4LAD Ligase Ligase date Jun 19, 2013
title Crystal Structure Of The Ube2g2:Ring-G2br Complex
authors Y.H.Liang, J.Li, R.Das, R.A.Byrd, X.Ji
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2 G2
Chain: A
Synonym: Ubiquitin Carrier Protein G2, Ubiquitin-Protein Li
Ec: 6.3.2.19
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ube2g2, Ubiquitin-Conjugating Enzyme E2g2 Isoform 1
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21(Star)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex

Molecule: E3 Ubiquitin-Protein Ligase Amfr
Chain: B
Fragment: Ring Region (Unp Residues 313-393) And G2br Regio Residues 574-600);
Synonym: Autocrine Motility Factor Receptor, Amf Receptor, Finger Protein 45, Gp78;
Ec: 6.3.2.-
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Amfr, Autocrine Motility Factor Receptor, Rnf45
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21(Star)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a
symmetry Space Group: P 41 21 2
R_factor 0.226 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.246 58.246 158.431 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand OXL, ZN enzyme Ligase E.C.6.3.2.19 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAllosteric regulation of E2:E3 interactions promote a processive ubiquitination machine., Das R, Liang YH, Mariano J, Li J, Huang T, King A, Tarasov SG, Weissman AM, Ji X, Byrd RA, EMBO J. 2013 Aug 13. doi: 10.1038/emboj.2013.174. PMID:23942235
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (4lad.pdb1.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 4LAD
  • CSU: Contacts of Structural Units for 4LAD
  • Structure Factors (85 Kb)
  • Retrieve 4LAD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4LAD from S2C, [Save to disk]
  • Re-refined 4lad structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4LAD 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 4LAD
  • 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 4LAD, from MSDmotif at EBI
  • Fold representative 4lad from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4lad_A] [4lad] [4lad_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4LAD: [RING] [UBCc ] by SMART
  • Other resources with information on 4LAD
  • Community annotation for 4LAD at PDBWiki (http://pdbwiki.org)

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