1NSK Phosphotransferase (Po4 As Acceptor) date Jul 04, 1995
title The Crystal Structure Of A Human Nucleoside Diphosphate Kinase, Nm23-H2
authors R.L.Williams, O.Perisic
compound source
Molecule: Nucleoside Diphosphate Kinase
Chain: R, L, T, U, N, O
Ec: 2.7.4.6
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nm23-H2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pmal-C2 (New England Biolabs)
Expression_system_gene: Nm23-H2
symmetry Space Group: P 21 21 21
R_factor 0.249 R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
118.670 118.800 90.190 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: 1MN9, 1W7W
Gene
Ontology
ChainFunctionProcessComponent
O, T, N, R, L, U
  • protein histidine kinase act...


  • Primary referenceThe crystal structure of a human nucleoside diphosphate kinase, NM23-H2., Webb PA, Perisic O, Mendola CE, Backer JM, Williams RL, J Mol Biol 1995 Aug 25;251(4):574-87. PMID:7658474
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (150 Kb) [Save to disk]
  • Biological Unit Coordinates (1nsk.pdb1.gz) 146 Kb
  • CSU: Contacts of Structural Units for 1NSK
  • Likely Quarternary Molecular Structure file(s) for 1NSK
  • Structure Factors (210 Kb)
  • Retrieve 1NSK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NSK from S2C, [Save to disk]
  • Re-refined 1nsk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1NSK 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 1NSK
  • 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 1NSK, from MSDmotif at EBI
  • Genome occurence of 1NSK's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nskl_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1nskn_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1nsko_, region O [Jmol] [rasmolscript] [script source]
        - Domain d1nskr_, region R [Jmol] [rasmolscript] [script source]
        - Domain d1nskt_, region T [Jmol] [rasmolscript] [script source]
        - Domain d1nsku_, region U [Jmol] [rasmolscript] [script source]
  • Fold representative 1nsk from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1nsk_N] [1nsk_O] [1nsk] [1nsk_R] [1nsk_T] [1nsk_U] [1nsk_L]
  • SWISS-PROT database: [P22392]
  • Domain organization of [NDKB_HUMAN] by SWISSPFAM
  • Domain found in 1NSK: [NDK ] by SMART
  • Other resources with information on 1NSK
  • Community annotation for 1NSK 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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