1ZA3 Immune System Signaling Protein date Apr 05, 2005
title The Crystal Structure Of The Ysd1 Fab Bound To Dr5
authors F.A.Fellouse, B.Li, D.M.Compaan, A.A.Peden, S.G.Hymowitz, S.S.Sid
compound source
Molecule: Fab-Ysd1 Light Chain
Chain: A, L
Fragment: Fab Light Chain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Fab-Ysd1 Heavy Chain
Chain: B, H
Fragment: Fab Heavy Chain
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Tumor Necrosis Factor Receptor Superfamily Member
Chain: R, S
Fragment: Extra-Cellular Domain
Synonym: Death Receptor 5, Tnf-Related Apoptosis-Inducing L Receptor 2, Trail Receptor-2, Trail-R2, Dr5;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dr5
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_strain: Hi5
Expression_system_vector_type: Virus
Expression_system_plasmid: Pacgp67-B
symmetry Space Group: P 32 2 1
R_factor 0.224 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
147.059 147.059 144.947 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.35 Å
Gene
Ontology
ChainFunctionProcessComponent
S, R


Primary referenceMolecular recognition by a binary code., Fellouse FA, Li B, Compaan DM, Peden AA, Hymowitz SG, Sidhu SS, J Mol Biol 2005 May 20;348(5):1153-62. Epub 2005 Apr 1. PMID:15854651
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (174 Kb) [Save to disk]
  • Biological Unit Coordinates (1za3.pdb1.gz) 85 Kb
  • Biological Unit Coordinates (1za3.pdb2.gz) 83 Kb
  • CSU: Contacts of Structural Units for 1ZA3
  • Likely Quarternary Molecular Structure file(s) for 1ZA3
  • Structure Factors (373 Kb)
  • Retrieve 1ZA3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZA3 from S2C, [Save to disk]
  • Re-refined 1za3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ZA3 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 1ZA3
  • 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 1ZA3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c1za3, region A:121-183 [Jmol] [rasmolscript] [script source]
        - Domain d1l1za3, region A:233-274 [Jmol] [rasmolscript] [script source]
  • Fold representative 1za3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1za3_H] [1za3_L] [1za3_A] [1za3_R] [1za3] [1za3_S] [1za3_B]
  • SWISS-PROT database: [O14763]
  • Domain organization of [TR10B_HUMAN] by SWISSPFAM
  • Domains found in 1ZA3: [IGc1] [IGv] [TNFR ] by SMART
  • Other resources with information on 1ZA3
  • Community annotation for 1ZA3 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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