1W7W Transferase date Sep 13, 2004
title Structure And Mutational Analysis Of A Plant Mitochondrial N Diphosphate Kinase: Identification Of Residues Involved In Phosphorylation And Oligomerization.
authors M.Johansson, A.Mackenzie-Hose, I.Andersson, C.Knorpp
compound source
Molecule: Nucleoside Diphosphate Kinase
Chain: A, B, C, D, E, F
Ec: 2.7.4.6
Engineered: Yes
 Organism_scientific: Pisum Sativum
Organism_common: Pea
Organism_taxid: 3888
Strain: Oregon Sugar Pod
Expression_system: Escherichia Coli Dh5[Alpha]
Expression_system_taxid: 668369
Expression_system_plasmid: Pproex
symmetry Space Group: P 21 21 21
R_factor 0.237 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.100 84.700 161.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand
enzyme Transferase E.C.2.7.4.6 BRENDA
related structures by homologous chain: 1BUX, 1NSK
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceStructure and mutational analysis of a plant mitochondrial nucleoside diphosphate kinase. Identification of residues involved in serine phosphorylation and oligomerization., Johansson M, Mackenzie-Hose A, Andersson I, Knorpp C, Plant Physiol. 2004 Oct;136(2):3034-42. Epub 2004 Oct 1. PMID:15466238
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (146 Kb) [Save to disk]
  • Biological Unit Coordinates (1w7w.pdb1.gz) 141 Kb
  • CSU: Contacts of Structural Units for 1W7W
  • Likely Quarternary Molecular Structure file(s) for 1W7W
  • Structure Factors (186 Kb)
  • Retrieve 1W7W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1W7W from S2C, [Save to disk]
  • Re-refined 1w7w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1W7W 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 1W7W
  • 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 1W7W, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1w7wa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1w7wb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1w7wc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1w7wd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1w7we_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1w7wf_, region F [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1w7w_F] [1w7w] [1w7w_B] [1w7w_D] [1w7w_E] [1w7w_C] [1w7w_A]
  • SWISS-PROT database: [Q9SP13]
  • Domain organization of [Q9SP13_PEA] by SWISSPFAM
  • Domain found in 1W7W: [NDK ] by SMART
    • Other resources with information on 1W7W
  • Community annotation for 1W7W 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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