1ZDK STRUCTURE OF BACTERIOPHAGE COAT PROTEIN-LOOP RNA COMPLEX date
authors Grahn, E., Stonehouse, N.J., Valegard, K., Vandenworm, S., Liljas, L.
compound source
symmetry
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.86
related structures by homologous chain: 1DZS, 1ZDJ
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceCrystallographic studies of RNA hairpins in complexes with recombinant MS2 capsids: implications for binding requirements., Grahn E, Stonehouse NJ, Murray JB, van den Worm S, Valegard K, Fridborg K, Stockley PG, Liljas L, RNA 1999 Jan;5(1):131-8. PMID:9917072
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (1zdk.pdb1.gz) 4523 Kb
  • CSU: Contacts of Structural Units for 1ZDK
  • Likely Quarternary Molecular Structure file(s) for 1ZDK
  • Retrieve 1ZDK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZDK from S2C, [Save to disk]
    • View 1ZDK 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 1ZDK
  • VIPERdb: visual, structural and computational analysis of 1ZDK
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1ZDK, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1zdka_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1zdkb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1zdkc_, region C [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: [1zdk_A] [1zdk_R] [1zdk_S] [1zdk] [1zdk_C] [1zdk_B]
  • SWISS-PROT database: [P03612]
  • Domain organization of [COAT_BPMS2] by SWISSPFAM
    • Other resources with information on 1ZDK
  • Community annotation for 1ZDK at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1ZDK from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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