4YL6 Protein Binding date Mar 05, 2015
title Crystal Structure Of Truncated Cerebral Cavernous Malformati Terminal Adaptor Domain In Complex With An Internal Helix O Activated Protein Kinase Kinase Kinase 3
authors J.Ding, X.Wang, D.C.Wang
compound source
Molecule: Malcavernin
Chain: A
Fragment: Truncated Fragment Of C-Terminal Adaptor Domain, Residues 290-376;
Synonym: Cerebral Cavernous Malformations 2 Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ccm2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b

Molecule: Mitogen-Activated Protein Kinase Kinase Kinase 3
Chain: B
Fragment: Unp Residues 1-22
Synonym: Mapkerk Kinase Kinase 3,Mekk 3
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 43 21 2
R_factor 0.203 R_Free 0.237
length a length b length c angle alpha angle beta angle gamma
61.210 61.210 68.980 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
Primary referenceStructural Insights into the Molecular Recognition between Cerebral Cavernous Malformation 2 and Mitogen-Activated Protein Kinase Kinase Kinase 3., Wang X, Hou Y, Deng K, Zhang Y, Wang DC, Ding J, Structure. 2015 Apr 29. pii: S0969-2126(15)00131-8. doi:, 10.1016/j.str.2015.04.003. PMID:25982527
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • Biological Unit Coordinates (4yl6.pdb1.gz) 20 Kb
  • CSU: Contacts of Structural Units for 4YL6
  • Structure Factors (447 Kb)
  • Retrieve 4YL6 in mmCIF format [Save to disk]
  • Re-refined 4yl6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4YL6 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 4YL6
  • 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 4YL6, from MSDmotif at EBI
  • Fold representative 4yl6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yl6_A] [4yl6] [4yl6_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4YL6
  • Community annotation for 4YL6 at PDBWiki (http://pdbwiki.org)

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