3ID5 Transferase Ribosomal Protein Rna date Jul 20, 2009
title Crystal Structure Of Sulfolobus Solfataricus Cd Rnp Assembl Nop5, Fibrillarin, L7ae And A Split Half Cd Rna
authors K.Ye
compound source
Molecule: Pre Mrna Splicing Protein
Chain: A, E
Fragment: Residues 1-380
Synonym: Nop5
Engineered: Yes
Mutation: Yes
Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Sso0939
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ril+
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: Fibrillarin-Like Rrnatrna 2'-O-Methyltransferase
Chain: B, F
Synonym: Fibrillarin, Fib
Ec: 2.1.1.-
Engineered: Yes
Mutation: Yes

Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Flpa, Sso0940, C33_014
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ril+
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: 50s Ribosomal Protein L7ae
Chain: C, G
Engineered: Yes
Mutation: Yes

Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Rpl7ae, Sso0091, C04_031
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ril+
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: Half Cd Rna
Chain: D, H
Engineered: Yes

Synthetic: Yes
Other_details: Prepared By In Vitro Transcription
symmetry Space Group: P 41 21 2
R_factor 0.285 R_Free 0.304
crystal
cell
length a length b length c angle alpha angle beta angle gamma
265.485 265.485 129.434 90.00 90.00 90.00
method X-Ray Diffractionresolution 4.01 Å
ligand SAM enzyme Transferase E.C.2.1.1 BRENDA
Gene C04 ; C33
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G
  • ribonuclease P activity


  • F, B


    Primary referenceStructural organization of box C/D RNA-guided RNA methyltransferase., Ye K, Jia R, Lin J, Ju M, Peng J, Xu A, Zhang L, Proc Natl Acad Sci U S A. 2009 Aug 5. PMID:19666563
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (259 Kb) [Save to disk]
  • Biological Unit Coordinates (3id5.pdb1.gz) 249 Kb
  • LPC: Ligand-Protein Contacts for 3ID5
  • CSU: Contacts of Structural Units for 3ID5
  • Structure Factors (312 Kb)
  • Retrieve 3ID5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ID5 from S2C, [Save to disk]
  • Re-refined 3id5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ID5 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 3ID5
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3ID5, from MSDmotif at EBI
  • Fold representative 3id5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3id5_A] [3id5_G] [3id5_B] [3id5_H] [3id5_F] [3id5_E] [3id5] [3id5_D] [3id5_C]
  • SWISS-PROT database: [P58032] [Q97ZH3] [P55858]
  • Domain organization of [FLPA_SULSO] [Q97ZH3_SULSO] [RL7A_SULSO] by SWISSPFAM
  • Domains found in 3ID5: [Fibrillarin] [NOSIC ] by SMART
  • Other resources with information on 3ID5
  • Community annotation for 3ID5 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science