←Back to structures
P1_protein
Euk-VirNarcissus_degeneration_virus
P1_protein__YP_001019188__Narcissus_degeneration_virus__394036
Identity
- Accession:
- YP_001019188 ↗
- Protein ID:
- P1_protein
- Kingdom:
- euk
Quality
63.1
mean pLDDT
Taxonomy
Orthornavirae›
Pisuviricota›
Stelpaviricetes›
Patatavirales›
Potyviridae›
Potyvirus›
Narcissus_degeneration_virus
TaxID: 394036
Cluster
Singleton — not in a non-trivial cluster
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 266-393
Domain cluster:
rep: P1__YP_006908980__Rose_yellow_mosaic_virus__1048434__D303-423
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01577.23 best | Peptidase_S30 | 70.9 | 1.90e-19 | 99.2% | 46.5% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1t6aA02 | 3.30.310.120 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein | 0.61 | 32.0 | 4.00e-01 | 85.9% | 83.3% |
| 2af5A01 | 2.40.128.160 | Mainly Beta › Beta Barrel › Lipocalin › C1 set domains (antibody constant domain-like) | 0.54 | 25.0 | 3.49e-01 | 93.8% | 98.1% |
| 1uhzA00 | 3.30.160.20 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › | 0.53 | 26.0 | 3.08e-01 | 71.1% | 66.3% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3972703 | 9.1.1.17 ↗ | beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › MoaF | 0.56 | 29.0 | 3.21e-01 | 98.4% | 60.0% |
| 4033491 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.54 | 28.0 | 3.09e-01 | 79.7% | 61.0% |
D2
medium
residues 9-60
Domain cluster:
rep: P1__YP_851199__Blackberry_virus_Y__323118__D18-59
CATH (12)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2eo6A01 | 3.30.505.10 | Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain | 0.71 | 52.0 | 4.09e-01 | 78.8% | 49.1% |
| 2cs0A01 | 3.30.505.10 | Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain | 0.70 | 50.0 | 4.12e-01 | 76.9% | 50.5% |
| 1i3oF00 | 1.10.1170.10 | Mainly Alpha › Orthogonal Bundle › Inhibitor Of Apoptosis Protein (2mihbC-IAP-1); Chain A › Inhibitor Of Apoptosis Protein (2mihbC-IAP-1); Chain A | 0.69 | 49.0 | 4.13e-01 | 76.9% | 49.5% |
| 2poiA00 | 1.10.1170.10 | Mainly Alpha › Orthogonal Bundle › Inhibitor Of Apoptosis Protein (2mihbC-IAP-1); Chain A › Inhibitor Of Apoptosis Protein (2mihbC-IAP-1); Chain A | 0.66 | 51.0 | 4.52e-01 | 86.5% | 67.9% |
| 2ia1A01 | 3.30.500.20 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › BH3703-like domains | 0.62 | 51.0 | 4.02e-01 | 96.2% | 49.6% |
| 5jxsA02 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.59 | 49.0 | 3.61e-01 | 94.2% | 51.4% |
| 3e0rB01 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.59 | 39.0 | 3.10e-01 | 73.1% | 31.1% |
| 3s8iA00 | 2.40.70.10 | Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases | 0.58 | 42.0 | 3.18e-01 | 75.0% | 95.2% |
| 1m0wA04 | 3.40.50.1760 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glutathione synthase, substrate-binding domain superfamily, eukaryotic | 0.57 | 44.0 | 3.32e-01 | 84.6% | 92.2% |
| 7o06C01 | 3.30.1470.10 | Alpha Beta › 2-Layer Sandwich › Photosystem 1 Reaction Centre Subunit Ii; Chain: D; › Photosystem I PsaD, reaction center subunit II | 0.55 | 38.0 | 3.28e-01 | 75.0% | 76.9% |
| 3gv4A00 | 3.30.40.10 | Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) | 0.54 | 39.0 | 3.24e-01 | 78.8% | 70.7% |
| 3g12B00 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.50 | 35.0 | 2.85e-01 | 76.9% | 46.0% |
