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DNA_polymerase_catalytic_subunit
Euk-VirPsittacid_alphaherpesvirus_1
DNA_polymerase_catalytic_subunit__NP_944403__Psittacid_alphaherpesvirus_1__50294
Identity
- Accession:
- NP_944403 ↗
- Protein ID:
- DNA_polymerase_catalytic_subunit
- Kingdom:
- euk
Quality
79.5
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Iltovirus›
Psittacid_alphaherpesvirus_1
TaxID: 50294
Cluster
View cluster (158 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 105-157_257-307
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03104.26 best | DNA_pol_B_exo1 | 24.0 | 3.40e-05 | 54.8% | 19.0% |
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3iayA01 | 2.40.50.730 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.84 | 62.0 | 6.43e-01 | 100.0% | 81.6% |
| 4b08A01 | 2.40.50.730 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.82 | 54.0 | 6.12e-01 | 100.0% | 86.4% |
| 3u4vA00 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.74 | 54.0 | 5.18e-01 | 100.0% | 67.2% |
| 1jb7A02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.73 | 48.0 | 4.68e-01 | 100.0% | 60.3% |
| 2gu3A01 | 3.10.450.40 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.73 | 33.0 | 4.20e-01 | 89.4% | 70.8% |
| 3q8dA01 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.71 | 45.0 | 5.14e-01 | 100.0% | 87.0% |
| 3k7uC00 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.70 | 54.0 | 5.62e-01 | 100.0% | 85.7% |
| 6aqgA01 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.68 | 48.0 | 4.29e-01 | 100.0% | 53.2% |
| 1fguB02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.68 | 50.0 | 4.71e-01 | 100.0% | 64.5% |
| 4egvA02 | 2.40.50.840 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.67 | 42.0 | 4.81e-01 | 99.0% | 86.7% |
| 1xjvA01 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.67 | 48.0 | 4.34e-01 | 100.0% | 54.9% |
| 4me3A02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.66 | 46.0 | 4.79e-01 | 100.0% | 77.3% |
| 3rd4B00 | 2.40.50.660 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.61 | 41.0 | 4.49e-01 | 100.0% | 86.6% |
| 4pmwA02 | 2.40.50.700 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.59 | 38.0 | 4.18e-01 | 100.0% | 85.9% |
| 8aimG01 | 3.10.450.20 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor | 0.58 | 37.0 | 4.12e-01 | 97.1% | 82.7% |
| 4xfwA00 | 3.10.200.10 | Alpha Beta › Roll › Carbonic Anhydrase II › Alpha carbonic anhydrase | 0.55 | 49.0 | 3.86e-01 | 100.0% | 67.3% |
| 4twlA00 | 3.10.200.10 | Alpha Beta › Roll › Carbonic Anhydrase II › Alpha carbonic anhydrase | 0.55 | 48.0 | 3.68e-01 | 96.2% | 50.2% |
| 3q31A00 | 3.10.200.10 | Alpha Beta › Roll › Carbonic Anhydrase II › Alpha carbonic anhydrase | 0.55 | 48.0 | 3.70e-01 | 96.2% | 48.7% |
| 1kopA00 | 3.10.200.10 | Alpha Beta › Roll › Carbonic Anhydrase II › Alpha carbonic anhydrase | 0.54 | 47.0 | 3.68e-01 | 96.2% | 48.4% |
| 1pg5B02 | 2.30.30.20 | Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain | 0.54 | 29.0 | 3.56e-01 | 81.7% | 91.2% |
| 3rcyB01 | 3.30.390.10 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain | 0.53 | 42.0 | 3.80e-01 | 85.6% | 82.3% |
| 2qdeA01 | 3.30.390.10 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain | 0.52 | 42.0 | 3.85e-01 | 85.6% | 87.5% |
| 2oztA01 | 3.30.390.10 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain | 0.52 | 42.0 | 4.05e-01 | 86.5% | 97.5% |
| 2v8qA01 | 3.30.310.80 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 | 0.51 | 30.0 | 3.24e-01 | 86.5% | 66.3% |
| 4ihqA01 | 3.30.450.370 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › | 0.51 | 35.0 | 3.02e-01 | 93.3% | 45.9% |
| 2pgwA01 | 3.30.390.10 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain | 0.51 | 40.0 | 3.62e-01 | 86.5% | 91.3% |
| 2n6eA00 | 3.40.1530.20 | Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1805 › Protein of unknown function (DUF1491) | 0.50 | 35.0 | 3.50e-01 | 91.3% | 69.1% |
