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capsid_protein

Euk-Vir

Varroa_mite_associated_genomovirus_1

capsid_protein__YP_009465964__Varroa_mite_associated_genomovirus_1__2077299

Identity

Accession:
YP_009465964 ↗
Protein ID:
capsid_protein
Kingdom:
euk

Quality

84.9 mean pLDDT

Taxonomy

Shotokuvirae› Cressdnaviricota› Repensiviricetes› Geplafuvirales› Genomoviridae› Varroa_mite_associated_genomovirus_1

TaxID: 2077299

Cluster

View cluster (81 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 14-38_69-102_191-242_254-265
PDB
Domain cluster: rep: putative_capsid_protein__YP_009553355__Odonata-associated_circular_virus-10_Viruses.__X__D13-32_61-80_153-217
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6f2sH01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 63.0 5.13e-01 100.0% 84.2%
3jb8A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.58 53.0 4.61e-01 100.0% 92.4%
2y26A02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.58 52.0 4.79e-01 100.0% 93.8%
1a6cA02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.58 52.0 4.75e-01 100.0% 92.7%
5eh1A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 28.0 3.11e-01 72.4% 55.8%
3jciA00 2.60.120.950 Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein 0.56 50.0 4.36e-01 100.0% 92.6%
2ws9300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.55 50.0 4.08e-01 100.0% 77.4%
3cjiA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 49.0 3.86e-01 100.0% 83.3%
1o4tA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 34.0 3.56e-01 98.4% 68.7%
1egjA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 34.0 3.73e-01 100.0% 80.2%
5aca300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.52 46.0 3.85e-01 100.0% 77.9%
1cauA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 33.0 2.94e-01 100.0% 44.2%
4oq8A00 2.60.120.220 Mainly Beta › Sandwich › Jelly Rolls › Satellite virus coat domain 0.51 46.0 4.35e-01 100.0% 84.0%
1fxzA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 34.0 3.07e-01 100.0% 51.2%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1216 10.2.1.37 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nepo_coat_C 0.58 52.0 4.75e-01 100.0% 92.7%
3631136 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.57 41.0 3.29e-01 74.0% 91.3%
4021604 3385.1.1.0 ↗ beta barrels › Allergen Alt a 1 › Allergen Alt a 1 › Allergen Alt a 1 0.53 32.0 3.19e-01 87.8% 55.2%
4456175 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.52 43.0 3.58e-01 100.0% 50.0%
3852588 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 33.0 3.63e-01 100.0% 79.0%
5044901 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.51 42.0 4.38e-01 100.0% 93.0%
2710690 10.2.1.29 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Circo_capsid 0.51 46.0 3.92e-01 100.0% 90.5%
3414535 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.51 36.0 3.18e-01 74.0% 98.4%
5039010 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.50 42.0 4.14e-01 100.0% 84.6%
D2 medium residues 39-68_103-190_243-253
PDB
Domain cluster: representative