5LQW Splicing date Aug 17, 2016
title Yeast Activated Spliceosome
authors R.Rauhut, R.Luehrmann
compound source
Molecule: Pre-Mrna-Splicing Factor 8
Chain: A
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Snu114
Chain: B
Synonym: 114 Kda U5 Small Nuclear Ribonucleoprotein Compone Inhibitory Protein 10;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Helicase Brr2
Chain: C
Synonym: Protein Snu246
Ec: 3.6.4.13
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Slt11
Chain: D
Synonym: Extracellular Mutant Protein 2,Synthetic Lethality Protein 11;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Bud31
Chain: E
Synonym: Bud Site Selection Protein 31,Complexed With Cef1 14;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Cwc2
Chain: F
Synonym: Complexed With Cef1 Protein 2,Prp19-Associated Com Protein 40,Synthetic Lethal With Clf1 Protein 3;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Cwc22
Chain: H
Synonym: Complexed With Cef1 Protein 22
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: U2 Snrnp Component Ist3
Chain: J
Synonym: Increased Sodium Tolerance Protein 3,U2 Snrnp Prot
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Prp46
Chain: K
Synonym: Complexed With Cef1 Protein 1,Prp Nineteen-Associa Complex Protein 50,Prp19-Associated Complex Protein 50,Pre- Processing Protein 46;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Cwc26
Chain: L
Synonym: Bud Site Selection Protein 13,Complexed With Cef1 26,Synthetic Lethal With Clf1 Protein 7;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Processing Protein 45
Chain: M
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna Leakage Protein 1
Chain: N
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Atp-Dependent Rna Helica Protein Prp2;
Chain: O
Synonym: Pre-Mrna-Processing Protein 2
Ec: 3.6.4.13
Engineered: Yes
Mutation: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Prp2, Rna2, Ynr011c, N2048
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Pre-Mrna-Splicing Factor Syf1
Chain: P
Synonym: Prp19-Associated Complex Protein 90,Synthetic Leth Cdc40 Protein 1;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: U2 Snrnp Component Hsh155
Chain: Q
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Clf1
Chain: R
Synonym: Crooked Neck-Like Factor 1,Prp19-Associated Comple 77,Synthetic Lethal With Cdc40 Protein 3;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Cef1
Chain: W
Synonym: Prp Nineteen-Associated Complex Protein 85,Prp19-A Complex Protein 85;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Rse1
Chain: X
Synonym: Rna Splicing And Er To Golgi Transport Factor 1,Sp Associated Protein 130;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Pre-Mrna-Splicing Factor Rds3
Chain: Y
Synonym: Regulator Of Drug Sensitivity 3
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Rds3 Complex Subunit 10
Chain: Z
Synonym: Splicing Factor 3b Subunit
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein-Associated Protei
Chain: b
Synonym: Snrnp-B,Sm Protein B,Smb
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein Sm D3
Chain: d
Synonym: Sm-D3,Snrnp Core Protein D3
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein E
Chain: e
Synonym: Snrnp-E,Sm Protein E,Sme
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein F
Chain: f
Synonym: Snrnp-F,Sm Protein F,Smf
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein G
Chain: g
Synonym: Snrnp-G,Sm Protein G,Smg
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein Sm D1
Chain: h
Synonym: Sm-D1,Snrnp Core Protein D1
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Small Nuclear Ribonucleoprotein Sm D2
Chain: j
Synonym: Sm-D2,Snrnp Core Protein D2
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: U2 Snrna
Chain: 2
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: U5 Snrna
Chain: 5
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: U6 Snrna
Chain: 6
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Actin Pre-Mrna
Chain: 9
Engineered: Yes
Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
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 5.80 Å
ligand
enzyme Hydrolase E.C.3.6.4.13 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • metallopeptidase activity


    • B


    C


    D


    E


    F

  • U2-type catalytic step 1 spl...
  • U2-type catalytic step 2 spl...
    • H


    J


    K


    L


    M

  • U2-type catalytic step 1 spl...
  • U2-type catalytic step 2 spl...
    • N


    O


    P

  • U2-type catalytic step 1 spl...
  • U2-type catalytic step 2 spl...
    • Q


    R

  • U2-type catalytic step 1 spl...
  • U2-type catalytic step 2 spl...
    • W

  • U2-type catalytic step 1 spl...
    • X


    Y


    Z


    b


    d


    e


    f


    g


    h


    j


    Primary referenceMolecular architecture of the Saccharomyces cerevisiae activated spliceosome., Rauhut R, Fabrizio P, Dybkov O, Hartmuth K, Pena V, Chari A, Kumar V, Lee CT, Urlaub H, Kastner B, Stark H, Luhrmann R, Science. 2016 Aug 25. pii: aag1906. PMID:27562955
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (404 Kb) [Save to disk]
  • Biological Unit Coordinates (5lqw.pdb1.gz) 372 Kb
  • CSU: Contacts of Structural Units for 5LQW
  • Retrieve 5LQW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LQW from S2C, [Save to disk]
    • View 5LQW 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 5LQW
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5lqw_D] [5lqw_N] [5lqw_h] [5lqw_f] [5lqw_2] [5lqw_B] [5lqw_d] [5lqw_H] [5lqw_P] [5lqw_Y] [5lqw_E] [5lqw_R] [5lqw_Q] [5lqw_Z] [5lqw] [5lqw_M] [5lqw_g] [5lqw_W] [5lqw_X] [5lqw_5] [5lqw_J] [5lqw_L] [5lqw_K] [5lqw_6] [5lqw_O] [5lqw_9] [5lqw_F] [5lqw_A] [5lqw_j] [5lqw_e] [5lqw_b] [5lqw_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5LQW: [AAA] [DEXDc] [EFG_C] [EFG_IV] [FHA] [HA2] [HAT] [HELICc] [JAB_MPN] [MA3] [MIF4G] [RRM] [SANT] [Sec63] [Sm] [WD40 ] by SMART
    • Other resources with information on 5LQW
  • Community annotation for 5LQW at PDBWiki (http://pdbwiki.org)

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