3EGZ Rna date Sep 11, 2008
title Crystal Structure Of An In Vitro Evolved Tetracycline Aptame Artificial Riboswitch
authors H.Xiao, T.E.Edwards, A.R.Ferre-D'Amare
compound source
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
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Tetracycline Aptamer And Artificial Riboswitch
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: In Vitro Evolved Aptamer
symmetry Space Group: P 4 21 2
R_factor 0.212 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
120.835 120.835 55.279 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand CTC, MG, MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for specific, high-affinity tetracycline binding by an in vitro evolved aptamer and artificial riboswitch., Xiao H, Edwards TE, Ferre-D'Amare AR, Chem Biol. 2008 Oct 20;15(10):1125-37. PMID:18940672
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (3egz.pdb1.gz) 184 Kb
  • LPC: Ligand-Protein Contacts for 3EGZ
  • CSU: Contacts of Structural Units for 3EGZ
  • Likely Quarternary Molecular Structure file(s) for 3EGZ
  • Structure Factors (317 Kb)
  • Retrieve 3EGZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EGZ from S2C, [Save to disk]
  • Re-refined 3egz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EGZ 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 3EGZ
  • 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 3EGZ, from MSDmotif at EBI
  • Fold representative 3egz from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3egz_A] [3egz_B] [3egz]
  • SWISS-PROT database: [P09012]
  • Domain organization of [SNRPA_HUMAN] by SWISSPFAM
  • Domain found in 3EGZ: [RRM ] by SMART
  • Other resources with information on 3EGZ
  • Community annotation for 3EGZ 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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