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viral_DNA_cleavage_packaging_protein
Euk-VirCricetid_gammaherpesvirus_2
viral_DNA_cleavage_packaging_protein__YP_004207868__Cricetid_gammaherpesvirus_2__1605972
Identity
- Accession:
- YP_004207868 ↗
- Protein ID:
- viral_DNA_cleavage_packaging_protein
- Kingdom:
- euk
Quality
69.2
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Rhadinovirus›
Cricetid_gammaherpesvirus_2
TaxID: 1605972
Cluster
View cluster (17 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 263-435
Domain cluster:
rep: DNA_packaging_tegument_protein_UL17__YP_009388533__Common_bottlenose_dolphin_gammaherpesvirus_1_strain_Sarasota__2022783__D344-532
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04559.18 best | Herpes_UL17 | 50.2 | 2.80e-13 | 91.9% | 32.1% |
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2kgyA00 | 3.30.505.20 | Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › | 0.55 | 27.0 | 3.57e-01 | 87.3% | 85.9% |
| 1qnaA01 | 3.30.310.10 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein | 0.55 | 23.0 | 3.06e-01 | 78.0% | 71.0% |
| 2m3xC02 | 2.40.10.360 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.52 | 19.0 | 3.11e-01 | 74.0% | 87.0% |
| 1svdM00 | 3.30.190.10 | Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit | 0.51 | 30.0 | 3.65e-01 | 76.9% | 89.8% |
| 1uenA00 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.50 | 29.0 | 3.40e-01 | 73.4% | 78.4% |
ECOD (12)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5022991 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.57 | 22.0 | 2.91e-01 | 82.7% | 63.3% |
| 3598831 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.56 | 22.0 | 2.85e-01 | 80.3% | 60.0% |
| 5073587 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.56 | 22.0 | 2.97e-01 | 76.9% | 66.3% |
| 5028032 | 331.1.1.1 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › TBP | 0.55 | 22.0 | 3.13e-01 | 77.5% | 75.3% |
| 3199398 | 331.19.1.3 ↗ | a+b two layers › TBP-like › Toxin RnlA N-terminal domains › Toxin RnlA N-terminal domains › CPSF73-100_C | 0.55 | 22.0 | 3.09e-01 | 85.5% | 76.2% |
| 4668665 | 331.2.1.8 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › CPSF73-100_C | 0.55 | 23.0 | 3.17e-01 | 83.2% | 74.4% |
| 4929392 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.55 | 23.0 | 3.10e-01 | 80.3% | 72.2% |
| 4947558 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.53 | 22.0 | 2.98e-01 | 77.5% | 71.1% |
| 3306545 | 331.2.1.8 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › CPSF73-100_C | 0.53 | 22.0 | 3.06e-01 | 83.2% | 75.3% |
| 3806422 | 247.1.1.38 ↗ | a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C | 0.53 | 22.0 | 3.04e-01 | 85.0% | 75.3% |
| 3263502 | 331.4.1.9 ↗ | a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › CPSF73-100_C | 0.53 | 24.0 | 3.15e-01 | 85.5% | 76.7% |
| 4968206 | 331.1.1.1 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › TBP | 0.51 | 23.0 | 3.01e-01 | 90.2% | 77.6% |
D2
medium
residues 1-127_210-260
Domain cluster:
rep: ORF32__YP_010084395__Retroperitoneal_fibromatosis-associated_herpesvirus__111469__D1-125_229-267
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04559.18 best | Herpes_UL17 | 33.5 | 3.20e-08 | 85.4% | 26.1% |
CATH (33)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4ofkB00 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.67 | 34.0 | 4.36e-01 | 87.6% | 82.7% |
| 2yeqA01 | 2.60.40.380 | Mainly Beta › Sandwich › Immunoglobulin-like › Purple acid phosphatase-like, N-terminal | 0.64 | 34.0 | 4.27e-01 | 85.4% | 83.5% |
| 4i0kA02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.64 | 31.0 | 4.14e-01 | 91.6% | 86.3% |
| 1kv3A03 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.64 | 37.0 | 4.49e-01 | 86.0% | 87.2% |