ECOD (27)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3213146 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.75 | 51.0 | 3.98e-01 | 71.2% | 42.7% |
| 3537939 | 386.1.1.316 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › PF30902 | 0.73 | 51.0 | 5.41e-01 | 73.1% | 88.9% |
| 3406704 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.72 | 45.0 | 4.62e-01 | 76.9% | 66.0% |
| 3906050 | 386.1.1.64 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_12 | 0.71 | 52.0 | 4.81e-01 | 80.8% | 61.2% |
| 3260511 | 386.1.1.71 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › SURF2 | 0.70 | 53.0 | 5.20e-01 | 80.8% | 76.4% |
| 3841843 | 386.1.1.64 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_12 | 0.70 | 54.0 | 5.39e-01 | 90.4% | 87.3% |
| 3566795 | 386.1.1.64 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_12 | 0.69 | 50.0 | 4.68e-01 | 82.7% | 64.3% |
| 3882068 | 386.1.1.4 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED | 0.68 | 49.0 | 4.97e-01 | 75.0% | 78.0% |
| 3219807 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.68 | 48.0 | 4.25e-01 | 75.0% | 80.0% |
| 3783751 | 223.1.1.21 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains › HODM_asu-like | 0.66 | 46.0 | 2.80e-01 | 73.1% | 15.5% |
| 3537747 | 386.1.1.71 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › SURF2 | 0.65 | 48.0 | 4.79e-01 | 80.8% | 80.0% |
| 3735921 | 109.4.1.1722 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec7-like_HDS, Sec7-like_HUS, BIG2_C | 0.65 | 48.0 | 2.57e-01 | 78.8% | 10.5% |
| 4862754 | 5001.1.1.6 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin | 0.65 | 46.0 | 2.88e-01 | 75.0% | 40.8% |
| 4376466 | 2.1.1.7 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › S1 | 0.64 | 43.0 | 3.72e-01 | 71.2% | 84.7% |
| 4001939 | 386.1.1.4 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED | 0.62 | 44.0 | 4.02e-01 | 75.0% | 57.1% |
| 3475868 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.61 | 35.0 | 3.30e-01 | 71.2% | 43.1% |
| 5046185 | 2004.1.1.194 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C_2 | 0.60 | 51.0 | 2.94e-01 | 98.1% | 38.6% |
| 4941857 | 2498.2.1.6 ↗ | mixed a+b and a/b › Zincin-like › beta-N-acetylhexosaminidase-like domain › beta-N-acetylhexosaminidase-like domain › S_layer_C | 0.58 | 48.0 | 3.39e-01 | 98.1% | 87.9% |
| 4275625 | 375.1.1.47 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC | 0.58 | 42.0 | 4.04e-01 | 76.9% | 83.3% |
| 3995519 | 376.1.1.5 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP | 0.57 | 40.0 | 3.31e-01 | 75.0% | 69.0% |
| 3401727 | 4.12.1.0 ↗ | beta barrels › SH3 › Methuselah ectodomain › Methuselah ectodomain | 0.57 | 49.0 | 3.89e-01 | 100.0% | 75.7% |
| 3422037 | 376.1.1.5 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP | 0.53 | 42.0 | 3.64e-01 | 88.5% | 89.4% |
| 3481222 | 376.1.1.0 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box | 0.53 | 38.0 | 3.23e-01 | 76.9% | 76.7% |
| 4959202 | 331.10.2.0 ↗ | a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase | 0.53 | 42.0 | 3.53e-01 | 92.3% | 69.5% |
| 4263366 | 2004.1.1.219 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PriA_CRR | 0.53 | 42.0 | 2.82e-01 | 94.2% | 84.9% |
| 4223427 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.52 | 42.0 | 2.78e-01 | 94.2% | 77.7% |
| 3548728 | 376.1.1.5 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP | 0.52 | 37.0 | 3.21e-01 | 78.8% | 77.8% |