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NC_073082.1__YP_010742150.1__P9629_gp33__00033

Bact-Vir

NC_073082.1__YP_010742150.1__P9629_gp33__00033

Identity

Accession:
NC_073082 ↗
Kingdom:
phage

Quality

70.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Dhillonvirus› Shigella_phage_vB_SboD_StarDew

TaxID: 2902747

Cluster

View cluster (12 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 18-85
PDB
Domain cluster: rep: MZ326867.1__QYW02519.1__CPT_Silvanus_045__00045__D8-69
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 50.0 4.28e-01 77.9% 49.5%
2w01B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.65 47.0 3.44e-01 79.4% 81.7%
3etvA02 1.20.58.2230 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Retrograde transport protein Dsl1, N-terminal domain 0.64 49.0 3.36e-01 80.9% 71.4%
2i8dA01 3.90.1150.200 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.64 45.0 4.26e-01 73.5% 72.8%
2jrbA00 3.30.250.20 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › L1 transposable element, C-terminal domain 0.64 45.0 4.61e-01 76.5% 89.2%
2ehbD00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.63 43.0 3.58e-01 72.1% 56.3%
1t7pA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.63 43.0 3.23e-01 70.6% 80.3%
3ly1D01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.63 50.0 4.10e-01 88.2% 75.2%
1lc5A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.63 48.0 3.94e-01 82.4% 75.2%
5t8uB01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.63 44.0 3.02e-01 75.0% 24.6%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 50.0 4.31e-01 89.7% 63.2%
4uhiA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.59 49.0 3.02e-01 92.6% 47.4%
1s12A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.59 40.0 3.58e-01 76.5% 51.1%
2czrA01 3.40.1350.70 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › TBP-interacting protein, N-terminal domain 0.59 40.0 3.49e-01 70.6% 88.7%
3d6kA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 46.0 3.61e-01 94.1% 41.0%
3tx8A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 42.0 3.61e-01 86.8% 87.7%
3ju8A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.53 40.0 2.69e-01 83.8% 51.2%
1o9nA00 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.52 35.0 2.20e-01 70.6% 21.8%
8a5eD01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 32.0 3.10e-01 72.1% 54.4%
2v1nA01 1.10.10.2030 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DNA/RNA-binding protein Kin17, conserved domain 0.51 35.0 3.12e-01 73.5% 77.2%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5073839 2008.5.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Uncharacterized protein AF_2093 C-terminal domain › Uncharacterized protein AF_2093 C-terminal domain › DUF6834_C 0.70 54.0 4.35e-01 83.8% 88.9%
4934918 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.68 47.0 4.69e-01 72.1% 71.4%
4567535 1203.1.2.0 ↗ alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.67 56.0 3.62e-01 94.1% 21.4%
4177935 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.67 55.0 4.62e-01 94.1% 53.0%
3973141 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.67 49.0 4.47e-01 77.9% 72.2%
4929483 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.67 52.0 4.29e-01 83.8% 71.7%
4073557 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.65 47.0 4.25e-01 79.4% 93.0%
5065809 3518.1.1.1 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › FMN_bind 0.65 57.0 4.36e-01 100.0% 96.9%
3602275 314.1.1.2 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2b 0.64 50.0 3.01e-01 85.3% 49.8%
4033928 241.9.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › YdhG-like › YdhG-like › DUF1801 0.61 42.0 3.50e-01 72.1% 47.2%
3600347 241.10.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.61 42.0 3.55e-01 72.1% 100.0%
4078369 223.1.1.157 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › sCache_3_3 0.60 54.0 3.84e-01 100.0% 77.5%
3288945 241.9.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › YdhG-like › YdhG-like › DUF1801 0.60 41.0 3.62e-01 72.1% 61.9%
4479376 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.59 50.0 4.31e-01 98.5% 95.7%
5014663 2004.1.1.85 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ArsA_ATPase 0.58 45.0 2.86e-01 82.4% 24.2%
3186289 3409.1.1.3 ↗ a+b duplicates or obligate multimers › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › ATG14 0.58 50.0 3.50e-01 100.0% 55.3%
5061619 1075.1.1.3 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_2 0.57 47.0 3.12e-01 91.2% 57.1%
3734457 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.55 42.0 2.79e-01 82.4% 23.7%
3739823 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.54 37.0 3.16e-01 73.5% 64.8%
3272410 101.1.1.76 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.54 37.0 3.18e-01 72.1% 77.3%
3250073 592.7.1.0 ↗ alpha arrays › PWI domain-like › GIPC1 GH2 domain › GIPC1 GH2 domain 0.53 39.0 3.08e-01 77.9% 38.6%
4983373 2003.1.5.46 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.52 40.0 2.88e-01 85.3% 95.3%
3838957 3439.1.1.0 ↗ a+b two layers › PafA/Dop C-terminal domain › PafA/Dop C-terminal domain › PafA/Dop C-terminal domain 0.52 37.0 3.68e-01 76.5% 95.7%
3209881 109.4.1.207 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.52 43.0 2.52e-01 92.6% 11.6%
3269142 316.1.1.56 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › PF26128 0.51 34.0 2.53e-01 70.6% 26.7%