5LSO Splicing Inhibitor date Sep 05, 2016
title Crystal Structure Of Spf45 Uhm Domain With Cyclic Peptide In
authors P.K.A.Jagtap, D.Garg, M.Sattler
compound source
Molecule: Splicing Factor 45
Chain: A, B
Fragment: Uhm Domain, Unp Residues 301-400
Synonym: 45 Kda-Splicing Factor,Rna-Binding Motif Protein 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rbm17, Spf45
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Lys-Ser-Arg-Trp-Asp-Glu
Chain: C, D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.181 R_Free 0.244
length a length b length c angle alpha angle beta angle gamma
37.600 73.590 45.010 90.00 97.90 90.00
method X-Ray Diffractionresolution 2.22 Å
A, B

Primary referenceRational design of cyclic peptide inhibitors of U2AF homology motif (UHM) domains to modulate pre-mRNA splicing., Jagtap PK, Garg D, Kapp TG, Will CL, Demmer O, Luhrmann R, Kessler H, Sattler M, J Med Chem. 2016 Oct 18. PMID:27753493
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (5lso.pdb1.gz) 20 Kb
  • Biological Unit Coordinates (5lso.pdb2.gz) 20 Kb
  • CSU: Contacts of Structural Units for 5LSO
  • Structure Factors (102 Kb)
  • Retrieve 5LSO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LSO from S2C, [Save to disk]
  • Re-refined 5lso structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5LSO 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 5LSO
  • 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 5lso from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5lso_C] [5lso] [5lso_D] [5lso_A] [5lso_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5LSO
  • Community annotation for 5LSO at PDBWiki (http://pdbwiki.org)

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