1YEE Catalytic Antibody date Apr 15, 1997
title Structure Of A Catalytic Antibody, Igg2a Fab Fragment (D2.5)
authors B.Golinelli-Pimpaneau, M.Knossow
compound source
Molecule: Igg2a Fab Fragment (D2.5)
Chain: L
Other_details: Transition State Analogue
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: Igg2a Fab Fragment (D2.5)
Chain: H
Other_details: Transition State Analogue

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
symmetry Space Group: P 1 21 1
R_factor 0.204 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.930 76.980 45.800 90.00 94.68 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand PNB enzyme
related structures by homologous chain: 1CT8, 1OAK, 43C9
Primary referenceStructural convergence in the active sites of a family of catalytic antibodies., Charbonnier JB, Golinelli-Pimpaneau B, Gigant B, Tawfik DS, Chap R, Schindler DG, Kim SH, Green BS, Eshhar Z, Knossow M, Science 1997 Feb 21;275(5303):1140-2. PMID:9027317
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (1yee.pdb1.gz) 71 Kb
  • LPC: Ligand-Protein Contacts for 1YEE
  • CSU: Contacts of Structural Units for 1YEE
  • Likely Quarternary Molecular Structure file(s) for 1YEE
  • Retrieve 1YEE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YEE from S2C, [Save to disk]
  • View 1YEE 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 1YEE
  • 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
  • 3D motif for 1YEE, from MSDmotif at EBI
  • Genome occurence of 1YEE's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1yeeh1, region H:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1yeeh2, region H:114-223 [Jmol] [rasmolscript] [script source]
        - Domain d1yeel1, region L:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1yeel2, region L:108-214 [Jmol] [rasmolscript] [script source]
  • Fold representative 1yee from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yee] [1yee_H] [1yee_L]
  • SWISS-PROT database: [P01865]
  • Domain organization of [GCAM_MOUSE] by SWISSPFAM
  • Domains found in 1YEE: [IG_like] [IGv ] by SMART
  • Other resources with information on 1YEE
  • Community annotation for 1YEE at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1YEE from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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