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L1
Euk-VirGammapapillomavirus_sp.
L1__YP_009552560__Gammapapillomavirus_sp.__2049444
Identity
- Accession:
- YP_009552560 ↗
- Protein ID:
- L1
- Kingdom:
- euk
Quality
84.0
mean pLDDT
Taxonomy
Shotokuvirae›
Cossaviricota›
Papovaviricetes›
Zurhausenvirales›
Papillomaviridae›
Gammapapillomavirus›
Gammapapillomavirus_sp.
TaxID: 2049444
Cluster
View cluster (154 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 46-104_316-420_454-486
Domain cluster:
rep: L1_capsid_protein__YP_009272579__Bos_taurus_papillomavirus_13__1887213__D32-107_305-401_440-463
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00500.25 best | Late_protein_L1 | 144.4 | 7.10e-42 | 55.3% | 20.5% |
| PF00500.25 | Late_protein_L1 | 78.9 | 5.30e-22 | 29.9% | 11.3% |
| PF00500.25 | Late_protein_L1 | 34.4 | 1.60e-08 | 17.3% | 6.6% |
D2
medium
residues 118-158_251-271_293-314
Domain cluster:
rep: L1__YP_009345082__Eidolon_helvum_papillomavirus_2__1335476__D106-161_251-269_292-310
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00500.25 best | Late_protein_L1 | 28.5 | 9.80e-07 | 50.0% | 7.4% |
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1dzlA00 | 2.60.175.20 | Mainly Beta › Sandwich › Polyomavirus Vp1; Chain A › Major capsid L1 (late) superfamily, Papillomavirus | 0.93 | 89.0 | 5.37e-01 | 100.0% | 41.8% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2707156 | 10.2.1.4 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Late_protein_L1 | 0.94 | 90.0 | 5.35e-01 | 100.0% | 39.3% |
| 2806413 | 10.2.1.4 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Late_protein_L1 | 0.93 | 89.0 | 5.32e-01 | 100.0% | 41.0% |
D3
medium
residues 159-250
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00500.25 best | Late_protein_L1 | 133.4 | 1.60e-38 | 100.0% | 18.3% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1dzlA00 | 2.60.175.20 | Mainly Beta › Sandwich › Polyomavirus Vp1; Chain A › Major capsid L1 (late) superfamily, Papillomavirus | 0.97 | 94.0 | 5.71e-01 | 100.0% | 20.2% |
| 7jtjA01 | 3.30.559.30 | Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain | 0.51 | 39.0 | 2.88e-01 | 81.5% | 76.9% |
| 4me3A03 | 2.20.28.10 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › | 0.50 | 30.0 | 3.62e-01 | 95.7% | 98.2% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2806413 | 10.2.1.4 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Late_protein_L1 | 0.98 | 93.0 | 5.63e-01 | 100.0% | 19.0% |
| 2707156 | 10.2.1.4 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Late_protein_L1 | 0.98 | 95.0 | 5.72e-01 | 100.0% | 19.0% |
| 3606398 | 3529.1.1.1 ↗ | beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault | 0.51 | 29.0 | 3.57e-01 | 96.7% | 94.5% |