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L2
Euk-VirRattus_norvegicus_papillomavirus_3
L2__YP_009182328__Rattus_norvegicus_papillomavirus_3__1756445
Identity
- Accession:
- YP_009182328 ↗
- Protein ID:
- L2
- Kingdom:
- euk
Quality
84.3
mean pLDDT
Taxonomy
Shotokuvirae›
Cossaviricota›
Papovaviricetes›
Zurhausenvirales›
Papillomaviridae›
Iotapapillomavirus›
Rattus_norvegicus_papillomavirus_3
TaxID: 1756445
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
medium
residues 22-110_148-252_300-402
Domain cluster:
representative
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00500.25 best | Late_protein_L1 | 179.0 | 2.30e-52 | 35.7% | 21.3% |
| PF00500.25 | Late_protein_L1 | 162.9 | 1.70e-47 | 35.0% | 21.1% |
| PF00500.25 | Late_protein_L1 | 150.5 | 1.00e-43 | 30.0% | 18.1% |
CATH (39)
| 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 | 0.99 | 97.0 | 8.10e-01 | 100.0% | 84.0% |
| 3afgA03 | 2.60.120.380 | Mainly Beta › Sandwich › Jelly Rolls › | 0.72 | 26.0 | 4.51e-01 | 87.5% | 96.1% |
| 1yi9A02 | 2.60.120.230 | Mainly Beta › Sandwich › Jelly Rolls › | 0.71 | 29.0 | 4.21e-01 | 87.9% | 79.6% |
| 3am2A02 | 2.60.120.1050 | Mainly Beta › Sandwich › Jelly Rolls › | 0.70 | 27.0 | 4.18e-01 | 87.9% | 86.3% |
| 2vveA01 | 2.60.120.770 | Mainly Beta › Sandwich › Jelly Rolls › | 0.70 | 25.0 | 4.37e-01 | 91.9% | 100.0% |
| 4dzgA00 | 2.60.120.380 | Mainly Beta › Sandwich › Jelly Rolls › | 0.68 | 26.0 | 4.15e-01 | 87.5% | 89.4% |
| 2pn5A08 | 2.60.120.1540 | Mainly Beta › Sandwich › Jelly Rolls › | 0.67 | 25.0 | 4.10e-01 | 88.2% | 90.1% |
| 2xbzA00 | 2.60.40.2380 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.66 | 24.0 | 3.59e-01 | 85.2% | 72.0% |
| 2vo8A00 | 2.60.40.680 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.66 | 28.0 | 4.11e-01 | 88.2% | 85.9% |
| 4il7A00 | 2.60.120.1300 | Mainly Beta › Sandwich › Jelly Rolls › | 0.64 | 17.0 | 3.25e-01 | 86.5% | 78.8% |
| 2vvfA02 | 2.60.120.730 | Mainly Beta › Sandwich › Jelly Rolls › | 0.64 | 28.0 | 4.25e-01 | 88.9% | 95.3% |
| 6qe7A01 | 3.90.182.10 | Alpha Beta › Alpha-Beta Complex › Toxin - Anthrax Protective Antigen; domain 1 › Toxin - Anthrax Protective Antigen;domain 1 | 0.63 | 25.0 | 3.57e-01 | 86.2% | 75.0% |
| 5jpnB04 | 2.60.120.1540 | Mainly Beta › Sandwich › Jelly Rolls › | 0.63 | 26.0 | 3.91e-01 | 88.9% | 88.4% |
| 3jqwC00 | 2.60.120.380 | Mainly Beta › Sandwich › Jelly Rolls › | 0.63 | 24.0 | 3.61e-01 | 88.6% | 80.2% |
| 1nqjB00 | 2.60.120.380 | Mainly Beta › Sandwich › Jelly Rolls › | 0.62 | 23.0 | 3.56e-01 | 87.2% | 82.5% |
| 5ikuA01 | 2.60.120.380 | Mainly Beta › Sandwich › Jelly Rolls › | 0.61 | 23.0 | 3.69e-01 | 87.2% | 91.3% |
| 2hevF00 | 2.60.120.40 | Mainly Beta › Sandwich › Jelly Rolls › | 0.61 | 28.0 | 4.17e-01 | 96.3% | 99.2% |
| 5mmjj00 | 3.30.70.600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 | 0.61 | 19.0 | 3.21e-01 | 87.2% | 77.8% |
| 2qjvA02 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.60 | 21.0 | 3.32e-01 | 89.2% | 77.9% |
| 3s7vC00 | 2.60.175.10 | Mainly Beta › Sandwich › Polyomavirus Vp1; Chain A › Capsid protein VP1,Polyomavirus | 0.60 | 52.0 | 5.52e-01 | 94.9% | 100.0% |
| 5lz6A00 | 2.60.120.680 | Mainly Beta › Sandwich › Jelly Rolls › GOLD domain | 0.59 | 27.0 | 4.01e-01 | 91.6% | 99.2% |
| 2xzmJ00 | 3.30.70.600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 | 0.59 | 19.0 | 3.14e-01 | 87.9% | 77.1% |
| 2bgoA00 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.58 | 25.0 | 3.88e-01 | 86.9% | 100.0% |
| 1opoC01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.57 | 33.0 | 4.31e-01 | 97.0% | 100.0% |
| 2ztnA01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.57 | 37.0 | 4.46e-01 | 97.0% | 98.9% |
| 3wqbA02 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.56 | 32.0 | 4.22e-01 | 91.9% | 100.0% |
