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gag_protein

Euk-Vir

Simian_retrovirus_4

gag_protein__YP_003864100__Simian_retrovirus_4__723802

Identity

Accession:
YP_003864100 ↗
Protein ID:
gag_protein
Kingdom:
euk

Quality

61.7 mean pLDDT

Taxonomy

Pararnavirae› Artverviricota› Revtraviricetes› Ortervirales› Retroviridae› Betaretrovirus› Simian_retrovirus_4

TaxID: 723802

Cluster

View cluster (4 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 7-114
PDB
Domain cluster: rep: putative_group-specific_antigen__YP_009243639__Bovine_retrovirus_CH15__1822365__D9-108
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02337.23 best Gag_p10 92.4 1.90e-26 78.7% 98.8%
D2 high residues 306-436
PDB
Domain cluster: rep: gag_protein__YP_009305199__Simian_retrovirus_8__1904439__D302-440
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00607.26 best Gag_p24 152.4 8.70e-45 91.6% 96.1%
D3 high residues 447-534
PDB
Domain cluster: rep: p24_CA__NP_955618__Human_T-cell_leukemia_virus_type_I__11908__D133-202
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF19317.5 best Gag_p24_C 79.4 1.90e-22 77.3% 89.2%
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1bajA00 1.10.1200.30 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Retrovirus capsid C-terminal domain 0.89 68.0 7.53e-01 78.4% 97.2%
5dckA00 1.10.1200.30 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Retrovirus capsid C-terminal domain 0.86 66.0 7.33e-01 79.5% 98.6%
1qrjA02 1.10.1200.30 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Retrovirus capsid C-terminal domain 0.83 68.0 6.95e-01 89.8% 89.4%
1d1dA02 1.10.1200.30 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Retrovirus capsid C-terminal domain 0.73 60.0 6.21e-01 89.8% 97.5%
3tl4X02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.64 41.0 4.42e-01 83.0% 79.2%
3ls1A00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.56 42.0 3.78e-01 84.1% 77.4%
2n04A00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.53 38.0 3.67e-01 78.4% 70.5%
1q0gA00 1.20.120.400 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nickel-containing superoxide dismutase 0.52 42.0 3.92e-01 93.2% 90.6%
1l7vA00 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.51 41.0 2.86e-01 90.9% 71.8%
4lqkA00 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.50 39.0 3.49e-01 89.8% 57.6%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3746214 170.1.1.5 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Gag_p24_C 0.94 73.0 7.95e-01 80.7% 96.0%
55547 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.86 66.0 7.40e-01 79.5% 100.0%
2984623 170.1.1.5 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Gag_p24_C 0.86 81.0 7.90e-01 100.0% 96.8%
2568930 170.1.1.5 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Gag_p24_C 0.83 76.0 7.64e-01 97.7% 97.7%
1175290 170.1.1.5 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Gag_p24_C 0.83 68.0 6.99e-01 89.8% 90.5%
2733984 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.82 66.0 7.04e-01 85.2% 98.7%
2568911 170.1.1.5 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Gag_p24_C 0.82 74.0 7.25e-01 95.5% 93.5%
3512000 170.1.1.23 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30931 0.79 67.0 6.67e-01 97.7% 88.9%
3671302 170.1.1.7 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Ty3_capsid 0.79 61.0 6.28e-01 86.4% 85.9%
3938493 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.78 62.0 6.24e-01 86.4% 96.7%
3906715 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.77 64.0 6.49e-01 97.7% 92.9%
3821057 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.77 59.0 6.29e-01 86.4% 94.7%
3930503 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.77 66.0 6.44e-01 93.2% 89.5%
3421075 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.77 65.0 6.47e-01 96.6% 90.0%
3924866 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.77 66.0 6.46e-01 93.2% 88.4%
3816297 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.76 56.0 6.14e-01 83.0% 97.1%
3645855 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.76 67.0 6.54e-01 96.6% 88.4%
3631496 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.76 67.0 6.55e-01 97.7% 89.5%
3518810 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.76 57.0 6.21e-01 83.0% 100.0%
3510252 170.2.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain 0.76 57.0 6.21e-01 85.2% 100.0%
3817236 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.74 62.0 6.48e-01 89.8% 98.8%
3929660 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.74 61.0 5.67e-01 89.8% 95.5%
3543872 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.74 55.0 5.80e-01 86.4% 87.5%
3926178 170.2.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain 0.74 55.0 6.06e-01 84.1% 100.0%
3787102 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.74 64.0 6.28e-01 97.7% 88.4%
3927258 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.74 59.0 6.13e-01 86.4% 98.8%
3778083 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.73 61.0 6.11e-01 98.9% 88.9%
3935729 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.73 65.0 6.01e-01 100.0% 96.5%
3431511 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.73 65.0 6.27e-01 100.0% 87.0%
3529284 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.73 60.0 6.03e-01 97.7% 88.9%
3510249 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.73 63.0 6.22e-01 98.9% 89.2%
3409030 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.73 53.0 5.72e-01 77.3% 98.7%
3897993 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.73 61.0 6.10e-01 100.0% 91.1%
3460605 170.2.1.12 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › Retrotrans_gag 0.72 54.0 5.57e-01 79.5% 95.3%
3515443 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.72 63.0 6.33e-01 98.9% 92.2%
3933798 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.72 57.0 5.79e-01 85.2% 90.6%
3480818 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.71 61.0 6.27e-01 94.3% 97.6%
3908619 170.1.1.22 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF30901 0.71 52.0 5.74e-01 78.4% 97.1%
3332222 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.71 55.0 5.91e-01 89.8% 98.7%
4634618 170.1.1.25 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PNMA 0.71 62.0 5.83e-01 100.0% 90.9%
3532229 170.2.1.7 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › DUF4939 0.70 54.0 5.62e-01 83.0% 100.0%
3720542 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.70 63.0 6.21e-01 100.0% 94.7%
2904782 170.1.1.5 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Gag_p24_C 0.69 63.0 5.95e-01 100.0% 86.4%
3763289 304.24.1.29 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › PNMA 0.69 60.0 5.66e-01 100.0% 90.9%
3538620 170.2.1.7 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › DUF4939 0.69 54.0 5.65e-01 85.2% 100.0%
3878573 170.2.1.12 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › Retrotrans_gag 0.69 54.0 5.65e-01 85.2% 100.0%
3309680 170.1.1.26 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › DUF7746 0.68 52.0 4.90e-01 83.0% 96.4%
3935441 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.68 56.0 5.82e-01 90.9% 100.0%
4112344 170.2.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain 0.68 53.0 5.57e-01 85.2% 100.0%
3375038 170.2.1.25 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › DUF7746 0.65 50.0 5.32e-01 83.0% 100.0%
3639813 170.2.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain 0.64 49.0 5.10e-01 83.0% 98.8%
3177791 170.1.1.37 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PF29703 0.63 53.0 5.23e-01 94.3% 100.0%
4575477 170.2.1.40 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › PF30021 0.63 49.0 5.04e-01 86.4% 91.8%
3249970 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.63 44.0 4.62e-01 73.9% 95.0%
3614196 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 38.0 2.75e-01 78.4% 41.1%