3BKY Immune System date Dec 07, 2007
title Crystal Structure Of Chimeric Antibody C2h7 Fab In Complex W Peptide
authors J.Du, C.Zhong, J.Ding
compound source
Molecule: The Fab Fragment Of Chimeric 2h7, Heavy Chain
Chain: H
Engineered: Yes
Other_details: Chimeric 2h7, Heavy Chain From Human And Mou
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: K1
Expression_system_cell_line: Chinese Hamster Ovary (Cho)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdna3.1

Molecule: The Fab Fragment Of Chimeric 2h7, Light Chain
Chain: L
Engineered: Yes
Other_details: Chimeric 2h7, Light Chain From Human And Mou

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: K1
Expression_system_cell_line: Chinese Hamster Ovary (Cho)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdna3.1

Molecule: B-Lymphocyte Antigen Cd20
Chain: P
Fragment: Cd20 Peptide, Resideus 163-187
Synonym: B-Lymphocyte Surface Antigen B1,Bp35,Leukocyte Sur Antigen Leu-16,Membrane-Spanning 4-Domains Subfamily A Memb
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: The Cd20 Peptide Was Synthesized At Shanghai Bioscience Company
symmetry Space Group: P 41 21 2
R_factor 0.234 R_Free 0.301
crystal
cell
length a length b length c angle alpha angle beta angle gamma
96.490 96.490 107.613 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.61 Å
Primary referenceCrystal structure of chimeric antibody C2H7 Fab in complex with a CD20 peptide., Du J, Wang H, Zhong C, Peng B, Zhang M, Li B, Hou S, Guo Y, Ding J, Mol Immunol. 2008 May;45(10):2861-2868. Epub 2008 Mar 17. PMID:18346788
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (3bky.pdb1.gz) 72 Kb
  • Biological Unit Coordinates (3bky.pdb2.gz) 69 Kb
  • Biological Unit Coordinates (3bky.pdb3.gz) 5 Kb
  • CSU: Contacts of Structural Units for 3BKY
  • Likely Quarternary Molecular Structure file(s) for 3BKY
  • Structure Factors (116 Kb)
  • Retrieve 3BKY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BKY from S2C, [Save to disk]
  • Re-refined 3bky structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BKY 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 3BKY
  • 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
  • 3D motif for 3BKY, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bky_H] [3bky] [3bky_P] [3bky_L]
  • SWISS-PROT database: [P11836] [P01857] [P01834]
  • Belongs to the cd20 ca(2+) channel (cd20) family according to TCDB.
  • Domain organization of [CD20_HUMAN] [IGHG1_HUMAN] [IGKC_HUMAN] by SWISSPFAM
  • Domains found in 3BKY: [IG_like] [IGv ] by SMART
  • Other resources with information on 3BKY
  • Community annotation for 3BKY 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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