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DNA_polymerase_processivity_subunit

Euk-Vir

Papiine_alphaherpesvirus_2

DNA_polymerase_processivity_subunit__YP_443889__Papiine_alphaherpesvirus_2__340907

Identity

Accession:
YP_443889 ↗
Protein ID:
DNA_polymerase_processivity_subunit
Kingdom:
euk

Quality

65.6 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Simplexvirus› Papiine_alphaherpesvirus_2

TaxID: 340907

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 34-166
PDB
Domain cluster: rep: DNA_polymerase_processivity_subunit__YP_009342361__Spheniscid_alphaherpesvirus_1__2560777__D21-149
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02282.22 best Herpes_UL42 98.5 5.00e-28 99.2% 94.2%
D2 medium residues 194-281
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1dmlA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.83 61.0 4.20e-01 100.0% 25.1%
2ix2A01 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.75 50.0 3.67e-01 100.0% 27.1%
4omfB02 3.10.450.750 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.65 30.0 4.02e-01 77.3% 83.0%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.64 46.0 3.31e-01 73.9% 68.5%
2inbA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.64 45.0 4.03e-01 75.0% 82.8%
4fpvB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.64 45.0 3.25e-01 73.9% 79.0%
1wduB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.63 44.0 3.30e-01 71.6% 83.6%
2oap101 3.30.450.380 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.62 43.0 3.29e-01 73.9% 63.6%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.61 41.0 4.12e-01 77.3% 67.0%
2z0lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.60 50.0 3.44e-01 100.0% 26.5%
3uuwB02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.60 44.0 3.46e-01 76.1% 65.2%
3hslX00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.60 52.0 3.56e-01 100.0% 28.6%
1ixrA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 30.0 3.39e-01 96.6% 65.1%
6hrgA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.56 45.0 3.35e-01 88.6% 100.0%
2cxxA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 40.0 3.24e-01 77.3% 89.1%
4rrfA01 3.50.80.10 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-tyrosyl-tRNA(Tyr) deacylase 0.55 38.0 3.32e-01 72.7% 89.7%
3d31A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 26.0 3.28e-01 95.5% 80.4%
4nq3A01 3.30.1330.170 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Cyanuric acid hydrolase/Barbiturase, RU A 0.54 40.0 3.92e-01 79.5% 90.8%
3w5xA00 3.30.70.1350 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cation efflux protein, cytoplasmic domain 0.54 37.0 3.87e-01 71.6% 100.0%
1tltA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 39.0 3.19e-01 79.5% 68.8%
6b10A00 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.53 46.0 3.20e-01 98.9% 55.2%
4c81A00 3.30.1330.50 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 0.53 39.0 3.32e-01 79.5% 93.6%
1ml8A02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.53 37.0 3.60e-01 71.6% 97.9%
4rr9A01 3.50.80.10 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-tyrosyl-tRNA(Tyr) deacylase 0.53 37.0 3.26e-01 72.7% 89.6%
2j5vB01 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.53 44.0 3.38e-01 96.6% 93.1%
4bubA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.52 36.0 2.71e-01 71.6% 72.2%
1r85A00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.51 38.0 2.55e-01 78.4% 62.8%
1alo006 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.51 36.0 3.31e-01 76.1% 83.3%
2fltA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.50 38.0 3.54e-01 83.0% 93.2%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
71028 227.1.1.5 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_UL42 0.79 62.0 5.29e-01 100.0% 55.0%
3930634 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.65 46.0 3.31e-01 73.9% 68.1%
1203297 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.64 46.0 3.31e-01 73.9% 68.5%
4928711 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.64 46.0 4.27e-01 75.0% 84.5%
3174811 2008.2.1.2 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › Sen15 0.62 45.0 4.09e-01 78.4% 77.2%
141372 2008.2.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.61 41.0 4.11e-01 77.3% 67.0%