| 3gd6A01 | 3.30.390.10 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain | 0.50 | 39.0 | 3.59e-01 | 85.6% | 93.7% |
ECOD (57)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4001702 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.89 | 73.0 | 7.04e-01 | 100.0% | 76.5% |
| 3222288 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.89 | 73.0 | 7.01e-01 | 100.0% | 76.5% |
| 3514098 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.89 | 76.0 | 7.27e-01 | 100.0% | 80.0% |
| 5025207 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.88 | 64.0 | 7.14e-01 | 100.0% | 91.8% |
| 3791987 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.88 | 73.0 | 7.00e-01 | 100.0% | 77.4% |
| 4018347 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.88 | 56.0 | 5.92e-01 | 100.0% | 71.6% |
| 3480547 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.87 | 74.0 | 7.07e-01 | 100.0% | 78.0% |
| 3704723 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.87 | 77.0 | 7.17e-01 | 100.0% | 76.8% |
| 3592676 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.87 | 77.0 | 7.14e-01 | 100.0% | 76.8% |
| 3350050 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.86 | 76.0 | 6.67e-01 | 100.0% | 66.2% |
| 4028782 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.86 | 81.0 | 6.97e-01 | 100.0% | 78.1% |
| 5027238 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.85 | 64.0 | 5.51e-01 | 100.0% | 53.3% |
| 3417038 | 2.1.1.179 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REV3_N | 0.85 | 77.0 | 7.13e-01 | 100.0% | 78.4% |
| 5055355 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.85 | 63.0 | 6.72e-01 | 100.0% | 87.8% |
| 4024809 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.84 | 63.0 | 6.74e-01 | 100.0% | 88.9% |
| 5012082 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.83 | 64.0 | 6.72e-01 | 100.0% | 87.4% |
| 5005284 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.81 | 64.0 | 6.72e-01 | 100.0% | 89.5% |
| 5028838 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.81 | 58.0 | 6.43e-01 | 100.0% | 90.6% |
| 3370809 | 2.1.1.179 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REV3_N | 0.81 | 65.0 | 7.00e-01 | 96.2% | 96.7% |
| 3891602 | 2.1.1.276 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1, REV3_N | 0.81 | 77.0 | 7.03e-01 | 100.0% | 80.8% |
| 3496491 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.80 | 74.0 | 7.40e-01 | 100.0% | 96.2% |
| 4025113 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.80 | 72.0 | 6.75e-01 | 100.0% | 79.2% |
| 3932593 | 2.1.1.179 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REV3_N | 0.80 | 72.0 | 7.26e-01 | 100.0% | 95.2% |
| 3579168 | 2.1.1.179 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REV3_N | 0.80 | 75.0 | 6.46e-01 | 100.0% | 78.7% |
| 3738561 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.79 | 74.0 | 7.39e-01 | 100.0% | 97.1% |
| 3800859 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.79 | 75.0 | 5.87e-01 | 100.0% | 98.5% |
| 3214819 | 2.1.1.179 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REV3_N | 0.79 | 74.0 | 6.50e-01 | 100.0% | 86.9% |
| 3715842 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.78 | 69.0 | 7.07e-01 | 99.0% | 97.0% |
| 3964458 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.76 | 50.0 | 5.39e-01 | 100.0% | 77.8% |
| 5000724 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.75 | 56.0 | 5.92e-01 | 100.0% | 85.3% |
| 3691681 | 2.1.1.25 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 | 0.74 | 69.0 | 6.28e-01 | 100.0% | 77.7% |
| 3679928 | 2.1.1.179 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REV3_N | 0.74 | 70.0 | 6.41e-01 | 100.0% | 95.4% |
| 3788812 | 304.114.1.6 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain › DNA_pol_B_exo1 | 0.74 | 71.0 | 5.17e-01 | 100.0% | 70.0% |
