4C59 Transferase date Sep 10, 2013
title Structure Of Gak Kinase In Complex With Nanobody (Nbgak_4)
authors A.Chaikuad, T.Keates, C.K.Allerston, O.Gileadi, F.Von Delft, C.H.Arrowsmith, A.M.Edwards, C.Bountra, S.Knapp, S.Muller-Knapp
compound source
Molecule: Cyclin-G-Associated Kinase
Chain: A
Fragment: Kinase Domain, Residues 14-351
Synonym: Gak
Ec: 2.7.11.1
Engineered: 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_variant: R3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic28-Bsa4

Molecule: Nanobody
Chain: B

Synthetic: Yes
Organism_scientific: Lama Glama
Organism_common: Llama
Organism_taxid: 9844
symmetry Space Group: C 1 2 1
R_factor 0.20238 R_Free 0.26163
crystal
cell
length a length b length c angle alpha angle beta angle gamma
174.268 37.753 75.546 90.00 111.46 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand FEF enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of cyclin G-associated kinase (GAK) trapped in different conformations using nanobodies., Chaikuad A, Keates T, Vincke C, Kaufholz M, Zenn M, Zimmermann B, Gutierrez C, Zhang RG, Hatzos-Skintges C, Joachimiak A, Muyldermans S, Herberg FW, Knapp S, Muller S, Biochem J. 2014 Apr 1;459(1):59-69. doi: 10.1042/BJ20131399. PMID:24438162
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk]
  • Biological Unit Coordinates (4c59.pdb1.gz) 129 Kb
  • LPC: Ligand-Protein Contacts for 4C59
  • CSU: Contacts of Structural Units for 4C59
  • Structure Factors (173 Kb)
  • Retrieve 4C59 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4C59 from S2C, [Save to disk]
  • Re-refined 4c59 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4C59 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 4C59
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4C59, from MSDmotif at EBI
  • Fold representative 4c59 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4c59_A] [4c59] [4c59_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4C59: [IGv ] by SMART
  • Other resources with information on 4C59
  • Community annotation for 4C59 at PDBWiki (http://pdbwiki.org)

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