2BGG Rna-Binding Protein Rna date Dec 22, 2004
title The Structure Of A Piwi Protein From Archaeoglobus Fulgidus With A 16nt Sirna Duplex.
authors J.S.Parker, S.M.Roe, D.Barford
compound source
Molecule: Protein Af1318
Chain: A, B
Synonym: Piwi
Engineered: Yes
Organism_scientific: Archaeoglobus Fulgidus
Organism_taxid: 2234
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet-17b

Molecule: 5'-R(Upupcpgpapcpgpcp)-3'
Chain: P, R
Engineered: Yes

Synthetic: Yes

Molecule: 5'-R(Gpupcpgpapapupup)-3'
Chain: Q, S
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 1
R_factor 0.180 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.916 61.206 104.059 76.54 76.14 79.35
method X-Ray Diffractionresolution 2.20 Å
ligand MN enzyme
related structures by homologous chain: 1W9H, 1YTU
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural insights into mRNA recognition from a PIWI domain-siRNA guide complex., Parker JS, Roe SM, Barford D, Nature. 2005 Mar 31;434(7033):663-6. PMID:15800628
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk]
  • Biological Unit Coordinates (2bgg.pdb1.gz) 79 Kb
  • Biological Unit Coordinates (2bgg.pdb2.gz) 74 Kb
  • LPC: Ligand-Protein Contacts for 2BGG
  • CSU: Contacts of Structural Units for 2BGG
  • Likely Quarternary Molecular Structure file(s) for 2BGG
  • Structure Factors (841 Kb)
  • Retrieve 2BGG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BGG from S2C, [Save to disk]
  • Re-refined 2bgg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2BGG 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 2BGG
  • 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 2BGG, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2bgg_Q] [2bgg_P] [2bgg_A] [2bgg_S] [2bgg_B] [2bgg] [2bgg_R]
  • SWISS-PROT database: [O28951]
  • Domain organization of [PIWI_ARCFU] by SWISSPFAM
  • Domain found in 2BGG: [Piwi ] by SMART
  • Other resources with information on 2BGG
  • Community annotation for 2BGG 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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