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DNA_polymerase_processivity_subunit

Euk-Vir

Rhinolophus_gammaherpesvirus_1

DNA_polymerase_processivity_subunit__YP_009551873__Rhinolophus_gammaherpesvirus_1__2054179

Identity

Accession:
YP_009551873 ↗
Protein ID:
DNA_polymerase_processivity_subunit
Kingdom:
euk

Quality

72.6 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Percavirus› Rhinolophus_gammaherpesvirus_1

TaxID: 2054179

Cluster

View cluster (51 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-141
PDB
Domain cluster: rep: DNA_polymerase_processivity_subunit__YP_009552524__Eptesicus_fuscus_gammaherpesvirus__2035399__D11-147
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04929.18 best Herpes_DNAp_acc 117.9 7.80e-34 97.8% 33.5%
D2 high residues 159-270
PDB
Domain cluster: rep: IMGVR_UViG_3300033990_000272-3300033990-Ga0373184_0008483_4516_5451__D198-306
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04929.18 best Herpes_DNAp_acc 117.4 1.20e-33 99.1% 26.2%
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2z0lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.93 87.0 6.13e-01 100.0% 36.6%
3hslX00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.90 86.0 6.13e-01 100.0% 39.0%
1t6lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.86 70.0 5.24e-01 100.0% 38.2%
5wceA03 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.79 61.0 6.03e-01 100.0% 76.5%
3ifvC00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.78 61.0 4.70e-01 100.0% 38.7%
4trtA03 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.77 61.0 5.97e-01 100.0% 76.7%
1sxjH02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.77 64.0 6.13e-01 100.0% 77.3%
1rwzA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.76 61.0 4.63e-01 100.0% 38.5%
5w7zA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.75 60.0 6.03e-01 100.0% 83.2%
1dmlA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.72 59.0 4.42e-01 100.0% 36.7%
1b77A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.68 53.0 4.17e-01 100.0% 40.8%
2ix2B00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.66 61.0 4.66e-01 100.0% 46.1%
1vpkA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.65 59.0 5.79e-01 100.0% 90.8%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.65 31.0 3.88e-01 86.6% 74.2%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.62 28.0 3.10e-01 83.9% 50.5%
2ix2A01 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.61 55.0 4.38e-01 100.0% 50.2%
2h1qA01 3.30.390.100 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.59 39.0 3.74e-01 89.3% 57.8%
1e8oD00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.56 34.0 4.04e-01 80.4% 89.5%
3d31A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 25.0 3.58e-01 84.8% 100.0%
1p9rA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.53 37.0 3.80e-01 72.3% 91.9%
4pn0C00 3.20.100.10 Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › mRNA triphosphatase Cet1-like 0.51 44.0 3.35e-01 92.9% 93.0%
3er9B03 3.30.460.60 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Poxvirus poly(A) polymerase, nucleotidyltransferase domain 0.51 38.0 3.58e-01 92.9% 65.4%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1082804 227.1.1.13 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_DNAp_acc 0.93 87.0 7.82e-01 100.0% 74.7%
1178584 227.1.1.13 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_DNAp_acc 0.90 86.0 7.73e-01 100.0% 76.7%
3624708 227.1.1.4 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad1 0.80 64.0 5.97e-01 100.0% 69.6%
3251045 227.1.1.6 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_C 0.79 65.0 5.79e-01 100.0% 63.0%
4437554 227.1.1.8 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_3 0.79 63.0 6.06e-01 100.0% 74.4%
3738030 227.1.1.4 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad1 0.79 65.0 6.07e-01 100.0% 71.9%
2096126 227.1.1.8 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_3 0.79 61.0 5.97e-01 100.0% 74.6%
4650779 227.1.1.8 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_3 0.78 62.0 5.99e-01 100.0% 74.4%
3782606 227.1.1.4 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad1 0.77 64.0 5.85e-01 100.0% 67.6%
3932751 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.77 62.0 5.90e-01 100.0% 73.1%
