3OE0 Signaling Protein, Hydrolase Antibiotic date Aug 12, 2010
title Crystal Structure Of The Cxcr4 Chemokine Receptor In Complex Cyclic Peptide Antagonist Cvx15
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 231-319;
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

Molecule: Polyphemusin Analog, Cxc Chemokine Receptor Antag
Chain: I
Engineered: Yes
Other_details: Cyclic Peptide Cvx15

Synthetic: Yes
Other_details: Synthetic Analog And Derivative Of Polyphemu Limulus Polyphemus (Horseshoe Crab)
symmetry Space Group: C 1 2 1
R_factor 0.215 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
82.080 144.860 73.990 90.00 104.54 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand ALN, CIR, DPR enzyme Hydrolase E.C.3.2.1.17 BRENDA
subcellular loc. Membrane localization by OPM: Eukaryotic plasma membrane
extracellular side
cytoplasmic side
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] (155 Kb) [Save to disk]
  • Biological Unit Coordinates (3oe0.pdb1.gz) 294 Kb
  • LPC: Ligand-Protein Contacts for 3OE0
  • CSU: Contacts of Structural Units for 3OE0
  • Structure Factors (280 Kb)
  • Retrieve 3OE0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3OE0 from S2C, [Save to disk]
  • Re-refined 3oe0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3OE0 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 3OE0
  • 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 3OE0, from MSDmotif at EBI
  • Fold representative 3oe0 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3oe0_A] [3oe0_I] [3oe0]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3OE0
  • Community annotation for 3OE0 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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