←Back to structures
helicase-primase_helicase_subunit
Euk-VirHuman_gammaherpesvirus_4
helicase-primase_helicase_subunit__YP_401681__Human_gammaherpesvirus_4__10376
Identity
- Accession:
- YP_401681 ↗
- Protein ID:
- helicase-primase_helicase_subunit
- Kingdom:
- euk
Quality
77.3
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Lymphocryptovirus›
human_gammaherpesvirus_4
TaxID: 10376
Cluster
View cluster (90 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 302-369_732-785
Domain cluster:
rep: helicase-primase_ATPase_subunit__YP_010087484__Phascolarctid_gammaherpesvirus_1__2249313__D338-366_706-759
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01443.25 best | Viral_helicase1 | 26.4 | 7.90e-06 | 67.2% | 28.1% |
| PF02689.21 | Herpes_Helicase | 110.7 | 8.00e-32 | 56.6% | 8.2% |
| PF02689.21 | Herpes_Helicase | 87.6 | 8.00e-25 | 47.5% | 6.6% |
D2
medium
residues 65-122_197-208_230-300_786-809
Domain cluster:
rep: helicase-primase_helicase_subunit__NP_077469__Cercopithecine_alphaherpesvirus_9__35246__D94-136_227-238_265-286_299-331_845-869
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01443.25 best | Viral_helicase1 | 29.7 | 8.00e-07 | 80.6% | 44.3% |
| PF02689.21 | Herpes_Helicase | 126.1 | 1.80e-36 | 46.7% | 8.9% |
| PF02689.21 | Herpes_Helicase | 95.7 | 2.80e-27 | 36.4% | 7.7% |
D3
medium
residues 123-171_209-229
Domain cluster:
rep: helicase-primase_helicase_subunit__YP_007969770__Elephantid_betaherpesvirus_1__146015__D128-178
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02689.21 best | Herpes_Helicase | 48.8 | 4.20e-13 | 72.9% | 6.1% |
| PF02689.21 | Herpes_Helicase | 27.9 | 8.90e-07 | 32.9% | 2.6% |
D4
medium
residues 383-471_648-661_682-731
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02689.21 best | Herpes_Helicase | 125.2 | 3.30e-36 | 68.6% | 12.6% |
| PF02689.21 | Herpes_Helicase | 64.8 | 6.30e-18 | 37.2% | 6.2% |
CATH (34)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1zpvA00 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.65 | 35.0 | 4.54e-01 | 95.4% | 94.1% |
| 5yppA00 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.62 | 32.0 | 3.98e-01 | 93.5% | 82.2% |
| 3ibwA00 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.61 | 33.0 | 4.27e-01 | 95.4% | 97.5% |
| 3mtjA03 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.61 | 31.0 | 4.13e-01 | 94.1% | 94.7% |
| 2lqjA00 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.60 | 34.0 | 4.18e-01 | 95.4% | 89.4% |
| 5ajiB03 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.60 | 36.0 | 4.39e-01 | 93.5% | 94.7% |
| 3c1mA02 | 3.30.2130.10 | Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like | 0.60 | 34.0 | 3.32e-01 | 94.8% | 50.0% |
| 2nyiA01 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.58 | 31.0 | 3.98e-01 | 95.4% | 93.8% |
| 4djbA00 | 3.30.70.2870 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 | 0.58 | 41.0 | 4.64e-01 | 94.8% | 94.9% |
| 1u8sA01 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.58 | 32.0 | 4.00e-01 | 95.4% | 91.9% |
| 2bj3D02 | 3.30.70.1150 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 | 0.58 | 30.0 | 3.90e-01 | 94.1% | 91.4% |
| 2r7rA04 | 3.30.70.2480 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.57 | 34.0 | 3.42e-01 | 93.5% | 55.4% |
| 3tviA02 | 3.30.2130.10 | Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like | 0.56 | 31.0 | 3.10e-01 | 95.4% | 49.1% |
| 3keyA02 | 3.30.1370.230 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › Stn1, C-terminal wHTH domain | 0.56 | 27.0 | 3.42e-01 | 94.8% | 77.3% |
| 4bbyA05 | 3.30.300.330 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › | 0.55 | 35.0 | 4.01e-01 | 94.8% | 88.0% |
| 1lq9A00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 34.0 | 3.91e-01 | 96.1% | 84.8% |
| 1r89A03 | 3.30.70.590 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Poly(A) polymerase predicted RNA binding domain | 0.54 | 36.0 | 3.81e-01 | 94.8% | 74.6% |
| 3otdA00 | 3.30.70.3000 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) | 0.54 | 38.0 | 3.34e-01 | 95.4% | 46.7% |
