1I8F Structural Genomics date Mar 14, 2001
title The Crystal Structure Of A Heptameric Archaeal Sm Protein: Implications For The Eukaryotic Snrnp Core
authors C.Mura, D.Cascio, M.R.Sawaya, D.Eisenberg
compound source
Molecule: Putative Snrnp Sm-Like Protein
Chain: A, B, C, D, E, F, G
Engineered: Yes
 Organism_scientific: Pyrobaculum Aerophilum
Organism_taxid: 13773
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
symmetry Space Group: C 1 2 1
R_factor 0.235 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.261 95.738 62.157 90.00 92.69 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand GOL enzyme
related structures by homologous chain: 1LNX
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, G, E, B


Primary referenceThe crystal structure of a heptameric archaeal Sm protein: Implications for the eukaryotic snRNP core., Mura C, Cascio D, Sawaya MR, Eisenberg DS, Proc Natl Acad Sci U S A 2001 May 8;98(10):5532-7. PMID:11331747
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (1i8f.pdb1.gz) 79 Kb
  • LPC: Ligand-Protein Contacts for 1I8F
  • CSU: Contacts of Structural Units for 1I8F
  • Likely Quarternary Molecular Structure file(s) for 1I8F
  • Structure Factors (857 Kb)
  • Retrieve 1I8F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I8F from S2C, [Save to disk]
  • Re-refined 1i8f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1I8F 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 1I8F
  • 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 1I8F, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i8fa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1i8fb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1i8fc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1i8fd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1i8fe_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1i8ff_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1i8fg_, 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: [1i8f_E] [1i8f_F] [1i8f_A] [1i8f_B] [1i8f_C] [1i8f] [1i8f_G] [1i8f_D]
  • SWISS-PROT database: [Q8ZYG5]
  • Domain organization of [Q8ZYG5_PYRAE] by SWISSPFAM
  • Domain found in 1I8F: [Sm ] by SMART
    • Other resources with information on 1I8F
  • Community annotation for 1I8F at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • 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, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science