| 1nepA00 | 2.60.40.770 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.62 | 36.0 | 4.13e-01 | 85.4% | 76.9% |
| 1nh8A03 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.62 | 26.0 | 4.02e-01 | 80.3% | 100.0% |
| 2vd3A03 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.61 | 26.0 | 3.90e-01 | 80.9% | 93.2% |
| 4kkpA02 | 2.60.40.3880 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.61 | 33.0 | 4.00e-01 | 90.4% | 80.5% |
| 5yppA00 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.61 | 29.0 | 3.95e-01 | 80.9% | 87.8% |
| 1ex0A03 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.61 | 35.0 | 4.31e-01 | 86.0% | 88.6% |
| 2r39A00 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.60 | 32.0 | 4.02e-01 | 87.1% | 83.5% |
| 1gyvA00 | 2.60.40.1230 | Mainly Beta › Sandwich › Immunoglobulin-like › Gamma-adaptin ear (GAE) domain | 0.60 | 34.0 | 4.04e-01 | 86.5% | 80.8% |
| 4ushA00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.59 | 30.0 | 3.77e-01 | 82.0% | 80.6% |
| 3mwbB03 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.59 | 29.0 | 3.78e-01 | 83.1% | 84.2% |
| 5a2fA02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.59 | 33.0 | 4.08e-01 | 84.8% | 87.5% |
| 3butA00 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.59 | 38.0 | 4.41e-01 | 93.3% | 92.0% |
| 7uzsX03 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.57 | 33.0 | 4.03e-01 | 86.0% | 87.0% |
| 2wllA02 | 2.60.40.1400 | Mainly Beta › Sandwich › Immunoglobulin-like › G protein-activated inward rectifier potassium channel 1 | 0.56 | 41.0 | 4.46e-01 | 82.0% | 90.3% |
| 7clyA01 | 2.60.40.150 | Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain | 0.56 | 44.0 | 4.47e-01 | 82.6% | 98.9% |
| 3bguA01 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.56 | 31.0 | 4.05e-01 | 83.1% | 100.0% |
| 4ozjA00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 29.0 | 3.64e-01 | 82.6% | 83.7% |
| 5is2A01 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.55 | 29.0 | 3.73e-01 | 82.6% | 93.4% |
| 2mq8A00 | 3.30.70.600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 | 0.54 | 32.0 | 3.95e-01 | 84.8% | 92.0% |
| 4dipH00 | 3.10.50.40 | Alpha Beta › Roll › Chitinase A; domain 3 › | 0.54 | 29.0 | 3.48e-01 | 85.4% | 77.3% |
| 2anrA02 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.53 | 25.0 | 3.53e-01 | 78.1% | 100.0% |
| 3m05B01 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.53 | 29.0 | 3.81e-01 | 81.5% | 100.0% |
| 1ygyA04 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.52 | 25.0 | 3.47e-01 | 82.6% | 100.0% |
| 2op5B01 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 30.0 | 3.84e-01 | 82.6% | 100.0% |
| 2dqlA00 | 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 | 0.52 | 26.0 | 3.16e-01 | 89.9% | 71.3% |
| 3voqA00 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.51 | 31.0 | 3.63e-01 | 89.9% | 87.9% |
| 2wliA02 | 2.60.40.1400 | Mainly Beta › Sandwich › Immunoglobulin-like › G protein-activated inward rectifier potassium channel 1 | 0.51 | 40.0 | 4.21e-01 | 84.3% | 90.7% |
| 4h40A02 | 2.60.40.3740 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.51 | 39.0 | 4.25e-01 | 87.6% | 100.0% |
| 2gffA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.50 | 27.0 | 3.50e-01 | 80.9% | 94.8% |
ECOD (35)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4998047 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.62 | 36.0 | 3.99e-01 | 85.4% | 71.2% |
| 3297485 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.62 | 41.0 | 4.49e-01 | 79.2% | 79.3% |
| 3390975 | 11.1.1.99 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set | 0.62 | 34.0 | 4.16e-01 | 87.6% | 83.6% |
