2BH2 Transferase date Jan 06, 2005
title Crystal Structure Of E. Coli 5-Methyluridine Methyltransfera Complex With Ribosomal Rna Substrate And S-Adenosylhomocyst
authors T.T.Lee, S.Agarwalla, R.M.Stroud
compound source
Molecule: 23s Rrna (Uracil-5-)-Methyltransferase Ruma
Chain: A, B
Synonym: 23s Rrna(M-5-U1939)-Methyltransferase, 23s Rrna Ur Methyltransferase Ruma;
Ec: 2.1.1.-
Engineered: Yes
Other_details: Iron-Sulfur Cluster Linked By Cys81, Cys87, Cys162;
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: K12
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet15b

Molecule: 23s Ribosomal Rna 1932-1968
Chain: C, D
Engineered: Yes
Other_details: 5-Fluoro-U1939 Is Methylated And Its 6-C Is Linked To Cys389 Of Ruma

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.174 R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
190.061 63.542 112.019 90.00 125.15 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand FMU, SAH, SF4 enzyme Transferase E.C.2.1.1 BRENDA
related structures by homologous chain: 1UWV
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA unique RNA Fold in the RumA-RNA-cofactor ternary complex contributes to substrate selectivity and enzymatic function., Lee TT, Agarwalla S, Stroud RM, Cell. 2005 Mar 11;120(5):599-611. PMID:15766524
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk]
  • Biological Unit Coordinates (2bh2.pdb1.gz) 83 Kb
  • Biological Unit Coordinates (2bh2.pdb2.gz) 83 Kb
  • LPC: Ligand-Protein Contacts for 2BH2
  • CSU: Contacts of Structural Units for 2BH2
  • Likely Quarternary Molecular Structure file(s) for 2BH2
  • Retrieve 2BH2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BH2 from S2C, [Save to disk]
  • View 2BH2 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 2BH2
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2BH2, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2bh2_A] [2bh2_C] [2bh2_B] [2bh2_D] [2bh2]
  • SWISS-PROT database: [P55135]
  • Domain organization of [RUMA_ECOLI] by SWISSPFAM
  • Other resources with information on 2BH2
  • Community annotation for 2BH2 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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