6DJP Membrane Protein date May 25, 2018
title Integrin Alpha-V Beta-8 In Complex With The Fabs 8b8 And 68
authors A.Cormier, M.G.Campbell, S.L.Nishimura, Y.Cheng
compound source
Molecule: Integrin Alpha-V
Chain: A
Synonym: Vitronectin Receptor,Vitronectin Receptor Subunit
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgav, Msk8, Vnra, Vtnr
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho Lec 3.2.8.1
Expression_system_organ: Ovary

Molecule: Integrin Beta-8
Chain: B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgb8
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho Lec 3.2.8.1
Expression_system_organ: Ovary

Molecule: 8b8 Heavy Chain Fab
Chain: C
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_common: Mouse
Expression_system_taxid: 10090
Expression_system_cell_line: Hybridoma

Molecule: 8b8 Light Chain Fab
Chain: D
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_common: Mouse
Expression_system_taxid: 10090
Expression_system_cell_line: Hybridoma

Molecule: 68 Heavy Chain Fab
Chain: E
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho
Expression_system_organ: Ovary

Molecule: 68 Light Chain Fab
Chain: F
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho
Expression_system_organ: Ovary
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 4.80 Å
Gene
Ontology
ChainFunctionProcessComponent
A
  • positive regulation of cytos...

  • B


    Primary referenceCryo-EM structure of the alphavbeta8 integrin reveals a mechanism for stabilizing integrin extension., Cormier A, Campbell MG, Ito S, Wu S, Lou J, Marks J, Baron JL, Nishimura SL, Cheng Y, Nat Struct Mol Biol. 2018 Aug;25(8):698-704. doi: 10.1038/s41594-018-0093-x. Epub, 2018 Jul 30. PMID:30061598
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (170 Kb) [Save to disk]
  • Biological Unit Coordinates (6djp.pdb1.gz) 150 Kb
  • CSU: Contacts of Structural Units for 6DJP
  • Retrieve 6DJP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DJP from S2C, [Save to disk]
  • View 6DJP 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 6DJP
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6djp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6djp_A] [6djp_F] [6djp_D] [6djp_E] [6djp_C] [6djp_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6DJP
  • Community annotation for 6DJP at PDBWiki (http://pdbwiki.org)

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