3VYX Hydrolase Rna date Oct 05, 2012
title Structural Insights Into Risc Assembly Facilitated By Dsrna Domains Of Human Rna Helicase (Dhx9)
authors Y.A.Yuan, Q.Fu
compound source
Molecule: Atp-Dependent Rna Helicase A
Chain: A
Fragment: Unp Residues 152-264
Synonym: Rha, Deah Box Protein 9, Leukophysin, Lkp, Nuclear Helicase II, Ndh II;
Ec: 3.6.4.13
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dhx9, Ddx9, Lkp, Ndh2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid

Molecule: Rna (5'-R(Pgpcpgpcpgpcpgpcpgpc)-3')
Chain: B, C
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Is Synthesized In Vitro.
symmetry Space Group: P 43 21 2
R_factor 0.193 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.198 63.198 107.617 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.29 Å
ligand
enzyme Hydrolase E.C.3.6.4.13 BRENDA
Primary referenceStructural insights into RISC assembly facilitated by dsRNA-binding domains of human RNA helicase A (DHX9)., Fu Q, Yuan YA, Nucleic Acids Res. 2013 Jan 29. PMID:23361462
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (3vyx.pdb1.gz) 52 Kb
  • CSU: Contacts of Structural Units for 3VYX
  • Structure Factors (144 Kb)
  • Retrieve 3VYX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VYX from S2C, [Save to disk]
  • Re-refined 3vyx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VYX 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 3VYX
  • 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 3VYX, from MSDmotif at EBI
  • Fold representative 3vyx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vyx_C] [3vyx_B] [3vyx] [3vyx_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3VYX: [DSRM ] by SMART
  • Other resources with information on 3VYX
  • Community annotation for 3VYX at PDBWiki (http://pdbwiki.org)

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