3OE6 Signaling Protein, Hydrolase date Aug 12, 2010
title Crystal Structure Of The Cxcr4 Chemokine Receptor In Complex Small Molecule Antagonist It1t In I222 Spacegroup
authors B.Wu, C.D.Mol, G.W.Han, V.Katritch, E.Y.T.Chien, W.Liu, V.Cherezov R.C.Stevens, Accelerated Technologies Center For Gene To 3d (Atcg3d), Gpcr Network (Gpcr)
compound source
Molecule: C-X-C Chemokine Receptor Type 4, Lysozyme Chimera
Chain: A
Fragment: Cxcr4 Residues 2-228, Lysozyme Residues 1002-1161 Residues 231-325;
Synonym: Cxc-R4, Cxcr-4, Stromal Cell-Derived Factor 1 Rece Receptor, Fusin, Leukocyte-Derived Seven Transmembrane Do Receptor, Lestr, Lcr1, Fb22, Npyrl, Hm89, Lysis Protein, Mu Endolysin;
Ec: 3.2.1.17
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens, Enterobacteria Phage T4
Organism_taxid: 9606, 10665
Gene: Cxcr4, Cxcr4_human,E
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Sf9
Expression_system_vector_type: Bacmid
Expression_system_plasmid: Pfastbac
symmetry Space Group: I 2 2 2
R_factor 0.232 R_Free 0.306
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.121 78.711 240.592 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand GOL, ITD, OLC BindingDB enzyme Hydrolase E.C.3.2.1.17 BRENDA
Gene CXCR4 (H. sapiens)
Gene
Ontology
ChainFunctionProcessComponent
A


Disease Myelokathexis, isolated OMIM:162643
WHIM syndrome OMIM:162643
Primary referenceStructures of the CXCR4 Chemokine GPCR with Small-Molecule and Cyclic Peptide Antagonists., Wu B, Chien EY, Mol CD, Fenalti G, Liu W, Katritch V, Abagyan R, Brooun A, Wells P, Bi FC, Hamel DJ, Kuhn P, Handel TM, Cherezov V, Stevens RC, Science. 2010 Oct 7. PMID:20929726
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (151 Kb) [Save to disk]
  • Biological Unit Coordinates (3oe6.pdb1.gz) 280 Kb
  • LPC: Ligand-Protein Contacts for 3OE6
  • CSU: Contacts of Structural Units for 3OE6
  • Structure Factors (183 Kb)
  • Retrieve 3OE6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3OE6 from S2C, [Save to disk]
  • Re-refined 3oe6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3OE6 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 3OE6
  • 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 3OE6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c3oe6, region E:677-935 [Jmol] [rasmolscript] [script source]
  • Fold representative 3oe6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3oe6_A] [3oe6]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3OE6
  • Community annotation for 3OE6 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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