3K9Z Oxygen Transport date Oct 16, 2009
title Rational Design Of A Structural And Functional Nitric Oxide
authors N.Yeung, Y.W.Lin, Y.G.Gao, X.Zhao, B.S.Russell, L.Lei, K.D.Miner H.Robinson, Y.Lu
compound source
Molecule: Myoglobin
Chain: A
Engineered: Yes
Mutation: Yes
 Organism_scientific: Physeter Catodon
Organism_common: Sperm Whale
Organism_taxid: 9755
Gene: Swmb
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_cell_line: Bl-21(De3)
Expression_system_plasmid: Pt7-7
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.600 48.240 77.480 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.72 Å
ligand FE2, HEM enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceRational design of a structural and functional nitric oxide reductase., Yeung N, Lin YW, Gao YG, Zhao X, Russell BS, Lei L, Miner KD, Robinson H, Lu Y, Nature. 2009 Dec 24;462(7276):1079-82. Epub 2009 Nov 25. PMID:19940850
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (3k9z.pdb1.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 3K9Z
  • CSU: Contacts of Structural Units for 3K9Z
  • Structure Factors (120 Kb)
  • Retrieve 3K9Z in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3K9Z from S2C, [Save to disk]
  • Re-refined 3k9z structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3K9Z 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 3K9Z
  • 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 3K9Z, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3k9z_A] [3k9z]
  • SWISS-PROT database: [P02185]
  • Domain organization of [MYG_PHYCA] by SWISSPFAM
    • Other resources with information on 3K9Z
  • Community annotation for 3K9Z 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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