1N9R Translation date Nov 26, 2002
title Crystal Structure Of A Heptameric Ring Complex Of Yeast Smf Spacegroup P4122
authors B.M.Collins, L.Cubeddu, N.Naidoo, S.J.Harrop, G.D.Kornfeld, I.W.D P.M.G.Curmi, B.C.Mabbutt
compound source
Molecule: Small Nuclear Ribonucleoprotein F
Chain: A, B, C, D, E, F, G
Synonym: Smf; Sm-Like Snrnp Protein; Snrnp-F; Sm Protein F
Engineered: Yes
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 2 2
R_factor 0.254 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.891 79.891 251.188 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, G, E, B


Primary referenceHomomeric ring assemblies of eukaryotic Sm proteins have affinity for both RNA and DNA. Crystal structure of an oligomeric complex of yeast SmF., Collins BM, Cubeddu L, Naidoo N, Harrop SJ, Kornfeld GD, Dawes IW, Curmi PM, Mabbutt BC, J Biol Chem 2003 May 9;278(19):17291-8. PMID:12618433
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (1n9r.pdb1.gz) 76 Kb
  • Biological Unit Coordinates (1n9r.pdb2.gz) 151 Kb
  • CSU: Contacts of Structural Units for 1N9R
  • Likely Quarternary Molecular Structure file(s) for 1N9R
  • Structure Factors (153 Kb)
  • Retrieve 1N9R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1N9R from S2C, [Save to disk]
  • Re-refined 1n9r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1N9R 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 1N9R
  • 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
  • 3D motif for 1N9R, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1n9ra_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1n9rb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1n9rc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1n9rd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1n9re_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1n9rf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1n9rg_, region G [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1n9r_E] [1n9r_B] [1n9r_D] [1n9r] [1n9r_G] [1n9r_C] [1n9r_F] [1n9r_A]
  • SWISS-PROT database: [P54999]
  • Domain organization of [RUXF_YEAST] by SWISSPFAM
  • Domain found in 1N9R: [Sm ] by SMART
    • Other resources with information on 1N9R
  • Community annotation for 1N9R at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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