3719897 227.1.1.18 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DUF7881_C 0.77 61.0 5.94e-01 100.0% 76.0%
3244229 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.76 64.0 6.16e-01 100.0% 79.2%
4542774 227.1.1.8 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_3 0.76 60.0 5.89e-01 100.0% 77.5%
3598260 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.75 65.0 6.22e-01 100.0% 81.6%
4360456 227.1.1.8 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_3 0.75 59.0 5.60e-01 100.0% 71.5%
3787700 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.74 69.0 6.15e-01 100.0% 81.9%
4057937 227.1.1.4 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad1 0.74 62.0 5.83e-01 100.0% 73.9%
5039027 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.74 58.0 5.73e-01 100.0% 77.5%
3962048 227.1.1.15 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PF26035 0.71 57.0 6.00e-01 100.0% 93.0%
3613685 227.1.1.17 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DUF7881_N 0.71 65.0 5.94e-01 100.0% 77.9%
3719938 227.1.1.17 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DUF7881_N 0.70 64.0 5.88e-01 100.0% 77.9%
3596476 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.70 65.0 5.96e-01 100.0% 80.4%
4027851 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.69 63.0 5.78e-01 100.0% 77.2%
4983767 218.4.1.0 ↗ a+b two layers › Enolase-N/ribosomal protein › Dhaf4260 N-terminal domain › Dhaf4260 N-terminal domain 0.63 39.0 4.34e-01 90.2% 77.8%
3839737 884.1.1.1 ↗ a+b two layers › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › CobW_C 0.62 30.0 3.35e-01 94.6% 55.6%
1178585 227.1.1.13 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_DNAp_acc 0.61 56.0 5.16e-01 100.0% 91.5%
4006143 3943.1.1.5 ↗ beta sandwiches › Flagellar hook-associated protein 1 beta-sandwich domains › Flagellar hook-associated protein 1 beta-sandwich domains › Flagellar hook-associated protein 1 beta-sandwich domains › WZC_N 0.59 38.0 4.07e-01 81.2% 75.8%
4963965 873.1.1.22 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › PF25939 0.58 50.0 4.46e-01 95.5% 97.5%
3232262 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.58 29.0 2.95e-01 98.2% 45.5%
3964304 884.1.1.1 ↗ a+b two layers › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › CobW_C 0.57 28.0 3.16e-01 92.0% 56.8%
3839028 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 31.0 3.76e-01 75.0% 89.2%
4383522 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.54 39.0 2.63e-01 75.0% 27.7%
5016447 884.1.1.1 ↗ a+b two layers › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › CobW_C 0.54 27.0 3.06e-01 94.6% 58.8%
3258053 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.54 39.0 2.65e-01 75.0% 90.6%
3967995 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.54 40.0 2.69e-01 76.8% 27.9%
3590828 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.54 44.0 4.45e-01 88.4% 96.4%
4366164 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.54 39.0 2.65e-01 76.8% 27.1%
3787887 896.1.1.2 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › SRP14 0.53 32.0 3.78e-01 80.4% 89.0%
4241499 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.53 42.0 4.37e-01 86.6% 96.1%
4030967 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.52 43.0 4.30e-01 88.4% 87.6%
3989004 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.52 36.0 2.62e-01 71.4% 34.5%
5066808 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.52 35.0 3.47e-01 94.6% 63.4%
2674746 59.1.1.6 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like › TFIIIC_sub6 0.52 28.0 3.34e-01 92.0% 78.9%
3940997 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.52 27.0 2.62e-01 98.2% 38.5%
4960618 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.52 38.0 3.63e-01 95.5% 66.2%
3609931 868.1.1.2 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA_triPase 0.51 44.0 3.49e-01 93.8% 96.1%
4842242 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.51 36.0 2.58e-01 74.1% 32.7%
3739180 59.1.1.5 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like › Dcc1 0.51 33.0 3.68e-01 90.2% 85.9%
4964412 274.1.1.66 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › DUF7266 0.50 34.0 3.60e-01 91.1% 78.0%