1ZMS Signaling Protein date May 10, 2005
title Lmp1 Protein Binds To Traf3 As A Structural Cd40
authors S.D.Wu, P.Xie, K.Welsh, C.Li, C.Z.Ni, X.Zhu, J.C.Reed, A.C.Satterthwait, G.A.Bishop, K.R.Ely
compound source
Molecule: Tnf Receptor Associated Factor 3
Chain: A
Fragment: Sequence Database Residues 377-568
Synonym: Cd40 Receptor Associated Factor 1, Craf1, Cd40 Binding Protein, Cd40bp, Lmp1 Associated Protein, Lap1, Cap-1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Traf3, Cap1, Craf1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet21b

Molecule: Latent Membrane Protein 1
Chain: B
Fragment: Residues 203-210
Synonym: Lmp-1, Protein P63
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In The Latent Membrane Protein I Of Epstein Barr Virus
symmetry Space Group: P 3 2 1
R_factor 0.206 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
83.670 83.670 77.960 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceLMP1 protein from the Epstein Barr virus is a structural CD40 decoy in B lymphocytes fro binding to TRAF3., Wu S, Xie P, Welsh K, Li C, Ni CZ, Zhu X, Reed JC, Satterthwait AC, Bishop GA, Ely KR, J Biol Chem 2005 Jul 11;. PMID:16009714
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk]
  • Biological Unit Coordinates (1zms.pdb1.gz) 33 Kb
  • Biological Unit Coordinates (1zms.pdb2.gz) 96 Kb
  • CSU: Contacts of Structural Units for 1ZMS
  • Likely Quarternary Molecular Structure file(s) for 1ZMS
  • Structure Factors (103 Kb)
  • Retrieve 1ZMS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZMS from S2C, [Save to disk]
  • Re-refined 1zms structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ZMS 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 1ZMS
  • 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 1ZMS, from MSDmotif at EBI
  • Fold representative 1zms from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zms_A] [1zms_B] [1zms]
  • SWISS-PROT database: [P13198] [Q13114]
  • Domain organization of [LMP1_EBVR] [TRAF3_HUMAN] by SWISSPFAM
  • Domain found in 1ZMS: [MATH ] by SMART
  • Other resources with information on 1ZMS
  • Community annotation for 1ZMS 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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