3P49 Rna Binding Protein Rna date Oct 06, 2010
title Crystal Structure Of A Glycine Riboswitch From Fusobacterium
authors E.B.Butler, J.Wang, Y.Xiong, S.Strobel
compound source
Molecule: Glycine Riboswitch
Chain: A
Engineered: Yes
Synthetic: Yes
Other_details: In Vitro Synthesis From A Plasmid Dna With T Polymerase;

Molecule: U1 Small Nuclear Ribonucleoprotein A
Chain: B
Fragment: Rna Binding Domain (Unp Residues 1-98)
Synonym: U1 Snrnp A, U1-A, U1a
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snrpa
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11
symmetry Space Group: P 21 21 21
R_factor 0.282 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.580 104.617 156.509 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.55 Å
ligand GLY, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceStructural basis of cooperative ligand binding by the glycine riboswitch., Butler EB, Xiong Y, Wang J, Strobel SA, Chem Biol. 2011 Mar 25;18(3):293-8. PMID:21439473
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (197 Kb) [Save to disk]
  • Biological Unit Coordinates (3p49.pdb1.gz) 191 Kb
  • Biological Unit Coordinates (3p49.pdb2.gz) 159 Kb
  • Biological Unit Coordinates (3p49.pdb3.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 3P49
  • CSU: Contacts of Structural Units for 3P49
  • Structure Factors (225 Kb)
  • Retrieve 3P49 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3P49 from S2C, [Save to disk]
  • Re-refined 3p49 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3P49 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 3P49
  • 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 3P49, from MSDmotif at EBI
  • Fold representative 3p49 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3p49_A] [3p49] [3p49_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3P49 with the sequences similar proteins can be viewed for 3P49's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3P49
  • Community annotation for 3P49 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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