| 2fyxA00 | 3.30.70.1290 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like | 0.54 | 36.0 | 3.88e-01 | 96.1% | 79.2% |
| 1darA05 | 3.30.70.240 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.54 | 31.0 | 3.89e-01 | 98.0% | 97.7% |
| 2ogkD00 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.53 | 40.0 | 4.16e-01 | 95.4% | 83.8% |
| 1j4wA01 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.53 | 27.0 | 3.75e-01 | 92.2% | 100.0% |
| 1o51A00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.53 | 29.0 | 3.70e-01 | 95.4% | 91.0% |
| 4er8A00 | 3.30.70.1290 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like | 0.53 | 33.0 | 3.23e-01 | 94.8% | 55.2% |
| 5wpjA02 | 3.30.70.420 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hydroxymethylglutaryl-CoA reductase, class I/II, NAD/NADP-binding domain | 0.53 | 35.0 | 4.05e-01 | 92.8% | 94.4% |
| 2nrqA00 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.53 | 39.0 | 4.14e-01 | 94.1% | 86.1% |
| 2nwuB01 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.53 | 39.0 | 4.23e-01 | 96.7% | 92.1% |
| 3w3sA01 | 3.30.70.1920 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 34.0 | 3.34e-01 | 94.8% | 58.9% |
| 2f5gA00 | 3.30.70.1290 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like | 0.52 | 34.0 | 3.70e-01 | 95.4% | 77.7% |
| 4ozjA00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 29.0 | 3.48e-01 | 94.8% | 79.8% |
| 1f3vA00 | 3.30.70.680 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › TRADD, N-terminal domain | 0.51 | 41.0 | 4.07e-01 | 96.7% | 81.6% |
| 2a6mA00 | 3.30.70.1290 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transposase IS200-like | 0.51 | 34.0 | 3.70e-01 | 95.4% | 80.8% |
| 2b4vA03 | 3.30.70.1970 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 32.0 | 3.77e-01 | 96.1% | 96.0% |
| 4nasB01 | 3.30.70.150 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain | 0.50 | 33.0 | 3.74e-01 | 94.1% | 88.5% |
ECOD (43)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3220797 | 4.1.1.140 ↗ | beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom | 0.75 | 51.0 | 6.05e-01 | 98.0% | 100.0% |
| 4939906 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.69 | 35.0 | 4.87e-01 | 94.1% | 100.0% |
| 3965651 | 304.8.1.8 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_4 | 0.65 | 34.0 | 4.53e-01 | 94.8% | 100.0% |
| 4023676 | 3156.3.1.0 ↗ | beta sandwiches › Cupredoxin-like › Surface antigen 1 (SAG1)-related-sequence (SRS) family › Surface antigen 1 (SAG1)-related-sequence (SRS) family | 0.63 | 38.0 | 3.97e-01 | 96.1% | 64.3% |
| 3839688 | 872.10.1.0 ↗ | a+b two layers › Dodecin subunit-like › Secreted protein HP1454 N-terminal domain › Secreted protein HP1454 N-terminal domain | 0.63 | 30.0 | 3.91e-01 | 98.0% | 78.9% |
| 4516880 | 304.8.1.74 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › PF26539 | 0.62 | 33.0 | 4.43e-01 | 96.1% | 98.8% |
| 136544 | 304.8.1.8 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_4 | 0.62 | 33.0 | 4.32e-01 | 95.4% | 96.2% |
| 3615945 | 304.18.1.1 ↗ | a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB | 0.62 | 38.0 | 4.70e-01 | 94.1% | 98.9% |
| 3829359 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.62 | 35.0 | 4.51e-01 | 89.5% | 100.0% |
| 4976516 | 304.19.1.0 ↗ | a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain | 0.60 | 35.0 | 4.40e-01 | 96.1% | 96.7% |
| 3704046 | 304.55.2.0 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like | 0.60 | 36.0 | 4.40e-01 | 90.8% | 94.7% |
| 3499425 | 304.18.1.1 ↗ | a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB | 0.60 | 42.0 | 4.80e-01 | 94.8% | 100.0% |
| 3602520 | 304.126.1.0 ↗ | a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C | 0.60 | 29.0 | 4.01e-01 | 95.4% | 94.7% |
| 4966429 | 304.126.1.0 ↗ | a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C | 0.59 | 28.0 | 3.86e-01 | 94.1% | 94.3% |
| 3740116 | 4.1.1.140 ↗ | beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom | 0.59 | 55.0 | 5.34e-01 | 98.7% | 97.6% |
| 5000388 | 304.44.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 | 0.57 | 33.0 | 4.09e-01 | 96.1% | 93.3% |
