1W5J Four Helix Bundle date Aug 07, 2004
title An Anti-Parallel Four Helix Bundle
authors M.K.Yadav, L.J.Leman, C.D.Stout, M.R.Ghadiri
compound source
Molecule: General Control Protein Gcn4
Chain: A, B, C, D
Synonym: Amino Acid Biosynthesis Regulatory Protein, Pli Ky
Engineered: Yes
Mutation: Yes
 Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
symmetry Space Group: P 21 21 2
R_factor 0.228 R_Free 0.285
crystal
cell
length a length b length c angle alpha angle beta angle gamma
33.691 37.192 103.991 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand TYZ enzyme
related structures by homologous chain: 1U9F, 1UNW
Primary referenceCoiled coils at the edge of configurational heterogeneity. Structural analyses of parallel and antiparallel homotetrameric coiled coils reveal configurational sensitivity to a single solvent-exposed amino acid substitution., Yadav MK, Leman LJ, Price DJ, Brooks CL 3rd, Stout CD, Ghadiri MR, Biochemistry. 2006 Apr 11;45(14):4463-73. PMID:16584182
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (1w5j.pdb1.gz) 24 Kb
  • Biological Unit Coordinates (1w5j.pdb2.gz) 23 Kb
  • LPC: Ligand-Protein Contacts for 1W5J
  • CSU: Contacts of Structural Units for 1W5J
  • Likely Quarternary Molecular Structure file(s) for 1W5J
  • Structure Factors (67 Kb)
  • Retrieve 1W5J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1W5J from S2C, [Save to disk]
  • Re-refined 1w5j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1W5J 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 1W5J
  • 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 1W5J, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1w5ja_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1w5jb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1w5jc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1w5jd_, region D [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1w5j_A] [1w5j] [1w5j_D] [1w5j_B] [1w5j_C]
  • SWISS-PROT database: [P03069]
  • Domain organization of [GCN4_YEAST] by SWISSPFAM
    • Other resources with information on 1W5J
  • Community annotation for 1W5J 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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