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gag
Euk-VirPuma_lentivirus_14
gag__YP_009507790__Puma_lentivirus_14__32615
Identity
- Accession:
- YP_009507790 ↗
- Protein ID:
- gag
- Kingdom:
- euk
Quality
70.9
mean pLDDT
Taxonomy
Pararnavirae›
Artverviricota›
Revtraviricetes›
Ortervirales›
Retroviridae›
Lentivirus›
Puma_lentivirus_14
TaxID: 32615
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 6-113
Domain cluster:
rep: gag_protein__NP_040972__Feline_immunodeficiency_virus__11673__D6-113
D2
high
residues 138-265
Domain cluster:
rep: gag_protein__YP_009305199__Simian_retrovirus_8__1904439__D302-440
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2xgvA00 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.90 | 85.0 | 8.37e-01 | 100.0% | 94.0% |
| 2xguB00 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.90 | 86.0 | 8.51e-01 | 100.0% | 95.5% |
| 1eiaA01 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.89 | 79.0 | 7.84e-01 | 91.4% | 92.5% |
| 1l6nA02 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.84 | 71.0 | 7.13e-01 | 89.1% | 93.9% |
| 1u7kA00 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.74 | 68.0 | 6.78e-01 | 100.0% | 96.2% |
| 1d1dA01 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.73 | 63.0 | 6.18e-01 | 93.0% | 93.6% |
| 1iqpA03 | 1.20.272.10 | Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › | 0.60 | 40.0 | 4.50e-01 | 90.6% | 91.5% |
| 1sz9C00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.57 | 38.0 | 3.72e-01 | 76.6% | 60.7% |
| 3eupB00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.55 | 41.0 | 3.53e-01 | 76.6% | 84.0% |
| 6ks6Z01 | 1.10.560.10 | Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain | 0.53 | 41.0 | 3.23e-01 | 81.2% | 49.1% |
| 4xpwA00 | 1.20.120.50 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like | 0.53 | 39.0 | 3.94e-01 | 77.3% | 84.7% |
| 2ovjA00 | 1.10.555.10 | Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase; Chain A › Rho GTPase activation protein | 0.51 | 38.0 | 3.32e-01 | 78.1% | 90.5% |
| 3ddlA00 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.50 | 42.0 | 3.39e-01 | 90.6% | 86.9% |
ECOD (16)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2138586 | 170.2.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain | 0.94 | 92.0 | 8.85e-01 | 100.0% | 92.1% |
| 140713 | 170.2.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain | 0.92 | 89.0 | 8.48e-01 | 100.0% | 92.3% |
| 140763 | 170.2.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain | 0.90 | 85.0 | 8.37e-01 | 100.0% | 94.0% |
| 4057 | 170.2.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain | 0.90 | 79.0 | 7.90e-01 | 90.6% | 93.1% |
| 56881 | 170.2.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain | 0.87 | 83.0 | 7.91e-01 | 100.0% | 95.2% |
| 145205 | 170.2.1.1 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › Gag_p24 | 0.82 | 76.0 | 7.24e-01 | 100.0% | 92.6% |
| 3866760 | 170.2.1.1 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › Gag_p24 | 0.80 | 74.0 | 7.22e-01 | 99.2% | 92.9% |
| 56909 | 170.2.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain | 0.77 | 69.0 | 6.55e-01 | 96.1% | 91.8% |
| 3639418 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.60 | 45.0 | 3.70e-01 | 78.9% | 77.9% |
| 3208659 | 149.1.1.1 ↗ | alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 | 0.57 | 43.0 | 2.83e-01 | 78.9% | 68.2% |
| 3366982 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.54 | 40.0 | 2.85e-01 | 78.9% | 38.4% |
| 3176188 | 109.4.1.3157 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF29173, PF29174, PF29177 | 0.52 | 44.0 | 3.23e-01 | 94.5% | 48.4% |
| 3508893 | 5050.1.1.9 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 | 0.51 | 36.0 | 3.08e-01 | 72.7% | 87.3% |
| 2774528 | 3286.1.1.1 ↗ | alpha complex topology › Glypican insertion domain › Glypican insertion domain › Glypican insertion domain › Glypican | 0.51 | 29.0 | 2.80e-01 | 97.7% | 46.6% |
| 3690717 | 192.29.1.52 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Anthrone_oxy | 0.51 | 39.0 | 3.58e-01 | 81.2% | 81.8% |
| 3884123 | 601.4.1.75 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › PF27561 | 0.51 | 39.0 | 3.51e-01 | 81.2% | 81.7% |
D3
high
residues 277-366
Domain cluster:
rep: p24_CA__NP_955618__Human_T-cell_leukemia_virus_type_I__11908__D133-202
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF19317.5 best | Gag_p24_C | 72.8 | 2.10e-20 | 75.6% | 89.2% |