1OH8 Dna Binding date May 23, 2003
title The Crystal Structure Of E. Coli Muts Binding To Dna With An Thymidine
authors G.Natrajan, M.H.Lamers, J.H.Enzlin, H.H.K.Winterwerp, A.Perrakis T.K.Sixma
compound source
Molecule: Dna Mismatch Repair Protein Muts
Chain: A, B
Fragment: Residues 1-800
Synonym: Muts, Fdv, B2733
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: B834 De3
Variant: Plyss
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834 De3
Expression_system_variant: Plyss
Expression_system_vector: Pet3d
Expression_system_plasmid: Pm800

Molecule: 5'-D(Apgpcptpgpcpcpapgpgp Cpapcpcpapgptpgptpcpapgpcpgptpcpcp Tpap
Chain: E
Engineered: Yes
Other_details: Dna With Unpaired Thymidine-Top Strand

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Chemically Synthesized

Molecule: 5'-D(Aptpapgpgpapcpgpcptp Gpapcpapcptpgpgptpgpcpcptptpgpgpcp Apgp
Chain: F
Engineered: Yes
Other_details: Dna With Unpaired Thymidine-Bottom Strand

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Chemically Synthesized
symmetry Space Group: P 21 21 21
R_factor 0.217 R_Free 0.292
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.381 91.719 259.694 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand ADP, MG enzyme
related structures by homologous chain: 1NG9, 1OH5
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructures of Escherichia coli DNA mismatch repair enzyme MutS in complex with different mismatches: a common recognition mode for diverse substrates., Natrajan G, Lamers MH, Enzlin JH, Winterwerp HH, Perrakis A, Sixma TK, Nucleic Acids Res 2003 Aug 15;31(16):4814-21. PMID:12907723
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (259 Kb) [Save to disk]
  • Biological Unit Coordinates (1oh8.pdb1.gz) 248 Kb
  • LPC: Ligand-Protein Contacts for 1OH8
  • CSU: Contacts of Structural Units for 1OH8
  • Likely Quarternary Molecular Structure file(s) for 1OH8
  • Structure Factors (369 Kb)
  • Retrieve 1OH8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OH8 from S2C, [Save to disk]
  • Re-refined 1oh8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OH8 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 1OH8
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1OH8, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1oh8a3, region A:117-269 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8a4, region A:2-116 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8a1, region A:270-566 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8a2, region A:567-800 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8b3, region B:117-269 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8b4, region B:14-116 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8b1, region B:270-566 [Jmol] [rasmolscript] [script source]
        - Domain d1oh8b2, region B:567-800 [Jmol] [rasmolscript] [script source]
  • 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: [1oh8_B] [1oh8] [1oh8_A] [1oh8_F] [1oh8_E]
  • SWISS-PROT database: [P23909]
  • Domain organization of [MUTS_ECOLI] by SWISSPFAM
  • Domains found in 1OH8: [MUTSac] [MUTSd ] by SMART
  • Other resources with information on 1OH8
  • Community annotation for 1OH8 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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