5ZYA Splicing date May 23, 2018
title Sf3b Spliceosomal Complex Bound To E7107
authors L.I.Finci, N.A.Larsen
compound source
Molecule: Splicing Factor 3b Subunit 5
Chain: B
Synonym: Sf3b5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sf3b5
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Splicing Factor 3b Subunit 1
Chain: C
Synonym: Pre-Mrna-Splicing Factor Sf3b 155 Kda Subunit,Sf3b
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sf3b1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Phd Finger-Like Domain-Containing Protein 5a
Chain: D
Synonym: Phd Finger-Like Domain Protein 5a
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Phf5a
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Splicing Factor 3b Subunit 3
Chain: A
Synonym: Pre-Mrna-Splicing Factor Sf3b 130 Kda Subunit,Sf3b
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sf3b3
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.95 Å
Gene
Ontology
ChainFunctionProcessComponent
A
  • protein binding

  • catalytic step 2 spliceosome...
  • B


    C
  • splicing factor binding

  • catalytic step 2 spliceosome...
  • D


    Primary referenceThe cryo-EM structure of the SF3b spliceosome complex bound to a splicing modulator reveals a pre-mRNA substrate competitive mechanism of action., Finci LI, Zhang X, Huang X, Zhou Q, Tsai J, Teng T, Agrawal A, Chan B, Irwin S, Karr C, Cook A, Zhu P, Reynolds D, Smith PG, Fekkes P, Buonamici S, Larsen NA, Genes Dev. 2018 Feb 1;32(3-4):309-320. doi: 10.1101/gad.311043.117. PMID:29491137
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (316 Kb) [Save to disk]
  • Biological Unit Coordinates (5zya.pdb1.gz) 308 Kb
  • CSU: Contacts of Structural Units for 5ZYA
  • Retrieve 5ZYA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5ZYA from S2C, [Save to disk]
  • View 5ZYA 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 5ZYA
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5zya from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5zya_C] [5zya_B] [5zya_D] [5zya_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5ZYA
  • Community annotation for 5ZYA at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science