5MJB Transferase date Nov 30, 2016
title Kinase Domain Of Human Ephb1, G703c Mutant, Covalently Bound Quinazoline-Based Inhibitor
authors A.Kung, M.Schimpl, Y.C.Chen, R.C.Overman, C.Zhang
compound source
Molecule: Ephrin Type-B Receptor 1
Chain: A, B
Synonym: Elk,Eph Tyrosine Kinase 2,Eph-Like Kinase 6,Hek6,N Expressed Eph-Related Tyrosine Kinase,Net,Tyrosine-Protein Receptor Eph-2;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ephb1, Elk, Epht2, Hek6, Net
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Gold
symmetry Space Group: P 31 2 1
R_factor 0.198 R_Free 0.214
length a length b length c angle alpha angle beta angle gamma
102.200 102.200 157.550 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.23 Å
ligand 7O3, PTR, SO4 enzyme Transferase E.C. BRENDA
A, B

Primary referenceA Chemical-Genetic Approach to Generate Selective Covalent Inhibitors of Protein Kinases., Kung A, Schimpl M, Ekanayake A, Chen YC, Overman R, Zhang C, ACS Chem Biol. 2017 May 8. doi: 10.1021/acschembio.6b01083. PMID:28459525
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (200 Kb) [Save to disk]
  • Biological Unit Coordinates (5mjb.pdb1.gz) 99 Kb
  • Biological Unit Coordinates (5mjb.pdb2.gz) 97 Kb
  • LPC: Ligand-Protein Contacts for 5MJB
  • CSU: Contacts of Structural Units for 5MJB
  • Structure Factors (1595 Kb)
  • Retrieve 5MJB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MJB from S2C, [Save to disk]
  • Re-refined 5mjb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5MJB 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 5MJB
  • 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
  • Fold representative 5mjb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5mjb_A] [5mjb_B] [5mjb]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MJB
  • Community annotation for 5MJB at PDBWiki (http://pdbwiki.org)

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