4GLR Immune System date Aug 14, 2012
title Structure Of The Anti-Ptau Fab (Pt231ps235_1) In Complex Wi Phosphoepitope Pt231ps235
authors C.Tu, L.Mosyak, J.Bard
compound source
Molecule: Phospho-Peptide
Chain: A, B
Fragment: Phospho-Peptide
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: This Sequence Occurs Naturally In Humans, Ex C-Terminus Cysteine;

Molecule: Anti-Ptau Heavy Chain
Chain: H, J
Fragment: Heavy Chain
Engineered: Yes

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029

Molecule: Anti-Ptau Light Chain
Chain: I, K
Fragment: Light Chain
Engineered: Yes

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
symmetry Space Group: P 21 21 2
R_factor 0.179 R_Free 0.208
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.500 216.500 70.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand PO4, TPO enzyme
Primary referenceAn Ultra-specific Avian Antibody to Phosphorylated Tau Protein Reveals a Unique Mechanism for Phosphoepitope Recognition., Shih HH, Tu C, Cao W, Klein A, Ramsey R, Fennell BJ, Lambert M, Ni Shuilleabhain D, Autin B, Kouranova E, Laxmanan S, Braithwaite S, Wu L, Ait-Zahra M, Milici AJ, Dumin JA, Lavallie ER, Arai M, Corcoran C, Paulsen JE, Gill D, Cunningham O, Bard J, Mosyak L, Finlay WJ, J Biol Chem. 2012 Dec 28;287(53):44425-34. doi: 10.1074/jbc.M112.415935. Epub, 2012 Nov 12. PMID:23148212
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (293 Kb) [Save to disk]
  • Biological Unit Coordinates (4glr.pdb1.gz) 147 Kb
  • Biological Unit Coordinates (4glr.pdb2.gz) 145 Kb
  • LPC: Ligand-Protein Contacts for 4GLR
  • CSU: Contacts of Structural Units for 4GLR
  • Structure Factors (1514 Kb)
  • Retrieve 4GLR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4GLR from S2C, [Save to disk]
  • Re-refined 4glr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4GLR 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 4GLR
  • 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 4GLR, from MSDmotif at EBI
  • Fold representative 4glr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4glr_I] [4glr] [4glr_A] [4glr_K] [4glr_B] [4glr_H] [4glr_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 4GLR with the sequences similar proteins can be viewed for 4GLR's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 4GLR
  • Community annotation for 4GLR at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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