L1_protein

Euk-Vir

Phocoena_phocoena_papillomavirus_4

L1_protein__YP_006470639__Phocoena_phocoena_papillomavirus_4__706527

Identity

84.5 mean pLDDT

Shotokuvirae› Cossaviricota› Papovaviricetes› Zurhausenvirales› Papillomaviridae› Dyopipapillomavirus› Phocoena_phocoena_papillomavirus_4

TaxID: 706527

View cluster (154 members)

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high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 20-41_87-108_373-409_443-472

PDB

Domain cluster: rep: unnamed_protein_product__YP_004895386__Canis_familiaris_papillomavirus_10__1087109__D20-62_366-406_443-470

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00500.25 best	Late_protein_L1	42.3	6.60e-11	35.1%	7.4%
PF00500.25	Late_protein_L1	35.1	9.70e-09	28.8%	5.8%

D2 medium residues 42-86_109-120_154-164_239-260_307-372

PDB

Domain cluster: rep: late_protein_L1__NP_077122__Alphapapillomavirus_4__337043__D129-185_198-277_298-367

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00500.25 best	Late_protein_L1	104.7	7.80e-30	43.0%	13.3%
PF00500.25	Late_protein_L1	59.1	5.10e-16	30.8%	8.8%

CATH (5)

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	95.0	6.47e-01	100.0%	72.3%
3winE03	2.60.120.1090	Mainly Beta › Sandwich › Jelly Rolls ›	0.56	35.0	4.11e-01	100.0%	88.2%
4aw7A03	2.60.120.1200	Mainly Beta › Sandwich › Jelly Rolls ›	0.53	34.0	3.80e-01	100.0%	82.0%
2zuoA06	2.30.30.560	Mainly Beta › Roll › SH3 type barrels. › Major vault protein, N-terminal structural repeat domain	0.53	15.0	2.61e-01	99.4%	72.5%
4kx7A01	2.60.40.1730	Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain	0.51	40.0	3.63e-01	100.0%	60.3%

ECOD (4)

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	0.98	96.0	6.42e-01	100.0%	68.1%
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	0.97	96.0	6.42e-01	100.0%	70.2%
3273096	10.32.1.0 ↗	beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like	0.55	37.0	3.85e-01	100.0%	72.0%
3740775	10.32.1.0 ↗	beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like	0.54	36.0	3.79e-01	100.0%	74.3%

D3 medium residues 121-153_165-238_287-306

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00500.25 best	Late_protein_L1	138.9	3.40e-40	88.2%	23.9%

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	0.97	95.0	6.12e-01	100.0%	40.7%

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	0.97	95.0	6.07e-01	100.0%	38.3%
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	0.97	95.0	6.06e-01	100.0%	40.0%