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capsid_portal_protein

Euk-Vir

Equid_gammaherpesvirus_5

capsid_portal_protein__YP_009118432__Equid_gammaherpesvirus_5__10371

Identity

Accession:
YP_009118432 ↗
Protein ID:
capsid_portal_protein
Kingdom:
euk

Quality

75.7 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Percavirus› Equid_gammaherpesvirus_5

TaxID: 10371

Cluster

View cluster (76 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 medium residues 4-26_47-59_126-148_203-245
PDB
Domain cluster: rep: putative_viron_protein__NP_050255__Human_betaherpesvirus_6B__32604__D63-87_177-199_238-289
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01763.23 best Herpes_UL6 30.6 1.80e-07 43.1% 5.5%
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1tfkA00 3.10.450.200 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 32.0 3.39e-01 97.1% 60.6%
2b5uA03 3.10.380.10 Alpha Beta › Roll › Ribonuclease domain of colicin e3 (Residues 456-551) › Colicin E3-like ribonuclease domain 0.53 29.0 2.98e-01 93.1% 51.0%
2ckkA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 26.0 3.41e-01 93.1% 90.6%
3go5A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 26.0 3.19e-01 80.4% 74.3%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4656512 809.1.1.0 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP 0.65 26.0 3.37e-01 81.4% 61.7%
3996720 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.64 27.0 3.16e-01 88.2% 54.3%
3622446 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.62 27.0 3.16e-01 90.2% 55.7%
3877833 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.58 25.0 2.83e-01 89.2% 48.8%
4968971 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 23.0 2.89e-01 96.1% 56.4%
3395948 4.1.1.43 ↗ beta barrels › SH3 › SH3 › SH3 › SMN_Tudor 0.54 26.0 3.41e-01 78.4% 83.6%
4815507 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.53 24.0 2.64e-01 89.2% 46.5%
3460631 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.52 32.0 2.84e-01 92.2% 42.8%
3186255 223.1.1.21 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › HODM_asu-like 0.51 41.0 2.90e-01 86.3% 79.1%
4987320 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 24.0 3.14e-01 76.5% 78.3%
1811384 73.1.1.7 ↗ beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain › FtsK_SpoIIIE_N 0.50 31.0 3.39e-01 87.3% 74.4%
D2 medium residues 60-125
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01763.23 best Herpes_UL6 53.6 2.00e-14 100.0% 12.1%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7oufB01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.66 52.0 4.01e-01 86.4% 83.9%
5cz2C00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.62 47.0 3.63e-01 83.3% 92.1%
D3 medium residues 149-202
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3besR03 6.10.140.1480 Special › Helix non-globular › Helix Hairpins › 0.71 55.0 5.48e-01 94.4% 83.9%
1qguB04 1.20.89.10 Mainly Alpha › Up-down Bundle › Nitrogenase Molybdenum-iron Protein, subunit B; domain 4 › Nitrogenase Molybdenum-iron Protein, subunit B, domain 4 0.71 55.0 4.81e-01 85.2% 83.1%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.70 58.0 5.31e-01 96.3% 75.7%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.69 54.0 5.55e-01 88.9% 92.2%
3dkqA02 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.69 54.0 5.71e-01 88.9% 100.0%
1chuA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.68 55.0 4.70e-01 88.9% 56.8%
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.68 55.0 4.87e-01 90.7% 65.4%
1wfdA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.66 53.0 4.43e-01 88.9% 54.8%
2e5yA02 1.20.5.440 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain 0.66 46.0 4.93e-01 75.9% 88.9%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.64 53.0 4.03e-01 100.0% 51.0%
2qtfA02 6.10.250.2860 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.64 47.0 4.98e-01 81.5% 91.5%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.63 52.0 4.90e-01 94.4% 92.5%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.63 47.0 4.78e-01 79.6% 82.7%
4hb1A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.62 47.0 5.11e-01 87.0% 100.0%
4b3fX01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 52.0 3.26e-01 98.1% 20.0%
4ev6A03 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.60 47.0 4.67e-01 94.4% 93.1%
3ttvA02 1.20.1370.20 Mainly Alpha › Up-down Bundle › Hemocyanin, N-terminal domain › Catalase, four-helical domain 0.60 49.0 4.02e-01 94.4% 71.2%
6qs7C01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 47.0 3.64e-01 90.7% 38.6%
3fxdC00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.59 45.0 4.60e-01 90.7% 92.0%
1dciA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.58 43.0 4.20e-01 83.3% 95.2%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3569033 3538.1.1.8 ↗ extended segments › MerF › MerF › MerF › PF28754 0.77 60.0 6.05e-01 87.0% 98.2%
4034278 5043.1.1.0 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.76 61.0 5.92e-01 90.7% 100.0%
4981750 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.75 62.0 5.40e-01 100.0% 61.3%
5061375 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.75 59.0 5.45e-01 90.7% 67.1%
3685214 632.18.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 0.73 61.0 5.34e-01 98.1% 70.6%
5060146 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.71 58.0 5.51e-01 92.6% 76.9%
3503933 192.14.1.1 ↗ alpha bundles › Long alpha-hairpin › Siah interacting protein N terminal domain-like › Siah interacting protein N terminal domain-like › Siah-Interact_N 0.70 51.0 5.49e-01 81.5% 93.3%
3788988 603.1.1.223 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27584, PF27585 0.69 56.0 3.68e-01 90.7% 22.1%
3971727 5043.2.1.0 ↗ extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain 0.68 52.0 5.20e-01 96.3% 81.8%
4002826 604.12.1.9 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ATG1-like_MIT2 0.67 52.0 4.23e-01 85.2% 45.0%
3792017 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.65 53.0 3.15e-01 100.0% 26.4%
3483761 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.64 53.0 3.81e-01 94.4% 34.5%
57654 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.63 53.0 5.35e-01 94.4% 94.4%
4244986 192.6.1.1 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE 0.63 46.0 4.94e-01 83.3% 95.6%
4371514 6026.1.1.0 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain 0.63 51.0 4.49e-01 90.7% 65.0%
3568826 5020.1.1.13 ↗ extended segments › Subunit VIII of photosystem I reaction centre, PsaI › Subunit VIII of photosystem I reaction centre, PsaI › Subunit VIII of photosystem I reaction centre, PsaI › TMEM219 0.61 50.0 4.71e-01 90.7% 93.8%
3491418 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.58 50.0 4.52e-01 98.1% 77.3%
5076739 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.53 43.0 3.43e-01 98.1% 89.2%