2OJ3 Structural Protein Rna date Jan 12, 2007
title Hepatitis Delta Virus Ribozyme Precursor Structure, With C75u Mutation, Bound To Tl+ And Cobalt Hexammine (Co(Nh3) 63+)
authors A.Ke, F.Ding, J.D.Batchelor, J.A.Doudna
compound source
Molecule: Hdv Ribozyme
Chain: B
Engineered: Yes
Synthetic: Yes
Other_details: Rna Was Prepared By In Vitro Transcription By T7 Rna Polymerase;

Molecule: U1 Small Nuclear Ribonucleoprotein A
Chain: A
Synonym: U1 Snrnp Protein A, U1a Protein, U1-A
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snrpa
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: H 3 2
R_factor 0.228 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.607 108.607 188.211 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand NCO, TL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural roles of monovalent cations in the HDV ribozyme., Ke A, Ding F, Batchelor JD, Doudna JA, Structure. 2007 Mar;15(3):281-7. PMID:17355864
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (2oj3.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 2OJ3
  • CSU: Contacts of Structural Units for 2OJ3
  • Likely Quarternary Molecular Structure file(s) for 2OJ3
  • Structure Factors (107 Kb)
  • Retrieve 2OJ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OJ3 from S2C, [Save to disk]
  • Re-refined 2oj3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2OJ3 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 2OJ3
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2OJ3, from MSDmotif at EBI
  • Fold representative 2oj3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2oj3]
  • SWISS-PROT database: [P09012]
  • Domain organization of [SNRPA_HUMAN] by SWISSPFAM
  • Domain found in 2OJ3: [RRM ] by SMART
  • Other resources with information on 2OJ3
  • Community annotation for 2OJ3 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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