1CA9 Tnf Signaling date Feb 25, 1999
title Structure Of Tnf Receptor Associated Factor 2 In Complex With A Peptide From Tnf-R2
authors Y.C.Park, V.Burkitt, A.R.Villa, L.Tong, H.Wu
compound source
Molecule: Protein (Tnf Receptor Associated Factor 2)
Chain: A, B, C, D, E, F
Fragment: Traf Domain
Synonym: Traf2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24d

Molecule: Protein (Tnf-R2)
Chain: G, H
Fragment: Traf-Binding Site
Engineered: Yes

Synthetic: Yes
Other_details: Sequence From Human Tnf-R2, Swiss Prot Accession P20333
symmetry Space Group: P 1 21 1
R_factor 0.234 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
83.000 84.400 100.700 90.00 108.70 90.00
method X-Ray Diffractionresolution 2.30 Å
related structures by homologous chain: 1CA4, 1QSC
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceStructural basis for self-association and receptor recognition of human TRAF2., Park YC, Burkitt V, Villa AR, Tong L, Wu H, Nature 1999 Apr 8;398(6727):533-8. PMID:10206649
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (196 Kb) [Save to disk]
  • Biological Unit Coordinates (1ca9.pdb1.gz) 99 Kb
  • Biological Unit Coordinates (1ca9.pdb2.gz) 94 Kb
  • Biological Unit Coordinates (1ca9.pdb3.gz) 191 Kb
  • CSU: Contacts of Structural Units for 1CA9
  • Likely Quarternary Molecular Structure file(s) for 1CA9
  • Retrieve 1CA9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1CA9 from S2C, [Save to disk]
  • View 1CA9 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 1CA9
  • 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 1CA9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ca9a2, region A:311-349 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9a1, region A:350-501 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9b2, region B:311-349 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9b1, region B:350-501 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9c2, region C:311-349 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9c1, region C:350-501 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9d2, region D:316-349 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9d1, region D:350-501 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9e2, region E:316-349 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9e1, region E:350-501 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9f2, region F:316-349 [Jmol] [rasmolscript] [script source]
        - Domain d1ca9f1, region F:350-501 [Jmol] [rasmolscript] [script source]
  • Fold representative 1ca9 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: [1ca9_B] [1ca9_A] [1ca9_F] [1ca9] [1ca9_D] [1ca9_H] [1ca9_C] [1ca9_E] [1ca9_G]
  • SWISS-PROT database: [P20333] [Q12933]
  • Domain organization of [TNR1B_HUMAN] [TRAF2_HUMAN] by SWISSPFAM
  • Domain found in 1CA9: [MATH ] by SMART
  • Alignments of the sequence of 1CA9 with the sequences similar proteins can be viewed for 1CA9's classification [TNR1B_HUMAN] [TRAF2_HUMAN] 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 [TNR1B_HUMAN] [TRAF2_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1CA9
  • Community annotation for 1CA9 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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