| 3896678 | 304.47.1.1 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA | 0.57 | 42.0 | 4.69e-01 | 94.8% | 99.2% |
| 3633972 | 304.18.1.1 ↗ | a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB | 0.56 | 38.0 | 4.46e-01 | 94.8% | 100.0% |
| 3513756 | 872.3.1.5 ↗ | a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like › YbjQ_2 | 0.56 | 31.0 | 3.78e-01 | 100.0% | 85.3% |
| 4575105 | 882.1.1.0 ↗ | a+b two layers › Ribosomal protein L5 › Ribosomal protein L5 › Ribosomal protein L5 | 0.56 | 43.0 | 4.43e-01 | 97.4% | 83.3% |
| 4062444 | 304.162.1.0 ↗ | a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain | 0.56 | 32.0 | 4.05e-01 | 94.1% | 100.0% |
| 3596147 | 304.12.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 | 0.56 | 34.0 | 4.03e-01 | 96.1% | 88.6% |
| 3765409 | 304.47.1.1 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA | 0.56 | 37.0 | 4.19e-01 | 95.4% | 90.4% |
| 3763545 | 304.47.1.0 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain | 0.55 | 39.0 | 4.41e-01 | 94.1% | 96.5% |
| 3763542 | 304.47.1.1 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA | 0.55 | 38.0 | 4.35e-01 | 94.8% | 98.2% |
| 3270182 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.54 | 32.0 | 3.78e-01 | 99.3% | 84.8% |
| 3588477 | 304.31.1.1 ↗ | a+b two layers › Alpha-beta plaits › HMG-CoA reductase › NAD-binding domain of HMG-CoA reductase › HMG-CoA_red | 0.54 | 36.0 | 4.16e-01 | 93.5% | 95.5% |
| 3520411 | 304.47.1.0 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain | 0.54 | 36.0 | 4.11e-01 | 96.1% | 94.5% |
| 1182809 | 304.31.1.1 ↗ | a+b two layers › Alpha-beta plaits › HMG-CoA reductase › NAD-binding domain of HMG-CoA reductase › HMG-CoA_red | 0.54 | 36.0 | 4.10e-01 | 94.1% | 93.7% |
| 4990439 | 304.116.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor | 0.53 | 32.0 | 3.88e-01 | 93.5% | 91.0% |
| 3706258 | 872.3.1.5 ↗ | a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like › YbjQ_2 | 0.53 | 34.0 | 3.72e-01 | 96.7% | 78.4% |
| 3241169 | 304.47.1.1 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA | 0.52 | 37.0 | 4.17e-01 | 94.1% | 97.4% |
| 4943953 | 304.31.1.1 ↗ | a+b two layers › Alpha-beta plaits › HMG-CoA reductase › NAD-binding domain of HMG-CoA reductase › HMG-CoA_red | 0.52 | 36.0 | 4.01e-01 | 94.8% | 92.2% |
| 3760105 | 304.47.1.0 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain | 0.52 | 36.0 | 4.04e-01 | 94.8% | 93.9% |
| 3986660 | 304.55.2.0 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like | 0.52 | 31.0 | 3.70e-01 | 92.8% | 91.0% |
| 5008586 | 304.116.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor | 0.51 | 31.0 | 3.79e-01 | 94.8% | 95.8% |
| 2165976 | 310.3.1.4 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › GspL_C | 0.51 | 26.0 | 3.40e-01 | 90.2% | 90.0% |
| 3411428 | 304.47.1.1 ↗ | a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA | 0.51 | 41.0 | 4.33e-01 | 96.1% | 96.3% |
| 4994778 | 304.55.2.1 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › Y1_Tnp | 0.51 | 34.0 | 3.69e-01 | 94.8% | 80.8% |
| 271678 | 304.4.1.9 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Chlor_dismutase | 0.51 | 33.0 | 3.50e-01 | 96.1% | 72.9% |
| 5043656 | 304.116.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor | 0.51 | 31.0 | 3.75e-01 | 93.5% | 96.8% |
| 5012937 | 304.116.1.6 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor › acVLRF1 | 0.50 | 31.0 | 3.71e-01 | 93.5% | 95.8% |
| 4948091 | 304.116.1.5 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor › DUF460 | 0.50 | 31.0 | 3.65e-01 | 93.5% | 91.0% |
D5
medium
residues 472-546_567-622
Domain cluster:
rep: helicase-primase_helicase_subunit__YP_004940266__Saimiriine_betaherpesvirus_4__1535247__D509-572_638-677
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02689.21 best | Herpes_Helicase | 80.9 | 8.20e-23 | 61.1% | 8.9% |
| PF02689.21 | Herpes_Helicase | 34.3 | 1.00e-08 | 45.8% | 6.6% |
D6
medium
residues 623-647_662-681
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2cn2A02 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.53 | 39.0 | 2.38e-01 | 86.7% | 33.5% |