5EV4 Rna Binding Protein Rna date Nov 19, 2015
title Structure Iv Of Intact U2af65 Recognizing The 3' Splice Site
authors A.A.Agrawal, J.L.Jenkins, C.L.Kielkopf
compound source
Molecule: Splicing Factor U2af 65 Kda Subunit
Chain: A
Fragment: Unp Residues 141-341
Synonym: U2 Auxiliary Factor 65 Kda Subunit,Hu2af65,U2 Snrn Auxiliary Factor Large Subunit;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: U2af2, U2af65
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p

Molecule: Dnarna (5'-R(Pupupup(Ud)Pupu)-D(P(Bru)P( R(Pc)-3');
Chain: B
Engineered: Yes
Other_details: 5' Phosphorylation
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.154 R_Free 0.176
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.502 63.411 77.662 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.57 Å
ligand BRU, GOL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAn extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal., Agrawal AA, Salsi E, Chatrikhi R, Henderson S, Jenkins JL, Green MR, Ermolenko DN, Kielkopf CL, Nat Commun. 2016 Mar 8;7:10950. doi: 10.1038/ncomms10950. PMID:26952537
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (5ev4.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 5EV4
  • CSU: Contacts of Structural Units for 5EV4
  • Structure Factors (1528 Kb)
  • Retrieve 5EV4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EV4 from S2C, [Save to disk]
  • Re-refined 5ev4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5EV4 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 5EV4
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ev4_A] [5ev4_B] [5ev4]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5EV4: [RRM ] by SMART
    • Other resources with information on 5EV4
  • Community annotation for 5EV4 at PDBWiki (http://pdbwiki.org)

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