1EJ9 Isomerase Dna date Mar 01, 2000
title Crystal Structure Of Human Topoisomerase I Dna Complex
authors M.R.Redinbo, J.J.Champoux, W.G.Hol
compound source
Molecule: Dna (5'- D(Capapapapapgpapcptpcpapgpapapapapaptp Tptptpt)-3');
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Capapapapaptptptptptpcptpgpapgptpcptp Tptptpt)-3');
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Dna Topoisomerase I
Chain: A
Fragment: C-Terminal Domain, Residues 203-765
Ec: 5.99.1.2
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell: Sf9 Insect Cells
symmetry Space Group: P 1 21 1
R_factor 0.214 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.980 124.920 72.290 90.00 93.84 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand
enzyme Isomerase E.C.5.99.1.2 BRENDA
related structures by homologous chain: 1A35, 1RR8
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceNovel insights into catalytic mechanism from a crystal structure of human topoisomerase I in complex with DNA., Redinbo MR, Champoux JJ, Hol WG, Biochemistry 2000 Jun 13;39(23):6832-40. PMID:10841763
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (111 Kb) [Save to disk]
  • Biological Unit Coordinates (1ej9.pdb1.gz) 106 Kb
  • CSU: Contacts of Structural Units for 1EJ9
  • Likely Quarternary Molecular Structure file(s) for 1EJ9
  • Retrieve 1EJ9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1EJ9 from S2C, [Save to disk]
  • View 1EJ9 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1EJ9
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1EJ9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ej9a2, region A:203-430 [Jmol] [rasmolscript] [script source]
        - Domain d1ej9a1, region A:431-633,A:714-765 [Jmol] [rasmolscript] [script source]
  • Fold representative 1ej9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ej9_D] [1ej9_C] [1ej9] [1ej9_A]
  • SWISS-PROT database: [P11387]
  • Domain organization of [TOP1_HUMAN] by SWISSPFAM
  • Domain found in 1EJ9: [TOPEUc ] by SMART
  • Other resources with information on 1EJ9
  • Community annotation for 1EJ9 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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