3MUT Rna Binding Protein Rna date May 03, 2010
title Crystal Structure Of The G20ac92u Mutant C-Di-Gmp Riboswith C-Di-Gmp
authors S.A.Strobel, K.D.Smith
compound source
Molecule: U1 Small Nuclear Ribonucleoprotein A
Chain: P
Fragment: 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

Molecule: G20ac92u Mutant C-Di-Gmp Riboswitch
Chain: R
Engineered: Yes

Synthetic: Yes
Other_details: In Vitro Transcribed From Linear Dna
symmetry Space Group: P 1 21 1
R_factor 0.233 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.690 45.430 78.930 90.00 95.12 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand C2E, GTP, MG enzyme
Primary referenceStructural and Biochemical Determinants of Ligand Binding by the c-di-GMP Riboswitch ., Smith KD, Lipchock SV, Livingston AL, Shanahan CA, Strobel SA, Biochemistry. 2010 Aug 31;49(34):7351-9. PMID:20690679
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (123 Kb) [Save to disk]
  • Biological Unit Coordinates (3mut.pdb1.gz) 117 Kb
  • LPC: Ligand-Protein Contacts for 3MUT
  • CSU: Contacts of Structural Units for 3MUT
  • Structure Factors (104 Kb)
  • Retrieve 3MUT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MUT from S2C, [Save to disk]
  • Re-refined 3mut structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MUT 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 3MUT
  • 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 3MUT, from MSDmotif at EBI
  • Fold representative 3mut from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mut_P] [3mut] [3mut_R]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3MUT: [RRM ] by SMART
  • Alignments of the sequence of 3MUT with the sequences similar proteins can be viewed for 3MUT'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 3MUT
  • Community annotation for 3MUT 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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