4B9D Transferase date Sep 04, 2012
title Crystal Structure Of Human Nima-Related Kinase 1 (Nek1) With Inhibitor.
authors J.M.Elkins, T.D.M.Hanchuk, D.V.Lovato, F.L.Basei, G.V.Meirelles, M.Szklarz, M.Vollmar, P.Mahajan, P.Rellos, Y.Zhang, T.Krojer, A.C P.Canning, F.Von Delft, J.Raynor, C.Bountra, C.Arrowsmith, A.Edw S.Knapp
compound source
Molecule: Serinethreonine-Protein Kinase Nek1
Chain: A, B
Fragment: Kinase Domain, Residues 1-328
Synonym: Nima-Related Kinase 1, Never In Mitosis A-Related Nima-Related Protein Kinase 1, Renal Carcinoma Antigen Ny-R
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic28-Bsa4
symmetry Space Group: C 2 2 21
R_factor 0.195 R_Free 0.222
length a length b length c angle alpha angle beta angle gamma
90.360 93.660 164.960 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand CK7, CL, EDO enzyme Transferase E.C. BRENDA
A, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (206 Kb) [Save to disk]
  • Biological Unit Coordinates (4b9d.pdb1.gz) 199 Kb
  • LPC: Ligand-Protein Contacts for 4B9D
  • CSU: Contacts of Structural Units for 4B9D
  • Structure Factors (2000 Kb)
  • Retrieve 4B9D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4B9D from S2C, [Save to disk]
  • Re-refined 4b9d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4B9D 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 4B9D
  • 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 4B9D, from MSDmotif at EBI
  • Fold representative 4b9d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4b9d] [4b9d_A] [4b9d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4B9D: [S_TKc ] by SMART
  • Other resources with information on 4B9D
  • Community annotation for 4B9D at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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