3EYQ Immune System date Oct 21, 2008
title Crystal Structure Of Mj5 Fab, A Germline Antibody Variant Of Human Cytomegalovirus Antibody 8f9
authors C.A.Thomson, S.Bryson, G.R.Mclean, A.L.Creagh, E.F.Pai, J.W.Schra
compound source
Molecule: M2j5 Fab
Chain: C
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet40

Molecule: 8f9 Fab
Chain: D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32b
symmetry Space Group: P 21 21 21
R_factor 0.250 R_Free 0.270
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.380 76.050 111.540 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
Gene
Ontology
ChainFunctionProcessComponent
C


Primary referenceGermline V-genes sculpt the binding site of a family of antibodies neutralizing human cytomegalovirus., Thomson CA, Bryson S, McLean GR, Creagh AL, Pai EF, Schrader JW, EMBO J. 2008 Oct 8;27(19):2592-602. Epub 2008 Sep 4. PMID:18772881
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (3eyq.pdb1.gz) 66 Kb
  • CSU: Contacts of Structural Units for 3EYQ
  • Likely Quarternary Molecular Structure file(s) for 3EYQ
  • Structure Factors (253 Kb)
  • Retrieve 3EYQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EYQ from S2C, [Save to disk]
  • Re-refined 3eyq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EYQ 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 3EYQ
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3EYQ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3eyq] [3eyq_D] [3eyq_C]
  • SWISS-PROT database: [P01857] [P01834] [P04433]
  • Domain organization of [IGHG1_HUMAN] [IGKC_HUMAN] [KV309_HUMAN] by SWISSPFAM
  • Domains found in 3EYQ: [IG_like] [IGv ] by SMART
  • Other resources with information on 3EYQ
  • Community annotation for 3EYQ 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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