4A4B Ligase Transferase date Oct 08, 2011
title Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Comp
authors H.Dou, L.Buetow, A.Hock, G.J.Sibbet, K.H.Vousden, D.T.Huang
compound source
Molecule: E3 Ubiquitin-Protein Ligase Cbl
Chain: A
Fragment: Tkb Domain, Linker Helix Region, And Ring Domain, 47-435;
Synonym: Casitas B-Lineage Lymphoma Proto-Oncogene, Proto-O Cbl, Ring Finger Protein 55, Signal Transduction Protein Cb
Ec: 6.3.2.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Gold
Expression_system_vector_type: Plasmid
Expression_system_vector: Pgex4t1

Molecule: Tyrosine-Protein Kinase Zap-70
Chain: B
Fragment: Zap-70 Peptide, Residues 286-297
Synonym: 70 Kda Zeta-Associated Protein, Syk-Related Tyrosi Zap-70;
Ec: 2.7.10.2
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Ubiquitin-Conjugating Enzyme E2 D2
Chain: C
Synonym: Ubiquitin Carrier Protein D2, Ubiquitin-Conjugatin E2(17)Kb 2, Ubiquitin-Conjugating Enzyme E2-17 Kda 2, Ubiqu Protein Ligase D2, Ubch5b;
Ec: 6.3.2.19
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Gold
Expression_system_vector_type: Plasmid
Expression_system_vector: Prsf1b
symmetry Space Group: P 65 2 2
R_factor 0.187 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.112 74.112 449.706 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.79 Å
ligand CA, PTR, ZN enzyme Ligase E.C.6.3.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


C


Primary referenceStructural basis for autoinhibition and phosphorylation-dependent activation of c-Cbl., Dou H, Buetow L, Hock A, Sibbet GJ, Vousden KH, Huang DT, Nat Struct Mol Biol. 2012 Jan 22;19(2):184-92. doi: 10.1038/nsmb.2231. PMID:22266821
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (189 Kb) [Save to disk]
  • Biological Unit Coordinates (4a4b.pdb1.gz) 181 Kb
  • LPC: Ligand-Protein Contacts for 4A4B
  • CSU: Contacts of Structural Units for 4A4B
  • Structure Factors (983 Kb)
  • Retrieve 4A4B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4A4B from S2C, [Save to disk]
  • Re-refined 4a4b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4A4B 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 4A4B
  • 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
  • 3D motif for 4A4B, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4a4b] [4a4b_A] [4a4b_C] [4a4b_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4A4B: [RING] [UBCc ] by SMART
  • Other resources with information on 4A4B
  • Community annotation for 4A4B at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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