3943562 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 44.0 3.97e-01 77.3% 76.8%
1082804 227.1.1.13 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_DNAp_acc 0.60 50.0 4.22e-01 100.0% 54.1%
11040 2008.1.1.32 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › XisH 0.60 44.0 3.92e-01 77.3% 83.7%
5027537 316.1.1.27 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.60 41.0 3.68e-01 72.7% 78.5%
5064069 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.59 35.0 3.68e-01 70.5% 63.7%
4932970 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 42.0 4.03e-01 76.1% 81.0%
4983181 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 43.0 3.87e-01 77.3% 68.3%
4009644 2008.1.1.160 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF27151 0.58 42.0 3.45e-01 77.3% 52.0%
4982246 3521.1.1.0 ↗ a+b three layers › Polymerase basic protein 2 cap-binding domain › Polymerase basic protein 2 cap-binding domain › Polymerase basic protein 2 cap-binding domain 0.58 41.0 3.97e-01 73.9% 86.0%
5063524 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.57 40.0 3.27e-01 71.6% 39.6%
4090404 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 41.0 3.86e-01 77.3% 75.5%
4968936 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.56 39.0 3.01e-01 72.7% 46.0%
None — 0.56 41.0 3.86e-01 78.4% 92.0%
4937815 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.56 40.0 4.21e-01 76.1% 87.5%
2389853 2.11.1.1 ↗ beta barrels › OB-fold › Antifungal protein (AGAFP) › Antifungal protein (AGAFP) › Antifungal_prot 0.55 29.0 3.36e-01 87.5% 71.9%
4008023 2.1.1.332 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30333 0.55 39.0 3.86e-01 100.0% 69.5%
5072012 2008.1.1.3 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.55 37.0 3.74e-01 77.3% 68.9%
5002918 327.7.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › ZT_dimer 0.55 39.0 4.06e-01 76.1% 98.8%
4052436 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.55 38.0 2.80e-01 71.6% 69.8%
4992470 896.1.1.0 ↗ 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 0.54 32.0 3.83e-01 95.5% 88.3%
3394261 327.11.1.4 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › MRP-S24 0.54 37.0 3.29e-01 71.6% 73.3%
4929635 2002.3.1.2 ↗ a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › Polysacc_deac_1 0.54 46.0 3.52e-01 98.9% 89.8%
3851420 327.11.1.4 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › MRP-S24 0.54 39.0 3.51e-01 78.4% 70.0%
5028076 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.53 41.0 3.59e-01 86.4% 87.6%
4002275 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.53 44.0 2.87e-01 93.2% 65.9%
4028488 224.1.1.0 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like 0.53 44.0 3.80e-01 92.0% 77.1%
5071430 327.7.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › ZT_dimer 0.53 36.0 3.62e-01 70.5% 85.6%
4045472 327.7.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › ZT_dimer 0.53 37.0 3.90e-01 75.0% 100.0%
1718745 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 0.53 36.0 3.59e-01 71.6% 74.5%
3642904 246.3.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.53 37.0 2.75e-01 73.9% 56.5%
3989293 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 37.0 3.48e-01 76.1% 79.1%
3275560 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 45.0 3.54e-01 100.0% 87.8%
3787053 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.52 43.0 3.75e-01 92.0% 85.0%
4063004 2.1.1.84 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Prot_ATP_ID_OB_N 0.51 28.0 2.45e-01 89.8% 30.0%
4111759 2.1.1.84 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Prot_ATP_ID_OB_N 0.51 28.0 2.46e-01 89.8% 31.1%
4360803 3939.1.1.324 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › Prot_ATP_ID_OB_N 0.51 28.0 2.46e-01 89.8% 31.1%
8831 2002.1.1.18 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_10 0.51 38.0 2.55e-01 78.4% 62.8%
5021191 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.51 43.0 3.74e-01 94.3% 87.9%
4177859 2.1.1.84 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Prot_ATP_ID_OB_N 0.51 27.0 3.02e-01 90.9% 63.1%
5014625 301.2.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › PurM N-terminal domain-like › PurM N-terminal domain-like › AIRS 0.51 39.0 3.43e-01 84.1% 69.3%