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OR475276.1__WNM67407.1__SEA_POLYYUKI_23__00023

Bact-Vir

OR475276.1__WNM67407.1__SEA_POLYYUKI_23__00023

Identity

Accession:
OR475276 ↗
Kingdom:
phage

Quality

78.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Zierdtviridae› Rhodococcus_phage_Polyyuki

TaxID: 3069515

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 9-48
PDB
Domain cluster: rep: ALT_09252017_20_scaffold_43_prodigal-single.1__X__X__00006__D16-54
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yu0A01 2.10.10.30 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.77 61.0 5.76e-01 100.0% 74.5%
3hshE00 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.75 61.0 5.61e-01 95.0% 69.1%
7v5yA01 3.40.1620.10 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › YefM-like domain 0.74 55.0 5.15e-01 82.5% 82.4%
3n3fA01 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.70 58.0 5.73e-01 97.5% 90.7%
2ph7A02 3.40.50.10670 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › af2093 domain 0.68 48.0 3.70e-01 77.5% 75.0%
1wquA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.61 48.0 3.64e-01 97.5% 38.6%
3en8A01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 42.0 3.10e-01 75.0% 35.7%
1rjaA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 46.0 3.66e-01 97.5% 49.0%
3gzbA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 41.0 2.81e-01 75.0% 25.3%
1i2dA02 3.10.400.10 Alpha Beta › Roll › Sulfate adenylyltransferase › Sulfate adenylyltransferase 0.58 46.0 3.12e-01 100.0% 67.0%
4lmiB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 40.0 2.85e-01 77.5% 29.4%
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.55 38.0 2.15e-01 75.0% 10.8%
3zo9B03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.54 42.0 3.44e-01 100.0% 49.5%
6qv4A04 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 35.0 2.35e-01 72.5% 47.7%
1qhbA00 1.10.606.10 Mainly Alpha › Orthogonal Bundle › Vanadium-containing Chloroperoxidase; domain 2 › Vanadium-containing Chloroperoxidase, domain 2 0.52 36.0 2.04e-01 75.0% 40.8%
3h51A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 37.0 2.66e-01 85.0% 27.5%
2g3mA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.50 42.0 3.51e-01 97.5% 52.0%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5002640 3761.1.1.1 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.98 92.0 8.40e-01 100.0% 80.0%
2905173 3761.1.1.1 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.89 79.0 7.12e-01 100.0% 74.1%
1107990 3761.1.1.1 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.77 61.0 5.79e-01 100.0% 76.0%
1505155 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.74 61.0 5.52e-01 95.0% 67.9%
3921177 3761.1.1.0 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.72 53.0 4.84e-01 95.0% 60.0%
3405960 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.70 56.0 5.58e-01 95.0% 88.4%
3917719 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.69 56.0 5.52e-01 97.5% 86.7%
1281772 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.69 57.0 5.29e-01 97.5% 72.2%
3900165 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.68 55.0 5.47e-01 97.5% 90.7%
3623217 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.66 52.0 5.01e-01 97.5% 78.0%
3528795 3761.1.1.0 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.65 50.0 4.94e-01 97.5% 80.0%
5036081 2008.1.1.15 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N 0.61 49.0 3.10e-01 100.0% 22.0%
5017559 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 44.0 3.82e-01 80.0% 96.9%
3508119 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.57 46.0 3.47e-01 97.5% 40.0%
4991007 229.1.1.0 ↗ a+b two layers › Cdc48 domain 2-like › Cdc48 domain 2-like › Cdc48 domain 2-like 0.57 45.0 3.81e-01 92.5% 66.2%
3579362 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.56 42.0 3.37e-01 97.5% 49.1%
1787990 2003.1.2.49 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2+FAD_binding_3 0.56 37.0 2.57e-01 70.0% 89.2%
3515938 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.56 44.0 3.35e-01 95.0% 90.9%
3506230 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 42.0 2.76e-01 90.0% 38.1%
4998571 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 40.0 2.91e-01 90.0% 25.4%
3508125 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.54 42.0 3.23e-01 95.0% 86.4%
56808 620.1.1.0 ↗ alpha bundles › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases 0.54 45.0 3.02e-01 100.0% 39.7%
4678772 275.1.1.0 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase 0.54 40.0 3.56e-01 82.5% 63.3%
3502260 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.53 41.0 3.09e-01 100.0% 74.4%
4339502 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.53 37.0 3.16e-01 85.0% 43.5%
3517867 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.53 40.0 2.98e-01 95.0% 80.8%
3725933 102.1.2.9 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › DUF1688 0.52 37.0 2.25e-01 80.0% 82.8%
3513933 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.52 40.0 2.99e-01 95.0% 81.5%
4120038 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.52 38.0 3.23e-01 87.5% 96.2%
3332068 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.51 42.0 2.97e-01 100.0% 67.7%
3516794 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.50 38.0 2.85e-01 100.0% 33.6%
3244152 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.50 39.0 3.24e-01 92.5% 71.2%
D2 medium residues 164-225
PDB
Domain cluster: representative