2XNP Transferase date Aug 05, 2010
title Structure Of Nek2 Bound To Cct244858
authors C.Mas-Droux, R.Bayliss
compound source
Molecule: Serinethreonine-Protein Kinase Nek2
Chain: A
Fragment: Kinase Domain, Residues 1-271
Synonym: Never In Mitosis A-Related Kinase 2, Nek2, Nima-Re Protein Kinase 2, Nima-Like Protein Kinase 1, Hspk 21;
Ec: 2.7.11.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_variant: Ril
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet30
symmetry Space Group: C 1 2 1
R_factor 0.1566 R_Free 0.2012
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.640 56.880 81.840 90.00 133.63 90.00
method X-Ray Diffractionresolution 1.98 Å
ligand CL, EDO, WCX BindingDB enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceBenzimidazole Inhibitors Induce a DFG-Out Conformation of Never in Mitosis Gene A-Related Kinase 2 (Nek2) without Binding to the Back Pocket and Reveal a Nonlinear Structure-Activity Relationship., Solanki S, Innocenti P, Mas-Droux C, Boxall K, Barillari C, van Montfort RL, Aherne GW, Bayliss R, Hoelder S, J Med Chem. 2011 Mar 24;54(6):1626-39. Epub 2011 Mar 2. PMID:21366329
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (100 Kb) [Save to disk]
  • Biological Unit Coordinates (2xnp.pdb1.gz) 95 Kb
  • LPC: Ligand-Protein Contacts for 2XNP
  • CSU: Contacts of Structural Units for 2XNP
  • Structure Factors (1341 Kb)
  • Retrieve 2XNP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XNP from S2C, [Save to disk]
  • Re-refined 2xnp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XNP 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 2XNP
  • 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 2XNP, from MSDmotif at EBI
  • Fold representative 2xnp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xnp] [2xnp_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2XNP: [S_TKc ] by SMART
  • Other resources with information on 2XNP
  • Community annotation for 2XNP 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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