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DNA_packaging_terminase_subunit_2
Euk-VirHuman_alphaherpesvirus_3
DNA_packaging_terminase_subunit_2__NP_040153__Human_alphaherpesvirus_3__10335
Identity
- Accession:
- NP_040153 ↗
- Protein ID:
- DNA_packaging_terminase_subunit_2
- Kingdom:
- euk
Quality
78.7
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Varicellovirus›
Human_alphaherpesvirus_3
TaxID: 10335
Cluster
View cluster (77 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
medium
residues 1-128
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01366.24 best | PRTP | 105.5 | 3.20e-30 | 96.1% | 17.4% |
CATH (33)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1wcrA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.73 | 54.0 | 5.94e-01 | 77.3% | 100.0% |
| 1i6zA00 | 1.20.58.120 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain | 0.71 | 54.0 | 5.34e-01 | 78.9% | 84.4% |
| 6h2dS01 | 1.20.1170.10 | Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › | 0.71 | 60.0 | 4.98e-01 | 91.4% | 91.5% |
| 3ggyA00 | 1.20.1260.60 | Mainly Alpha › Up-down Bundle › Ferritin › Vacuolar protein sorting-associated protein Ist1 | 0.71 | 51.0 | 4.50e-01 | 74.2% | 81.2% |
| 3g9gA00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.69 | 51.0 | 4.02e-01 | 75.0% | 72.4% |
| 6gy8A01 | 1.20.1170.10 | Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › | 0.69 | 59.0 | 4.37e-01 | 93.0% | 91.0% |
| 2i0mA01 | 1.20.58.220 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 | 0.69 | 54.0 | 5.85e-01 | 82.8% | 100.0% |
| 3u8vA00 | 1.20.120.660 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain | 0.67 | 37.0 | 4.52e-01 | 88.3% | 83.1% |
| 2yevA03 | 1.20.120.80 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle | 0.67 | 56.0 | 4.98e-01 | 90.6% | 67.4% |
| 1x8zB00 | 1.20.140.40 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein | 0.66 | 45.0 | 4.33e-01 | 78.1% | 60.5% |
| 4ysxC00 | 1.20.1300.10 | Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit | 0.66 | 49.0 | 4.64e-01 | 78.1% | 73.2% |
| 1wdzA00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.65 | 46.0 | 3.85e-01 | 74.2% | 81.0% |
| 1xg2B00 | 1.20.140.40 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein | 0.65 | 44.0 | 4.16e-01 | 75.0% | 58.3% |
| 1fewA00 | 1.20.58.70 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.65 | 50.0 | 4.47e-01 | 80.5% | 80.3% |
| 3pltA00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.64 | 47.0 | 3.96e-01 | 75.8% | 93.9% |
| 3i9wA00 | 1.20.58.920 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.64 | 57.0 | 4.49e-01 | 97.7% | 91.1% |
| 1xzpA02 | 1.20.120.430 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 | 0.64 | 53.0 | 4.86e-01 | 93.0% | 68.1% |
| 6ko5A02 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.64 | 52.0 | 4.01e-01 | 87.5% | 82.9% |
| 2d1lA00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.64 | 46.0 | 3.73e-01 | 75.0% | 76.3% |
| 3ok8A00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.63 | 45.0 | 3.82e-01 | 74.2% | 82.2% |
| 2clbA01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.63 | 44.0 | 4.18e-01 | 73.4% | 92.5% |
| 1sziA02 | 1.20.120.340 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS | 0.63 | 52.0 | 5.13e-01 | 93.0% | 83.9% |
| 1sj7C00 | 1.20.1420.10 | Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain | 0.62 | 54.0 | 4.94e-01 | 93.8% | 74.7% |
| 2v0oB00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.61 | 45.0 | 3.57e-01 | 76.6% | 74.9% |
| 7aalA01 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.61 | 43.0 | 3.40e-01 | 73.4% | 78.6% |
| 4nqiD00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.56 | 40.0 | 3.36e-01 | 75.0% | 75.4% |
| 1a5tA03 | 1.20.272.10 | Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › | 0.55 | 42.0 | 4.41e-01 | 85.2% | 87.1% |
| 2v5cA03 | 1.20.58.460 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like | 0.55 | 43.0 | 4.29e-01 | 92.2% | 82.3% |
