5AOX Translation date Sep 12, 2015
title Human Alu Rna Retrotransposition Complex In The Ribosome-Sta Conformation
authors V.Ahl, O.Weichenrieder
compound source
Molecule: Signal Recognition Particle 9 Kda Protein
Chain: A, D
Fragment: Unp Residues 2-86
Synonym: Srp9
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta II
Expression_system_plasmid: Pet3a

Molecule: Signal Recognition Particle 14 Kda Protein
Chain: B, E
Fragment: Unp Residues 2-95
Synonym: Srp14,18 Kda Alu Rna-Binding Protein, Srp14
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta II
Expression_system_plasmid: Petm41

Molecule: Alu Jo Consensus Rna
Chain: C, F
Fragment: Alu Jo Left Truncated Monomer
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: C 1 2 1
R_factor 0.186 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.480 56.730 170.590 90.00 93.69 90.00
method X-Ray Diffractionresolution 2.04 Å
ligand ACT, GDP, MG, PEG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D


E, B


Primary referenceRetrotransposition and Crystal Structure of an Alu RNP in the Ribosome-Stalling Conformation., Ahl V, Keller H, Schmidt S, Weichenrieder O, Mol Cell. 2015 Nov 11. pii: S1097-2765(15)00770-4. doi:, 10.1016/j.molcel.2015.10.003. PMID:26585389
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (368 Kb) [Save to disk]
  • Biological Unit Coordinates (5aox.pdb1.gz) 181 Kb
  • Biological Unit Coordinates (5aox.pdb2.gz) 178 Kb
  • LPC: Ligand-Protein Contacts for 5AOX
  • CSU: Contacts of Structural Units for 5AOX
  • Structure Factors (450 Kb)
  • Retrieve 5AOX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AOX from S2C, [Save to disk]
  • Re-refined 5aox structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5AOX 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 5AOX
  • 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
  • Fold representative 5aox from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5aox_F] [5aox] [5aox_B] [5aox_A] [5aox_D] [5aox_E] [5aox_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5AOX
  • Community annotation for 5AOX at PDBWiki (http://pdbwiki.org)

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