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helicase-primase_primase_subunit

Euk-Vir

Spheniscid_alphaherpesvirus_1

helicase-primase_primase_subunit__YP_009342350__Spheniscid_alphaherpesvirus_1__2560777

Identity

Accession:
YP_009342350 ↗
Protein ID:
helicase-primase_primase_subunit
Kingdom:
euk

Quality

77.0 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Mardivirus› Spheniscid_alphaherpesvirus_1

TaxID: 2560777

Cluster

View cluster (58 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 924-1052
PDB
Domain cluster: rep: helicase-primase_primase_subunit__NP_944382__Psittacid_alphaherpesvirus_1__50294__D1138-1286
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03121.21 best Herpes_UL52 82.5 2.30e-23 59.7% 94.7%
D2 medium residues 11-53_75-218
PDB
Domain cluster: rep: helicase-primase_primase_subunit__YP_010085930__Wood_mouse_herpesvirus__432370__D12-162
D3 medium residues 219-342
PDB
Domain cluster: rep: helicase_primase_complex__NP_050224__Human_betaherpesvirus_6B__32604__D142-241
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nrvA02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.50 36.0 3.43e-01 88.7% 62.9%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3728170 3324.1.1.2 ↗ extended segments › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases 0.53 30.0 3.00e-01 91.9% 53.8%
3946572 5001.1.1.15 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TMR-DISM_7TM 0.52 38.0 3.14e-01 77.4% 68.4%
4022513 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.51 37.0 3.38e-01 93.5% 57.5%
D4 medium residues 434-467_516-570
PDB
Domain cluster: rep: helicase-primase_primase_subunit__YP_001033982__Gallid_alphaherpesvirus_2__10390__D447-473_538-595
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3u83A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 36.0 3.48e-01 93.3% 47.5%
5mmjh01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.64 34.0 3.73e-01 85.4% 61.3%
3bp6B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 36.0 3.70e-01 89.9% 56.8%
5mmiU01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.62 37.0 3.85e-01 91.0% 63.4%
3hz7A00 3.30.110.40 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › TusA-like domain 0.62 33.0 3.64e-01 84.3% 63.0%
4lfhD02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 35.0 3.61e-01 86.5% 57.6%
1vq8S00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.61 36.0 3.82e-01 91.0% 64.2%
2cpmA00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.59 36.0 3.54e-01 89.9% 56.4%
4r6uA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 33.0 3.18e-01 89.9% 46.6%
5w2fA01 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.58 35.0 3.64e-01 92.1% 61.6%
2di8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 31.0 3.11e-01 83.1% 50.0%
3v8oA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 32.0 3.10e-01 84.3% 49.5%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.57 34.0 3.71e-01 93.3% 70.7%
4ofyD02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 32.0 3.09e-01 91.0% 45.8%
6c98A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 34.0 3.45e-01 89.9% 59.3%
4bfeA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 31.0 3.25e-01 89.9% 56.8%
3o4oB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 36.0 3.39e-01 88.8% 53.2%
2pt7G02 3.30.1370.180 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.55 30.0 3.38e-01 82.0% 68.7%
4bfiB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 33.0 3.31e-01 91.0% 57.8%
2fh5A01 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.53 41.0 3.71e-01 89.9% 59.8%
3gkuA03 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.53 30.0 3.25e-01 85.4% 66.2%
1fp5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 35.0 3.39e-01 89.9% 60.0%
3rghA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 30.0 2.94e-01 83.1% 51.0%
2bc4A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 34.0 3.20e-01 88.8% 54.1%
5axgA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 32.0 2.90e-01 88.8% 42.9%
5l10B00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 43.0 3.57e-01 96.6% 88.8%
3ix3A00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.50 43.0 3.56e-01 96.6% 80.4%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.50 41.0 3.46e-01 93.3% 77.4%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3236950 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.64 29.0 3.23e-01 80.9% 54.3%
3683636 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.62 36.0 3.87e-01 87.6% 66.2%
4440338 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 34.0 3.46e-01 88.8% 54.1%
3410614 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.61 38.0 3.59e-01 91.0% 52.4%
3657448 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.61 35.0 3.06e-01 89.9% 35.7%
3728094 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.60 32.0 3.10e-01 84.3% 45.0%
1936503 304.109.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23 0.60 36.0 3.61e-01 91.0% 57.1%
3218484 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.59 31.0 3.42e-01 84.3% 62.9%
3743748 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 33.0 3.35e-01 85.4% 53.3%
3581967 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.59 31.0 3.54e-01 84.3% 69.2%
3396645 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.58 35.0 3.43e-01 91.0% 54.0%
3780948 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.57 35.0 3.37e-01 91.0% 54.0%
3680490 216.1.1.1 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UQ_con 0.56 35.0 3.11e-01 89.9% 41.5%
3950059 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.56 31.0 3.42e-01 84.3% 67.6%
3987672 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.56 31.0 3.42e-01 84.3% 67.6%
5000395 304.109.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23 0.56 37.0 3.66e-01 92.1% 63.4%
3862496 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.56 32.0 2.91e-01 88.8% 40.0%
5029835 304.109.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23 0.56 36.0 3.33e-01 92.1% 49.2%
3966522 225.1.1.11 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › DUF6272 0.55 45.0 3.66e-01 89.9% 93.7%
3513343 304.109.1.2 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23,Ribosomal_L23eN 0.55 36.0 3.31e-01 92.1% 49.2%
3992039 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.55 32.0 3.18e-01 88.8% 52.1%
3593122 304.109.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.55 36.0 3.32e-01 92.1% 49.2%
3370400 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 31.0 3.37e-01 85.4% 67.1%
3985754 101.1.2.187 ↗ alpha arrays › HTH › HTH › winged helix domain › Rep3_C 0.55 39.0 3.81e-01 85.4% 67.0%
5060110 304.102.1.3 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_1 0.53 45.0 3.22e-01 94.4% 93.5%
3892016 256.1.1.0 ↗ a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.53 42.0 3.61e-01 89.9% 52.4%
1003939 320.1.1.1 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.53 30.0 3.25e-01 85.4% 66.2%
4175269 225.1.1.0 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.51 41.0 2.66e-01 88.8% 23.4%
3394690 101.1.2.309 ↗ alpha arrays › HTH › HTH › winged helix domain › GPAT_C 0.51 39.0 3.78e-01 85.4% 72.0%
4031808 320.1.1.3 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › YlmH_1st 0.50 38.0 3.84e-01 80.9% 96.7%
D5 medium residues 590-694_770-918
PDB
Domain cluster: rep: NTPase,_DNA_primase__YP_009408038__Eptesipox_virus__1329402__D10-229