5L6P Transferase date May 30, 2016
title Ephb3 Kinase Domain Covalently Bound To An Irreversible Inhi (Compound 6)
authors M.Schimpl, R.Overman, A.Kung, Y.C.Chen, F.Ni, J.Zhu, M.Turner, H.M C.Zhang
compound source
Molecule: Ephrin Type-B Receptor 3
Chain: A
Synonym: Eph-Like Tyrosine Kinase 2,Eph-Like Kinase 2,Embry Kinase 2,Hek2,Tyrosine-Protein Kinase Tyro6;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ephb3, Etk2, Hek2, Tyro6
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.205 R_Free 0.232
length a length b length c angle alpha angle beta angle gamma
47.240 56.950 126.750 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.26 Å
ligand 6P8, DIO enzyme Transferase E.C. BRENDA

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (5l6p.pdb1.gz) 92 Kb
  • LPC: Ligand-Protein Contacts for 5L6P
  • CSU: Contacts of Structural Units for 5L6P
  • Structure Factors (443 Kb)
  • Retrieve 5L6P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5L6P from S2C, [Save to disk]
  • Re-refined 5l6p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5L6P 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 5L6P
  • 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 5l6p from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5l6p_A] [5l6p]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5L6P: [TyrKc ] by SMART
  • Other resources with information on 5L6P
  • Community annotation for 5L6P at PDBWiki (http://pdbwiki.org)

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