| 4msvA01 | 2.60.120.40 | Mainly Beta › Sandwich › Jelly Rolls › | 0.55 | 27.0 | 3.90e-01 | 88.2% | 100.0% |
| 1fmd100 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.54 | 27.0 | 3.29e-01 | 88.9% | 71.1% |
| 1o91A00 | 2.60.120.40 | Mainly Beta › Sandwich › Jelly Rolls › | 0.54 | 26.0 | 3.73e-01 | 89.9% | 99.2% |
| 4hvzA02 | 3.30.70.2970 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 | 0.53 | 18.0 | 2.86e-01 | 86.5% | 75.0% |
| 3isyA00 | 2.60.40.2360 | Mainly Beta › Sandwich › Immunoglobulin-like › Intracellular proteinase inhibitor BsuPI | 0.53 | 21.0 | 3.19e-01 | 86.9% | 85.5% |
| 3hwjA00 | 2.60.120.820 | Mainly Beta › Sandwich › Jelly Rolls › PHR domain | 0.53 | 27.0 | 3.84e-01 | 86.5% | 100.0% |
| 6qdiA02 | 3.90.182.10 | Alpha Beta › Alpha-Beta Complex › Toxin - Anthrax Protective Antigen; domain 1 › Toxin - Anthrax Protective Antigen;domain 1 | 0.52 | 25.0 | 3.57e-01 | 89.2% | 94.9% |
| 4qpiC00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 34.0 | 3.68e-01 | 88.9% | 76.0% |
| 5j98B00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 38.0 | 4.04e-01 | 99.3% | 85.0% |
| 4qpwA00 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.51 | 26.0 | 3.65e-01 | 86.9% | 99.3% |
| 3no8A00 | 2.60.120.820 | Mainly Beta › Sandwich › Jelly Rolls › PHR domain | 0.51 | 28.0 | 3.75e-01 | 88.6% | 100.0% |
| 2okxA02 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.51 | 28.0 | 3.69e-01 | 91.6% | 94.7% |
| 1cx1A00 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.50 | 26.0 | 3.55e-01 | 87.9% | 95.4% |
ECOD (53)
| 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 | 97.0 | 7.91e-01 | 100.0% | 79.1% |
| 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 | 0.98 | 97.0 | 7.93e-01 | 100.0% | 81.4% |
| 5068228 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.76 | 29.0 | 4.98e-01 | 89.2% | 100.0% |
| 4014484 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.76 | 27.0 | 4.76e-01 | 87.2% | 97.0% |
| 4982154 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.73 | 27.0 | 4.59e-01 | 87.2% | 98.0% |
| 4170992 | 10.32.1.19 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PPC | 0.71 | 26.0 | 4.20e-01 | 86.2% | 87.3% |
| 5047474 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.70 | 25.0 | 4.37e-01 | 86.2% | 100.0% |
| 5060634 | 10.1.2.183 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › PPC | 0.69 | 25.0 | 4.10e-01 | 86.2% | 87.3% |
| 150670 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.68 | 26.0 | 4.13e-01 | 87.5% | 88.6% |
| 5050767 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.68 | 27.0 | 4.47e-01 | 85.2% | 100.0% |
| 4990610 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.67 | 25.0 | 4.30e-01 | 87.2% | 100.0% |
| 3246388 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.67 | 27.0 | 4.14e-01 | 88.2% | 89.1% |
| 5019286 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.67 | 24.0 | 4.10e-01 | 87.9% | 94.0% |
| 4143108 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.67 | 25.0 | 3.84e-01 | 86.9% | 80.0% |
| 5013355 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.66 | 22.0 | 4.03e-01 | 86.2% | 100.0% |
| 4626412 | 10.32.1.238 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF29980 | 0.66 | 30.0 | 4.35e-01 | 87.5% | 90.0% |
| 3214876 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.66 | 25.0 | 4.21e-01 | 86.5% | 99.0% |
| 3946137 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.66 | 21.0 | 3.93e-01 | 76.8% | 100.0% |
| 3231883 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.66 | 26.0 | 4.30e-01 | 85.2% | 100.0% |
| 3933157 | 11.1.1.1085 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GBD_IRG7_N | 0.66 | 25.0 | 4.19e-01 | 87.9% | 100.0% |
| 5033248 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.65 | 26.0 | 3.98e-01 | 87.2% | 85.6% |
