4OQT Membrane Protein Immune System date Feb 10, 2014
title Lingo-1li81 Fab Complex
authors R.B.Pepinsky, J.W.Arndt, C.Quan, Y.Gao, O.Quintero-Monzon, X.Lee,
compound source
Molecule: Leucine-Rich Repeat And Immunoglobulin-Like Domai Containing Nogo Receptor-Interacting Protein 1;
Chain: A
Fragment: Unp Residues 40-517
Synonym: Leucine-Rich Repeat And Immunoglobulin Domain-Cont Protein 1, Leucine-Rich Repeat Neuronal Protein 1, Leucine- Repeat Neuronal Protein 6a;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lingo1, Lern1, Lrrn6a, Unq201pro227
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029

Molecule: Light Chain Of Li81 Fab, Kappa 3
Chain: L
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029

Molecule: Heavy Chain Of Li81 Fab, Vh3-23
Chain: H
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
symmetry Space Group: P 65 2 2
R_factor 0.192 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
207.470 207.470 140.865 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.23 Å
ligand BMA, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
L


Primary referenceStructure of the LINGO-1-anti-LINGO-1 Li81 antibody complex provides insights into the biology of LINGO-1 and the mechanism of action of the antibody therapy., Pepinsky RB, Arndt JW, Quan C, Gao Y, Quintero-Monzon O, Lee X, Mi S, J Pharmacol Exp Ther. 2014 Apr 22. PMID:24756303
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (308 Kb) [Save to disk]
  • Biological Unit Coordinates (4oqt.pdb1.gz) 595 Kb
  • Biological Unit Coordinates (4oqt.pdb2.gz) 300 Kb
  • LPC: Ligand-Protein Contacts for 4OQT
  • CSU: Contacts of Structural Units for 4OQT
  • Structure Factors (556 Kb)
  • Retrieve 4OQT in mmCIF format [Save to disk]
  • Re-refined 4oqt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4OQT 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 4OQT
  • 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 4OQT, from MSDmotif at EBI
  • Fold representative 4oqt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4oqt] [4oqt_H] [4oqt_A] [4oqt_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4OQT: [IG_like] [IGc2] [IGv] [LRR] [LRRCT] [LRRNT] [LRR_TYP ] by SMART
  • Other resources with information on 4OQT
  • Community annotation for 4OQT at PDBWiki (http://pdbwiki.org)

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