1KDD X-ray structure of the coiled coil GCN4 ACID BASE HETERODIMER ACID-d12La16I BASE-d12La16L date
authors Keating, A.E., Malashkevich, V.N., Tidor, B., Kim, P.S.
compound source
R_Free 0.3022
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.14
ligand ACE enzyme
related structures by homologous chain: 1KD9
Primary referenceSide-chain repacking calculations for predicting structures and stabilities of heterodimeric coiled coils., Keating AE, Malashkevich VN, Tidor B, Kim PS, Proc Natl Acad Sci U S A 2001 Dec 18;98(26):14825-30. PMID:11752430
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (1kdd.pdb1.gz) 13 Kb
  • Biological Unit Coordinates (1kdd.pdb2.gz) 12 Kb
  • Biological Unit Coordinates (1kdd.pdb3.gz) 12 Kb
  • LPC: Ligand-Protein Contacts for 1KDD
  • CSU: Contacts of Structural Units for 1KDD
  • Likely Quarternary Molecular Structure file(s) for 1KDD
  • Structure Factors (128 Kb)
  • Retrieve 1KDD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KDD from S2C, [Save to disk]
  • Re-refined 1kdd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KDD 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 1KDD
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1KDD, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kdda_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1kddb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1kddc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1kddd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1kdde_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1kddf_, region F [Jmol] [rasmolscript] [script source]
  • Fold representative 1kdd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1kdd_D] [1kdd_A] [1kdd_B] [1kdd_E] [1kdd_C] [1kdd] [1kdd_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 1KDD
  • Community annotation for 1KDD 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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