| 4213053 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.73 | 48.0 | 5.05e-01 | 100.0% | 73.7% |
| 3239000 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.73 | 49.0 | 4.53e-01 | 100.0% | 54.6% |
| 4944520 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.72 | 68.0 | 5.11e-01 | 100.0% | 70.9% |
| 5030410 | 2.1.1.15 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon | 0.70 | 51.0 | 5.30e-01 | 100.0% | 82.1% |
| 3220752 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.70 | 53.0 | 5.26e-01 | 100.0% | 75.5% |
| 4942684 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.70 | 67.0 | 5.49e-01 | 100.0% | 94.1% |
| 3168835 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.70 | 66.0 | 6.14e-01 | 100.0% | 93.6% |
| 4997715 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.69 | 66.0 | 5.47e-01 | 100.0% | 91.8% |
| 4972474 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.69 | 66.0 | 3.87e-01 | 100.0% | 23.7% |
| 5019480 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.68 | 65.0 | 3.79e-01 | 100.0% | 24.4% |
| 4299557 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.68 | 64.0 | 5.05e-01 | 100.0% | 82.1% |
| 3650904 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.66 | 49.0 | 5.17e-01 | 99.0% | 85.3% |
| 3681185 | 2.1.1.130 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF223 | 0.66 | 52.0 | 3.93e-01 | 100.0% | 36.3% |
| 3567138 | 2.1.1.133 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF4503 | 0.61 | 56.0 | 5.08e-01 | 100.0% | 76.4% |
| 4341423 | 2.1.1.279 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF4131 | 0.61 | 49.0 | 4.72e-01 | 100.0% | 75.0% |
| 4010867 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.56 | 48.0 | 4.59e-01 | 100.0% | 79.2% |
| 3189564 | 62.1.1.1 ↗ | beta meanders › Carbonic anhydrase › Carbonic anhydrase › Carbonic anhydrase › Carb_anhydrase | 0.56 | 49.0 | 3.68e-01 | 96.2% | 49.6% |
| 3669298 | 62.1.1.1 ↗ | beta meanders › Carbonic anhydrase › Carbonic anhydrase › Carbonic anhydrase › Carb_anhydrase | 0.55 | 48.0 | 3.68e-01 | 96.2% | 48.3% |
| 3335014 | 2484.8.1.1 ↗ | mixed a+b and a/b › Ribonuclease H-like › Separase pseudo-protease domain (PPD) › Separase pseudo-protease domain (PPD) › Peptidase_C50 | 0.54 | 49.0 | 3.46e-01 | 100.0% | 85.2% |
| 4612013 | 3186.1.1.1 ↗ | a+b two layers › C-terminal domain of FliK › C-terminal domain of FliK › C-terminal domain of FliK › Flg_hook | 0.54 | 39.0 | 4.05e-01 | 98.1% | 81.1% |
| 4061502 | 62.1.1.1 ↗ | beta meanders › Carbonic anhydrase › Carbonic anhydrase › Carbonic anhydrase › Carb_anhydrase | 0.54 | 47.0 | 3.64e-01 | 96.2% | 52.0% |
| 1568997 | 62.1.1.1 ↗ | beta meanders › Carbonic anhydrase › Carbonic anhydrase › Carbonic anhydrase › Carb_anhydrase | 0.53 | 46.0 | 3.57e-01 | 96.2% | 47.8% |
| 3719807 | 277.1.1.1 ↗ | a+b two layers › PX domain › PX domain › PX domain › PX | 0.51 | 38.0 | 3.52e-01 | 79.8% | 96.4% |
| 3275072 | 7579.1.1.3 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S9 | 0.51 | 37.0 | 2.57e-01 | 95.2% | 20.8% |
D2
high
residues 160-254
D3
medium
residues 23-75
D4
medium
residues 317-411_500-539
Domain cluster:
rep: NC_074638__YP_010771999.1__QIT35-gp09__00009__D105-204
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03104.26 best | DNA_pol_B_exo1 | 77.2 | 1.90e-21 | 79.3% | 45.0% |
D5
medium
residues 540-588_632-758
Domain cluster:
rep: IMGVR_UViG_3300048031_000811-3300048031-Ga0494182_008429_2395_4416__D190-244_288-384
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00136.27 best | DNA_pol_B | 164.1 | 6.90e-48 | 72.7% | 27.8% |
D6
medium
residues 613-631_759-872
Domain cluster:
rep: DNA_polymerase_catalytic_subunit__YP_002608259__Human_herpesvirus_5__10359__D703-718_902-984
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00136.27 best | DNA_pol_B | 106.5 | 2.00e-30 | 86.5% | 25.2% |
D7
medium
residues 873-934_1023-1081