| 8f76A01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.54 | 45.0 | 3.43e-01 | 88.3% | 78.6% |
| 3hl6A02 | 1.20.58.700 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.54 | 38.0 | 4.04e-01 | 94.5% | 81.7% |
| 3s84A02 | 1.20.120.20 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein | 0.53 | 40.0 | 3.70e-01 | 76.6% | 83.4% |
| 3f1bA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.52 | 37.0 | 3.35e-01 | 74.2% | 59.6% |
| 2wb7A03 | 1.20.120.870 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain | 0.51 | 40.0 | 3.94e-01 | 83.6% | 97.8% |
ECOD (24)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3993692 | 604.1.1.179 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF30976 | 0.77 | 56.0 | 6.18e-01 | 75.0% | 98.1% |
| 3590504 | 3758.1.1.4 ↗ | alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › TelA | 0.74 | 57.0 | 4.60e-01 | 82.0% | 85.3% |
| 3250233 | 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 | 61.0 | 5.39e-01 | 93.0% | 62.7% |
| 3591771 | 611.8.1.0 ↗ | alpha bundles › N-cbl like › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 | 0.72 | 50.0 | 4.79e-01 | 71.9% | 93.3% |
| 3732610 | 3291.1.1.3 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Ist1 | 0.71 | 51.0 | 4.33e-01 | 73.4% | 74.6% |
| 4026713 | 3684.1.1.0 ↗ | alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like | 0.71 | 63.0 | 5.63e-01 | 95.3% | 92.6% |
| 3306743 | 192.29.1.101 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Rx_N | 0.70 | 48.0 | 4.77e-01 | 70.3% | 73.3% |
| 4441047 | 601.4.1.50 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › DUF6376 | 0.69 | 57.0 | 5.78e-01 | 92.2% | 89.6% |
| 3257074 | 4177.1.1.1 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH | 0.69 | 50.0 | 3.79e-01 | 75.0% | 72.4% |
| 3979628 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.69 | 55.0 | 5.18e-01 | 85.2% | 83.2% |
| 1145722 | 601.4.1.6 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › TorS_sensor_domain | 0.68 | 46.0 | 4.38e-01 | 77.3% | 58.8% |
| 5023270 | 604.5.1.2 ↗ | alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU | 0.66 | 57.0 | 4.86e-01 | 96.1% | 91.2% |
| 3862625 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.65 | 50.0 | 4.85e-01 | 89.1% | 72.9% |
| 3863010 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.65 | 47.0 | 3.32e-01 | 75.0% | 44.4% |
| 3471820 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.64 | 55.0 | 4.55e-01 | 93.8% | 87.4% |
| 3675725 | 5057.1.1.28 ↗ | alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › PF27754 | 0.61 | 51.0 | 4.97e-01 | 90.6% | 99.3% |
| 3731546 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.60 | 45.0 | 4.11e-01 | 78.1% | 76.5% |
| 3725612 | 632.1.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain | 0.59 | 46.0 | 4.34e-01 | 80.5% | 84.0% |
| 3315414 | 3291.1.1.0 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related | 0.59 | 46.0 | 4.11e-01 | 82.8% | 98.3% |
| 3582458 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.58 | 46.0 | 3.59e-01 | 85.2% | 69.8% |
| 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 | 0.58 | 38.0 | 3.58e-01 | 88.3% | 53.5% |
| 3288953 | 1075.4.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane | 0.55 | 48.0 | 3.62e-01 | 96.1% | 90.8% |
| 3783873 | 601.19.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein | 0.54 | 39.0 | 3.89e-01 | 75.0% | 91.9% |
| 3760483 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.53 | 44.0 | 3.92e-01 | 90.6% | 98.4% |
D2
medium
residues 231-270_321-432_480-524
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01366.24 best | PRTP | 101.2 | 6.30e-29 | 60.9% | 16.6% |
| PF01366.24 | PRTP | 56.2 | 2.60e-15 | 23.9% | 6.9% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4953582 | 1075.3.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 | 0.56 | 41.0 | 4.05e-01 | 75.6% | 69.8% |
| 3818714 | 3562.1.1.11 ↗ | alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › PGG | 0.55 | 31.0 | 3.37e-01 | 74.6% | 63.7% |
D3
medium
residues 544-573_684-762