4TYW Rna Binding Protein Rna date Jul 09, 2014
title Dead-Box Helicase Mss116 Bound To Ssrna And Adp-Bef
authors A.L.Mallam, D.J.Sidote, A.M.Lambowitz
compound source
Molecule: Atp-Dependent Rna Helicase Mss116, Mitochondrial
Chain: A
Fragment: Unp Residues 88-595
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Mss116, Ydr194c, Yd9346.05c
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pmal-C2t

Molecule: Rna (5'-R(Papapapapapapa)-3')
Chain: B
Engineered: Yes

Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_taxid: 4932
symmetry Space Group: P 21 21 2
R_factor 0.216 R_Free 0.254
length a length b length c angle alpha angle beta angle gamma
89.829 126.260 55.545 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand ADP, BEF, MG enzyme Hydrolase E.C. BRENDA

Primary referenceMolecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase., Mallam AL, Sidote DJ, Lambowitz AM, Elife. 2014 Dec 12;3. doi: 10.7554/eLife.04630. PMID:25497230
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk]
  • Biological Unit Coordinates (4tyw.pdb1.gz) 163 Kb
  • LPC: Ligand-Protein Contacts for 4TYW
  • CSU: Contacts of Structural Units for 4TYW
  • Structure Factors (457 Kb)
  • Retrieve 4TYW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4TYW from S2C, [Save to disk]
  • Re-refined 4tyw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4TYW 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 4TYW
  • 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 4TYW, from MSDmotif at EBI
  • Fold representative 4tyw from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4tyw_A] [4tyw] [4tyw_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4TYW: [DEXDc] [HELICc ] by SMART
  • Other resources with information on 4TYW
  • Community annotation for 4TYW at PDBWiki (http://pdbwiki.org)

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