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NC_070764.1__YP_010649200.1__PP304_gp167__00156

Bact-Vir

NC_070764.1__YP_010649200.1__PP304_gp167__00156

Identity

Accession:
NC_070764 ↗
Kingdom:
phage

Quality

80.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Godonkavirus› Gordonia_phage_Phendrix

TaxID: 2593335

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 medium residues 9-94
PDB
Domain cluster: rep: KF692088.2__AHB31670.1__ArV2_gp57__00057__D40-124
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
8jpdG01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.55 40.0 3.35e-01 76.7% 55.9%
2r40D00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.53 37.0 2.72e-01 72.1% 88.4%
2ddmB00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.51 42.0 2.97e-01 89.5% 69.4%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3200117 4207.1.1.0 ↗ alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) 0.63 43.0 3.69e-01 70.9% 71.4%
3823561 109.4.1.1296 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_1, PPR_2, PPR_long, TPR_24 0.53 46.0 3.15e-01 95.3% 48.4%
D2 medium residues 118-183
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1lp1A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.74 33.0 3.67e-01 84.8% 50.9%
2l09A01 1.10.8.550 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Proto-chlorophyllide reductase 57 kD subunit B 0.74 34.0 3.81e-01 87.9% 55.8%
2ptfB02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.74 38.0 4.08e-01 87.9% 57.9%
1hs7A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 49.0 4.29e-01 97.0% 47.4%
3k1hA00 3.30.1120.180 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Flagellar FLiS export co-chaperone, HP1076 0.69 57.0 4.77e-01 92.4% 84.3%
2mw2A00 1.20.1280.40 Mainly Alpha › Up-down Bundle › Monooxygenase › HHA 0.69 35.0 3.52e-01 90.9% 46.3%
4kjmA02 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.68 33.0 3.61e-01 86.4% 54.5%
3d8lA00 1.10.8.940 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein, phage p2 ORF12 0.67 37.0 3.33e-01 93.9% 38.5%
1vcsA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.66 43.0 3.74e-01 100.0% 43.1%
2d9jA02 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.62 43.0 4.14e-01 74.2% 98.7%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.60 35.0 3.56e-01 93.9% 57.1%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.60 47.0 4.10e-01 98.5% 56.7%
3gmfA02 1.10.40.110 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › 0.56 42.0 3.67e-01 81.8% 97.1%
7wf8B01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.55 45.0 3.74e-01 92.4% 64.5%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.51 33.0 3.03e-01 89.4% 48.9%
2zwiA01 3.40.50.11120 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Sialyltransferase, N-terminal GT-B Rossman nucleotide-binding domain 0.51 38.0 2.75e-01 84.8% 45.4%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3380884 103.4.1.5 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › KIX_2 0.84 44.0 4.23e-01 93.9% 46.7%
3353941 1134.1.1.7 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain › ALA1 0.81 43.0 4.36e-01 93.9% 52.3%
5053994 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.77 43.0 4.08e-01 95.5% 48.0%
3941067 181.1.1.0 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.73 37.0 3.60e-01 97.0% 42.7%
4239767 304.9.1.89 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › MLLE 0.70 41.0 3.68e-01 93.9% 43.3%
3727116 109.3.1.179 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DUF7708 0.61 54.0 3.69e-01 100.0% 28.4%
3596786 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 51.0 3.18e-01 100.0% 58.4%
3704038 574.1.1.1 ↗ alpha bundles › Surp module (SWAP domain) › Surp module (SWAP domain) › Surp module (SWAP domain) › Surp 0.57 39.0 3.89e-01 71.2% 85.7%
1716751 103.4.1.5 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › KIX_2 0.57 46.0 4.21e-01 86.4% 93.0%
3840064 192.24.1.0 ↗ alpha bundles › Long alpha-hairpin › RPC62 helical hairpin domain › RPC62 helical hairpin domain 0.53 45.0 4.05e-01 98.5% 78.9%
3499876 574.1.1.0 ↗ alpha bundles › Surp module (SWAP domain) › Surp module (SWAP domain) › Surp module (SWAP domain) 0.52 45.0 4.32e-01 98.5% 82.7%