1A31 Isomerase Dna date Jan 27, 1998
title Human Reconstituted Dna Topoisomerase I In Covalent Complex With A 22 Base Pair Dna Duplex
authors M.R.Redinbo, L.Stewart, P.Kuhn, J.J.Champoux, W.G.J.Hol
compound source
Molecule: Dna (5'- D(Apapapapapgpapcp5iup5iutpgpapapapapap5i Up5iup5iup5iupt)-3');
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Apapapapaptp5iup5iup5iup5iupcpapapapgptp Cptptptptpt)-3');
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Protein (Topoisomerase I)
Chain: A
Fragment: Core Domain And C-Terminal Domain
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Nucleus
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector: Baculovirus
symmetry Space Group: P 1 21 1
R_factor 0.247 R_Free 0.310
length a length b length c angle alpha angle beta angle gamma
72.000 66.600 71.800 90.00 98.30 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand 5IU, PTR enzyme Isomerase E.C. BRENDA
note 1A31 (Molecule of the Month:pdb73)
related structures by homologous chain: 1K4T, 1RRJ

Primary referenceCrystal structures of human topoisomerase I in covalent and noncovalent complexes with DNA., Redinbo MR, Stewart L, Kuhn P, Champoux JJ, Hol WG, Science 1998 Mar 6;279(5356):1504-13. PMID:9488644
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk]
  • Biological Unit Coordinates (1a31.pdb1.gz) 102 Kb
  • LPC: Ligand-Protein Contacts for 1A31
  • CSU: Contacts of Structural Units for 1A31
  • Likely Quarternary Molecular Structure file(s) for 1A31
  • Retrieve 1A31 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1A31 from S2C, [Save to disk]
  • View 1A31 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 1A31
  • 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 1A31, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1a31a2, region A:215-430 [Jmol] [rasmolscript] [script source]
        - Domain d1a31a1, region A:431-626,A:720-765 [Jmol] [rasmolscript] [script source]
  • Fold representative 1a31 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: [1a31_C] [1a31] [1a31_A] [1a31_D]
  • SWISS-PROT database: [P11387]
  • Domain organization of [TOP1_HUMAN] by SWISSPFAM
  • Domain found in 1A31: [TOPEUc ] by SMART
  • Other resources with information on 1A31
  • Community annotation for 1A31 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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