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NC_008689.1__YP_918901.1__SABPV108_gp11__00011

Bact-Vir

NC_008689.1__YP_918901.1__SABPV108_gp11__00011

Identity

Accession:
NC_008689 ↗
Kingdom:
phage

Quality

83.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Peeveelvirus› Staphylococcus_phage_phiPVL108

TaxID: 360398

Cluster

Singleton — not in a non-trivial cluster

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 5-106
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jtvA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.73 44.0 5.37e-01 72.5% 95.4%
1lnwF01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.72 57.0 5.32e-01 90.2% 67.7%
2rdpA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.71 56.0 4.97e-01 88.2% 60.0%
4b8xA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.71 56.0 4.99e-01 87.3% 60.7%
3bjoA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 41.0 4.14e-01 72.5% 57.3%
3bpvA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 57.0 5.15e-01 88.2% 64.2%
5dymA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 58.0 6.02e-01 87.3% 99.0%
5e1wA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.69 56.0 4.68e-01 87.3% 51.8%
4esbA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.69 58.0 5.88e-01 90.2% 94.2%
8agaA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.69 55.0 5.13e-01 87.3% 69.0%
1jgsA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 58.0 5.16e-01 90.2% 65.9%
5zyrA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 51.0 4.45e-01 87.3% 53.0%
2eshA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 61.0 5.92e-01 97.1% 92.1%
3e6mA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 53.0 4.61e-01 87.3% 56.8%
2fbiA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.67 54.0 4.92e-01 87.3% 64.0%
3zmdA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 54.0 4.74e-01 86.3% 60.1%
3cdhA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 49.0 4.53e-01 90.2% 62.7%
4hqeA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 50.0 5.02e-01 83.3% 81.9%
1p4xA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.63 51.0 4.77e-01 87.3% 73.2%
1t6sB02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.61 40.0 4.56e-01 70.6% 88.3%
1yyvB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.61 51.0 4.92e-01 87.3% 79.5%
1p4xA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.61 50.0 4.76e-01 90.2% 75.6%
1bm9A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.58 46.0 4.43e-01 86.3% 81.7%
1g8xA06 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 52.0 3.62e-01 99.0% 60.5%
1kutB01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 28.0 3.04e-01 86.3% 56.2%
3ke2B00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.56 39.0 4.07e-01 75.5% 78.1%
2bs2A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 43.0 3.10e-01 86.3% 59.9%
3gudA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.54 41.0 3.97e-01 82.4% 87.4%
2ptqA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.52 44.0 3.22e-01 91.2% 90.3%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3946321 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.83 49.0 5.98e-01 72.5% 92.3%
5011851 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.75 45.0 5.27e-01 78.4% 82.7%
3602718 101.1.2.209 ↗ alpha arrays › HTH › HTH › winged helix domain › MJ1010-like_2nd 0.72 41.0 4.48e-01 70.6% 67.1%
5071468 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.71 54.0 4.99e-01 78.4% 83.2%
3604110 101.1.2.209 ↗ alpha arrays › HTH › HTH › winged helix domain › MJ1010-like_2nd 0.71 40.0 4.64e-01 70.6% 76.0%
3242883 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.71 40.0 2.76e-01 100.0% 17.0%
4090346 101.1.2.209 ↗ alpha arrays › HTH › HTH › winged helix domain › MJ1010-like_2nd 0.69 40.0 4.93e-01 73.5% 96.7%
3603016 101.1.2.209 ↗ alpha arrays › HTH › HTH › winged helix domain › MJ1010-like_2nd 0.68 32.0 3.16e-01 93.1% 41.8%
3244600 101.1.2.178 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_61 0.67 49.0 4.85e-01 74.5% 92.4%
4004341 101.1.2.775 ↗ alpha arrays › HTH › HTH › winged helix domain › SieB 0.67 43.0 4.68e-01 79.4% 78.8%
4998735 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 51.0 4.56e-01 79.4% 77.0%
5044017 101.1.2.100 ↗ alpha arrays › HTH › HTH › winged helix domain › FeoC 0.66 47.0 5.13e-01 73.5% 98.8%
4990945 101.1.2.895 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF2250 0.65 56.0 4.73e-01 90.2% 94.4%
5024966 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.65 59.0 5.24e-01 98.0% 96.5%
3437670 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.64 49.0 3.80e-01 80.4% 50.2%
3439866 101.1.2.88 ↗ alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.64 47.0 4.17e-01 77.5% 66.9%
3435414 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.63 46.0 4.42e-01 75.5% 83.5%
4968086 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.63 44.0 3.14e-01 72.5% 31.2%
4978826 873.1.1.18 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › HTH_24 0.62 45.0 3.44e-01 75.5% 35.6%
3167709 101.1.2.166 ↗ alpha arrays › HTH › HTH › winged helix domain › MCM6_C 0.61 45.0 4.38e-01 77.5% 90.4%
3321732 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.60 44.0 4.47e-01 76.5% 84.0%
3236247 101.1.2.4 ↗ alpha arrays › HTH › HTH › winged helix domain › Forkhead 0.57 43.0 4.34e-01 79.4% 96.0%
3740130 101.1.9.15 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › BHD_3 0.55 46.0 4.25e-01 87.3% 72.0%
3979431 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.55 51.0 4.43e-01 98.0% 86.7%
3991612 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 41.0 3.26e-01 79.4% 43.6%
3829789 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.55 41.0 3.82e-01 77.5% 80.0%
4270467 2002.1.1.45 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_31_2nd 0.54 40.0 2.79e-01 77.5% 31.2%
3620235 101.1.9.15 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › BHD_3 0.53 44.0 4.11e-01 86.3% 73.3%
4996686 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 36.0 3.71e-01 71.6% 96.0%
3783835 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.51 35.0 2.64e-01 70.6% 80.8%
5034033 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.50 43.0 3.01e-01 92.2% 33.3%