3GX4 Dna Binding Protein Dna date Apr 01, 2009
title Crystal Structure Analysis Of S. Pombe Atl In Complex With D
authors J.L.Tubbs, A.S.Arvai, J.A.Tainer
compound source
Molecule: Alkyltransferase-Like Protein 1
Chain: X
Engineered: Yes
 Organism_scientific: Schizosaccharomyces Pombe
Organism_common: Fission Yeast
Organism_taxid: 4896
Gene: Atl1, Spac1250.04c
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Gpcpcpaptpgp(6og)Pcptpapgpt
Chain: Y
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'-D(Cptpapcptpapgpcpcpaptpgpg)
Chain: Z
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 61 2 2
R_factor 0.227 R_Free 0.296
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.728 59.728 238.028 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand 6OG, NCO enzyme
Gene
Ontology
ChainFunctionProcessComponent
X


Primary referenceFlipping of alkylated DNA damage bridges base and nucleotide excision repair., Tubbs JL, Latypov V, Kanugula S, Butt A, Melikishvili M, Kraehenbuehl R, Fleck O, Marriott A, Watson AJ, Verbeek B, McGown G, Thorncroft M, Santibanez-Koref MF, Millington C, Arvai AS, Kroeger MD, Peterson LA, Williams DM, Fried MG, Margison GP, Pegg AE, Tainer JA, Nature. 2009 Jun 11;459(7248):808-13. PMID:19516334
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (3gx4.pdb1.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 3GX4
  • CSU: Contacts of Structural Units for 3GX4
  • Likely Quarternary Molecular Structure file(s) for 3GX4
  • Structure Factors (100 Kb)
  • Retrieve 3GX4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GX4 from S2C, [Save to disk]
  • Re-refined 3gx4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3GX4 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 3GX4
  • 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 3GX4, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gx4_Z] [3gx4_X] [3gx4] [3gx4_Y]
  • SWISS-PROT database: [Q9UTN9]
  • Domain organization of [ATL1_SCHPO] by SWISSPFAM
    • Other resources with information on 3GX4
  • Community annotation for 3GX4 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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