1SY6 Signaling Protein Antibiotic date Mar 31, 2004
title Crystal Structure Of Cd3gammaepsilon Heterodimer In Complex Fab Fragment
authors L.Kjer-Nielsen, M.A.Dunstone, L.Kostenko, L.K.Ely, T.Beddoe, N.A. A.W.Purcell, A.G.Brooks, J.Mccluskey, J.Rossjohn
compound source
Molecule: Okt3 Fab Light Chain
Chain: L
Fragment: Fab Fragment Light Chain
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090

Molecule: Okt3 Fab Heavy Chain
Chain: H
Fragment: Fab Fragment Heavy Chain
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090

Molecule: T-Cell Surface Glycoprotein Cd3 Gammaepsilon Cha
Chain: A
Fragment: Cd3 Epsilongamma Ecto Domain
Synonym: T-Cell Surface Antigen T3leu-4 Gammaepsilon Chai
Engineered: Yes
Other_details: This Protein Is Composed Of Gamma And Epsilo With 26 Residues Linker

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cd3g, T3g, Cd3e, T3e
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl20
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30
symmetry Space Group: P 1 21 1
R_factor 0.211 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.702 55.770 96.050 90.00 100.85 90.00
method X-Ray Diffractionresolution 2.10 Å
related structures by homologous chain: 1AJ7, 1CLO, 1NDM, 1XIW, 2RCS
Primary referenceCrystal structure of the human T cell receptor CD3{epsilon}{gamma} heterodimer complexed to the therapeutic mAb OKT3., Kjer-Nielsen L, Dunstone MA, Kostenko L, Ely LK, Beddoe T, Mifsud NA, Purcell AW, Brooks AG, McCluskey J, Rossjohn J, Proc Natl Acad Sci U S A 2004 May 18;101(20):7675-7680. Epub 2004 May 10. PMID:15136729
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (98 Kb) [Save to disk]
  • Biological Unit Coordinates (1sy6.pdb1.gz) 94 Kb
  • CSU: Contacts of Structural Units for 1SY6
  • Likely Quarternary Molecular Structure file(s) for 1SY6
  • Retrieve 1SY6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SY6 from S2C, [Save to disk]
  • View 1SY6 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 1SY6
  • 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 1SY6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sy6a1, region A:1-81 [Jmol] [rasmolscript] [script source]
        - Domain d1sy6a2, region A:118-203 [Jmol] [rasmolscript] [script source]
        - Domain d1sy6h1, region H:1-119 [Jmol] [rasmolscript] [script source]
        - Domain d1sy6h2, region H:120-219 [Jmol] [rasmolscript] [script source]
        - Domain d1sy6l1, region L:1-106 [Jmol] [rasmolscript] [script source]
        - Domain d1sy6l2, region L:107-213 [Jmol] [rasmolscript] [script source]
  • Fold representative 1sy6 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: [1sy6_A] [1sy6_H] [1sy6] [1sy6_L]
  • SWISS-PROT database: [P07766] [P09693] [Q6PJA7]
  • Domain organization of [CD3E_HUMAN] [CD3G_HUMAN] [Q6PJA7_MOUSE] by SWISSPFAM
  • Domains found in 1SY6: [IG_like] [IGc2] [IGv ] by SMART
  • Other resources with information on 1SY6
  • Community annotation for 1SY6 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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