1SEU: Human DNA Topoisomerase I

Human DNA Topoisomerase I (70 Kda) In Complex With The Indolocarbazole SA315F and Covalent Complex With A 22 Base Pair DNA Duplex. Determined by X-ray diffraction at 3.0 Å resolution. Released 19 Apr 2005.

Method
X-ray diffraction
Resolution
3.0 Å
Organism
Homo sapiens
Chains
4
Atoms
5,615
Mol. weight
84.21 kDa
Ligands
SA3
Released
19 Apr 2005

Explore 1SEU in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1SEU contains 40 α-helices and 25 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 40 helices, 25 β-strands

ElementResiduesLengthSheet
α-helix205-2073
α-helix209-2124
β-strand220-22121
α-helix2251
β-strand22612
α-helix227-2282
α-helix233-2353
β-strand240-24233
β-strand245-24733
α-helix248-2503
α-helix253-2619
α-helix268-2703
α-helix272-28413
β-strand300-30123
α-helix303-31715
α-helix321-33010
α-helix334-3374
β-strand340-34341
β-strand347-34931
β-strand35014
β-strand35412
α-helix355-3584
β-strand359-36025
β-strand373-37425
α-helix379-3813
α-helix3821
β-strand383-38536
α-helix392-3954
β-strand403-40536
β-strand414-41746
α-helix4231
β-strand424-42746
β-strand42914
α-helix434-44512
α-helix448-4514
α-helix454-4585
α-helix463-4664
α-helix470-48314
β-strand49517
β-strand49817
α-helix504-5063
β-strand50818
α-helix509-5113
β-strand512-51879
β-strand521-530109
α-helix532-5343
β-strand536-54279
α-helix545-5484
α-helix550-5545
β-strand56318
α-helix570-5789
α-helix588-60518
α-helix612-62918
β-strand633110
α-helix644-6485
α-helix654-6585
α-helix662-6654
α-helix683-6864
α-helix689-71022
β-strand714110
α-helix717-7226
α-helix726-73510
α-helix740-7423
α-helix746-7516
α-helix753-7575

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
5'-d(*ap*ap*ap*ap*ap*gp*ap*cp*tp*t)-3'BDNA10
5'-d(*(tgp)p*gp*ap*ap*ap*ap*ap*tp*tp*tp*tp*t)-3'CDNA12
5'-d(*ap*ap*ap*ap*ap*tp*tp*tp*tp*tp*cp*cp*ap*ap*gp*tp*cp*tp*tp*tp*tp*t)-3'DDNA22
DNA topoisomerase IAprotein592Homo sapiensP11387 (AlphaFold model)
Sequence of entity 1 (B), FASTA
>1SEU_1 5'-D(*AP*AP*AP*AP*AP*GP*AP*CP*TP*T)-3' (chains B)
AAAAAGACTT
Sequence of entity 2 (C), FASTA
>1SEU_2 5'-D(*(TGP)P*GP*AP*AP*AP*AP*AP*TP*TP*TP*TP*T)-3' (chains C)
GGAAAAATTTTT
Sequence of entity 3 (D), FASTA
>1SEU_3 5'-D(*AP*AP*AP*AP*AP*TP*TP*TP*TP*TP*CP*CP*AP*AP*GP*TP*CP*TP*TP*TP*TP*T)-3' (chains D)
AAAAATTTTTCCAAGTCTTTTT
Sequence of entity 4 (A), FASTA
>1SEU_4 DNA topoisomerase I (chains A)
KKPKNKDKDKKVPEPDNKKKKPKKEEEQKWKWWEEERYPEGIKWKFLEHKGPVFAPPYEP
LPENVKFYYDGKVMKLSPKAEEVATFFAKMLDHEYTTKEIFRKNFFKDWRKEMTNEEKNI
ITNLSKCDFTQMSQYFKAQTEARKQMSKEEKLKIKEENEKLLKEYGFCIMDNHKERIANF
KIEPPGLFRGRGNHPKMGMLKRRIMPEDIIINCSKDAKVPSPPPGHKWKEVRHDNKVTWL
VSWTENIQGSIKYIMLNPSSRIKGEKDWQKYETARRLKKCVDKIRNQYREDWKSKEMKVR
QRAVALYFIDKLALRAGNEKEEGETADTVGCCSLRVEHINLHPELDGQEYVVEFDFLGKD
SIRYYNKVPVEKRVFKNLQLFMENKQPEDDLFDRLNTGILNKHLQDLMEGLTAKVFRTYN
ASITLQQQLKELTAPDENIPAKILSYNRANRAVAILCNHQRAPPKTFEKSMMNLQTKIDA
KKEQLADARRDLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQ
IALGTSKLSYLDPRITVAWCKKWGVPIEKIYNKTQREKFAWAIDMADEDYEF

Ligands and cofactors

IDNameFormulaCopies
SA32,10-dihydroxy-12-(beta-D-glucopyranosyl)-6,7,12,13-TETRAHYDROINDOLO[2,3-a]pyrr…C26 H21 N3 O91

Primary citation

Structures of three classes of anticancer agents bound to the human topoisomerase I-DNA covalent complex. Staker, B.L., Feese, M.D., Cushman, M. et al. J Med Chem (2005) 48:2336-2345. DOI 10.1021/jm049146p · PubMed

Other PDB entries of the same protein (UniProt P11387 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

About this viewer

MolViewer shows 1SEU directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.