512488 | 611.9.1.0 ↗ | alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain | 0.64 | 47.0 | 3.49e-01 | 80.0% | 43.7% |
| 3786100 | 3184.1.1.1 ↗ | alpha bundles › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › CSTF2_hinge | 0.64 | 50.0 | 4.15e-01 | 96.0% | 49.4% |
| 4937556 | 5041.1.1.0 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C | 0.64 | 44.0 | 4.28e-01 | 76.0% | 93.3% |
| 3189269 | 3184.1.1.1 ↗ | alpha bundles › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › CSTF2_hinge | 0.64 | 49.0 | 4.17e-01 | 98.0% | 50.6% |
| 3594525 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.64 | 54.0 | 4.39e-01 | 100.0% | 87.0% |
| 3743465 | 3184.1.1.1 ↗ | alpha bundles › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › CSTF2_hinge | 0.60 | 46.0 | 4.25e-01 | 94.0% | 64.6% |
| 4026914 | 3444.2.1.1 ↗ | alpha arrays › DP domain › XPC-binding domain and DDI helical domain › XPC-binding domain › XPC-binding | 0.60 | 48.0 | 4.72e-01 | 96.0% | 94.5% |
| 3743337 | 3184.1.1.1 ↗ | alpha bundles › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › CSTF2_hinge | 0.57 | 47.0 | 4.39e-01 | 98.0% | 72.3% |
| 3294389 | 3184.1.1.1 ↗ | alpha bundles › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › CSTF2_hinge | 0.55 | 46.0 | 4.36e-01 | 98.0% | 80.0% |
| 3954937 | 103.2.1.1 ↗ | alpha arrays › RuvA-C › ATP cone › ATP cone › Ribonuc_red_lgN | 0.50 | 35.0 | 3.14e-01 | 76.0% | 67.5% |
D4
medium
residues 214-377
Domain cluster:
rep: KX578043.1__AOT27930.1__X__00015__D87-267
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03237.22 best | Terminase_6N | 34.7 | 2.10e-08 | 90.8% | 63.3% |
| PF02500.23 | DNA_pack_N | 160.1 | 1.30e-46 | 61.0% | 36.2% |
| PF02499.23 | DNA_pack_C | 49.2 | 5.90e-13 | 23.8% | 11.1% |
D5
medium
residues 378-433