| 4003418 | 10.32.1.226 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › GBD_Tenm3 | 0.65 | 27.0 | 4.23e-01 | 86.9% | 92.8% |
| 3682877 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.65 | 27.0 | 3.80e-01 | 86.2% | 75.3% |
| 3227068 | 11.1.1.1085 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GBD_IRG7_N | 0.65 | 25.0 | 4.15e-01 | 86.5% | 100.0% |
| 3332177 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.65 | 27.0 | 3.59e-01 | 86.2% | 68.8% |
| 5057293 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.64 | 25.0 | 3.72e-01 | 86.5% | 79.2% |
| 3612751 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.64 | 31.0 | 4.39e-01 | 88.2% | 95.0% |
| 4362184 | 10.3.1.0 ↗ | beta sandwiches › jelly-roll › TNF-like › TNF-like | 0.63 | 29.0 | 4.32e-01 | 96.6% | 98.5% |
| 401494 | 10.32.1.19 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PPC | 0.63 | 24.0 | 3.61e-01 | 88.6% | 80.2% |
| 3245210 | 10.32.1.213 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF25883 | 0.63 | 26.0 | 3.82e-01 | 87.2% | 84.6% |
| 5062506 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.63 | 24.0 | 3.72e-01 | 87.5% | 85.2% |
| 3926732 | 10.32.1.213 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF25883 | 0.63 | 28.0 | 3.77e-01 | 87.5% | 78.0% |
| 164919 | 10.32.1.3 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Calpain_III | 0.62 | 28.0 | 3.96e-01 | 88.2% | 87.7% |
| 3476169 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.62 | 25.0 | 3.76e-01 | 87.2% | 86.7% |
| 3997705 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.61 | 23.0 | 3.69e-01 | 89.2% | 90.5% |
| 3929371 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.60 | 24.0 | 3.71e-01 | 88.6% | 92.6% |
| 3713551 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.60 | 26.0 | 3.76e-01 | 88.2% | 84.1% |
| 4322566 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.59 | 19.0 | 3.32e-01 | 87.9% | 85.3% |
| 3222920 | 10.32.1.213 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF25883 | 0.59 | 25.0 | 3.58e-01 | 88.6% | 82.7% |
| 4573225 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.59 | 17.0 | 2.79e-01 | 88.6% | 63.6% |
| 4455016 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.58 | 19.0 | 3.01e-01 | 87.5% | 71.8% |
| 4027660 | 304.44.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 | 0.58 | 19.0 | 3.07e-01 | 86.5% | 76.2% |
| 4339783 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.58 | 19.0 | 3.01e-01 | 88.2% | 72.7% |
| 3401330 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.57 | 20.0 | 2.98e-01 | 88.2% | 70.8% |
| 2605261 | 10.5.1.0 ↗ | beta sandwiches › jelly-roll › Viral protein domain › Viral protein domain | 0.56 | 24.0 | 3.71e-01 | 89.9% | 99.1% |
| 3265262 | 10.32.1.56 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › CE2_N | 0.55 | 25.0 | 3.70e-01 | 88.9% | 94.6% |
| 3492104 | 10.32.1.41 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › GOLD_2 | 0.54 | 24.0 | 3.50e-01 | 88.9% | 88.9% |
| 3932418 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.54 | 19.0 | 3.02e-01 | 86.9% | 81.9% |
| 4448436 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.54 | 18.0 | 2.66e-01 | 88.9% | 62.3% |
| 3354933 | 304.44.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 | 0.53 | 18.0 | 2.90e-01 | 88.6% | 79.0% |
| 5021919 | 10.1.2.194 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › Lectin_like | 0.52 | 30.0 | 3.88e-01 | 87.9% | 97.6% |
| 5037247 | 12.6.1.0 ↗ | beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related | 0.52 | 14.0 | 2.89e-01 | 72.1% | 100.0% |
| 5041729 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.51 | 24.0 | 3.33e-01 | 87.2% | 91.1% |
D2
medium
residues 111-147_253-264_283-299
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 | 36.6 | 3.40e-09 | 63.6% | 7.4% |