←Back to structures

DNA_topoisomerase_I

Euk-Vir

Salmon_gill_poxvirus

DNA_topoisomerase_I__YP_009162543__Salmon_gill_poxvirus__1680908

Identity

Accession:
YP_009162543 ↗
Protein ID:
DNA_topoisomerase_I
Kingdom:
euk

Quality

77.6 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Pokkesviricetes› Chitovirales› Poxviridae› Salmonpoxvirus› Salmon_gill_poxvirus

TaxID: 1680908

Cluster

View cluster (42 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 107-220
PDB
Domain cluster: rep: S16_GE16_scaffold_10741_prodigal-single.1__X__X__00162__D901-1023
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01028.26 best Topoisom_I 37.9 1.80e-09 100.0% 45.2%
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2h7fX02 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.92 86.0 6.45e-01 100.0% 46.1%
3m4aA03 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.86 81.0 7.98e-01 99.1% 96.6%
1a31A03 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.81 77.0 6.89e-01 100.0% 77.3%
1a41A01 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.81 70.0 6.74e-01 100.0% 81.9%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.68 60.0 5.21e-01 100.0% 63.6%
3uxuA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.67 49.0 4.39e-01 100.0% 54.7%
1b9mA03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.67 35.0 4.29e-01 70.2% 80.3%
3j7aF03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.56 30.0 3.67e-01 84.2% 83.1%
2xcmC00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 33.0 3.66e-01 84.2% 75.0%
3kf6A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 38.0 3.61e-01 76.3% 61.8%
3dzmB00 2.40.160.70 Mainly Beta › Beta Barrel › Porin › outer membrane protein from Thermus thermophilus HB27. 0.51 36.0 3.00e-01 73.7% 68.6%
1tqzA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 38.0 3.71e-01 77.2% 100.0%
6aqgA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 39.0 3.70e-01 82.5% 87.9%
3g5kA00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.51 39.0 3.35e-01 81.6% 85.2%
3qu1A00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.50 36.0 3.21e-01 75.4% 79.2%
1gqyB02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.50 36.0 2.98e-01 76.3% 78.8%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
138326 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.91 86.0 7.88e-01 100.0% 79.9%
3973159 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.87 82.0 7.40e-01 100.0% 78.0%
177048 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.87 82.0 7.35e-01 100.0% 77.3%
3282325 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.86 81.0 7.19e-01 100.0% 76.1%
3599060 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.84 77.0 6.23e-01 100.0% 55.0%
3886079 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.81 77.0 6.15e-01 100.0% 56.6%
5044666 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.80 76.0 6.64e-01 100.0% 80.0%
4357768 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.77 66.0 6.29e-01 100.0% 78.5%
3621756 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.77 66.0 6.11e-01 100.0% 73.6%
4210863 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.77 65.0 6.23e-01 100.0% 78.5%
4413773 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.77 65.0 6.15e-01 100.0% 75.6%
5072041 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.74 62.0 5.90e-01 100.0% 76.9%
4453818 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.73 65.0 5.88e-01 100.0% 72.7%
3838435 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.70 50.0 5.40e-01 78.9% 87.4%
3839627 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.69 61.0 5.77e-01 100.0% 80.7%
4373021 2.4.1.6 ↗ beta barrels › OB-fold › MOP-like › MOP-like › CysA_C_terminal 0.66 31.0 3.31e-01 74.6% 49.5%
3943796 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.65 34.0 3.98e-01 70.2% 71.2%
4311691 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.65 34.0 3.21e-01 77.2% 42.2%
4443040 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.64 33.0 3.49e-01 77.2% 52.9%
3839222 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.64 59.0 5.49e-01 100.0% 87.9%
3969569 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.64 31.0 4.06e-01 73.7% 85.0%
3553003 2003.1.5.111 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Rsm22 0.62 31.0 4.14e-01 71.9% 91.7%
4049072 2.4.1.6 ↗ beta barrels › OB-fold › MOP-like › MOP-like › CysA_C_terminal 0.61 32.0 3.26e-01 77.2% 50.0%
5077813 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.60 32.0 3.09e-01 72.8% 43.0%
4606688 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.60 33.0 3.93e-01 70.2% 80.0%
3737927 220.1.1.294 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PF26663 0.59 42.0 4.28e-01 72.8% 86.4%
3975862 220.1.1.104 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Cpta_toxin 0.59 40.0 4.59e-01 73.7% 98.8%
3255946 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 38.0 4.37e-01 77.2% 93.8%
4200272 218.1.1.0 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like 0.57 32.0 3.56e-01 74.6% 68.9%
4190716 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.57 30.0 3.08e-01 80.7% 48.7%
4058734 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.56 34.0 3.73e-01 70.2% 73.7%
4039287 289.1.1.1 ↗ a+b complex topology › Peptide deformylase › Peptide deformylase › Peptide deformylase › Pep_deformylase 0.52 37.0 3.29e-01 75.4% 78.2%
4355046 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.51 32.0 3.43e-01 75.4% 73.7%
3276058 289.1.1.1 ↗ a+b complex topology › Peptide deformylase › Peptide deformylase › Peptide deformylase › Pep_deformylase 0.51 38.0 3.38e-01 80.7% 84.1%
4454013 289.1.1.1 ↗ a+b complex topology › Peptide deformylase › Peptide deformylase › Peptide deformylase › Pep_deformylase 0.50 38.0 3.29e-01 80.7% 85.6%
1877349 289.1.1.1 ↗ a+b complex topology › Peptide deformylase › Peptide deformylase › Peptide deformylase › Pep_deformylase 0.50 38.0 3.34e-01 79.8% 84.6%
D2 high residues 225-310
PDB
D3 medium residues 1-74
PDB