| 3438038 | 11.2.1.37 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DUF6598 | 0.61 | 44.0 | 4.99e-01 | 85.4% | 98.5% |
| 3885349 | 11.1.1.96 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set | 0.61 | 31.0 | 3.94e-01 | 91.0% | 81.9% |
| 3869055 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.61 | 30.0 | 4.12e-01 | 89.3% | 93.3% |
| 5069825 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.61 | 34.0 | 4.21e-01 | 88.2% | 89.5% |
| 4049751 | 11.1.1.148 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › FixG_C | 0.60 | 34.0 | 4.13e-01 | 85.4% | 85.2% |
| 3415037 | 11.1.1.179 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 | 0.60 | 31.0 | 4.00e-01 | 91.6% | 85.7% |
| 3584645 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.59 | 35.0 | 4.21e-01 | 88.2% | 87.8% |
| 3590219 | 304.5.1.7 ↗ | a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 | 0.59 | 29.0 | 3.81e-01 | 82.0% | 86.7% |
| 3339079 | 11.2.1.1 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 | 0.59 | 46.0 | 4.86e-01 | 83.7% | 93.5% |
| 5038237 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.59 | 31.0 | 4.12e-01 | 87.6% | 94.7% |
| 4969744 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.59 | 36.0 | 4.18e-01 | 89.3% | 85.6% |
| 3467165 | 11.1.1.621 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_TMEM131_2 | 0.58 | 36.0 | 4.16e-01 | 88.8% | 85.6% |
| 3628325 | 327.11.2.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) | 0.58 | 23.0 | 3.68e-01 | 71.3% | 98.5% |
| 4969712 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.57 | 33.0 | 3.08e-01 | 86.0% | 44.0% |
| 5070841 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.57 | 31.0 | 3.77e-01 | 85.4% | 82.7% |
| 4980431 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.57 | 31.0 | 3.78e-01 | 86.0% | 81.7% |
| 3165390 | 304.24.1.36 ↗ | a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SPOR | 0.56 | 28.0 | 3.80e-01 | 80.3% | 100.0% |
| 3455907 | 11.2.1.37 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DUF6598 | 0.55 | 39.0 | 4.47e-01 | 84.3% | 100.0% |
| 4935371 | 327.11.2.87 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › FLAD1_M | 0.55 | 18.0 | 2.87e-01 | 79.8% | 72.9% |
| 4029291 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.55 | 38.0 | 4.25e-01 | 70.2% | 89.3% |
| 5027566 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.55 | 25.0 | 3.42e-01 | 88.8% | 84.7% |
| 3716719 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.54 | 38.0 | 3.52e-01 | 98.3% | 57.3% |
| 3587356 | 304.5.1.7 ↗ | a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 | 0.54 | 26.0 | 3.41e-01 | 82.0% | 85.6% |
| 3211554 | 11.1.1.99 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set | 0.54 | 31.0 | 3.76e-01 | 86.0% | 87.0% |
| 4240253 | 331.2.1.1 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › PGM_PMM_IV | 0.54 | 24.0 | 3.55e-01 | 74.7% | 98.6% |
| 3868241 | 11.1.5.95 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › TMEM132_3rd | 0.53 | 37.0 | 4.00e-01 | 88.8% | 86.2% |
| 5019384 | 304.39.1.0 ↗ | a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain | 0.53 | 27.0 | 3.48e-01 | 76.4% | 88.4% |
| 4565519 | 11.1.1.96 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set | 0.52 | 34.0 | 3.91e-01 | 77.5% | 89.2% |
| 3498546 | 304.162.1.2 ↗ | a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › FLAD1_M | 0.51 | 25.0 | 3.42e-01 | 75.8% | 100.0% |
| 5036327 | 304.114.1.0 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain | 0.51 | 22.0 | 3.21e-01 | 73.6% | 100.0% |
| 3726634 | 327.11.2.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) | 0.51 | 25.0 | 3.45e-01 | 82.0% | 100.0% |
| 4105022 | 304.5.1.7 ↗ | a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 | 0.50 | 24.0 | 3.15e-01 | 82.0% | 83.3% |