5WWW Rna Binding Protein Rna date Jan 05, 2017
title Crystal Structure Of The Kh1 Domain Of Human Rna-Binding E3 Protein Ligase Mex-3c Complex With Rna
authors L.Yang, C.Wang, F.Li, Q.Gong
compound source
Molecule: Rna-Binding E3 Ubiquitin-Protein Ligase Mex3c
Chain: A
Fragment: Kh1 Domain, Unp Residues 221-306
Synonym: Ring Finger And Kh Domain-Containing Protein 2,Rin Protein 194,Ring-Type E3 Ubiquitin Transferase Mex3c;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mex3c, Rkhd2, Rnf194, Bm-013
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid

Molecule: Rna (5'-R(Gpupupupapg)-3')
Chain: B
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 62
R_factor 0.172 R_Free 0.209
length a length b length c angle alpha angle beta angle gamma
76.366 76.366 36.392 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
enzyme Transferase E.C. BRENDA

Primary referenceThe human RNA-binding protein and E3 ligase MEX-3C binds the MEX-3-recognition element (MRE) motif with high affinity., Yang L, Wang C, Li F, Zhang J, Nayab A, Wu J, Shi Y, Gong Q, J Biol Chem. 2017 Aug 14. pii: jbc.M117.797746. doi: 10.1074/jbc.M117.797746. PMID:28808060
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (24 Kb) [Save to disk]
  • Biological Unit Coordinates (5www.pdb1.gz) 20 Kb
  • CSU: Contacts of Structural Units for 5WWW
  • Structure Factors (237 Kb)
  • Retrieve 5WWW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WWW from S2C, [Save to disk]
  • View 5WWW 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 5WWW
  • 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
  • Fold representative 5www from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5www_B] [5www_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5WWW
  • Community annotation for 5WWW at PDBWiki (http://pdbwiki.org)

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