1JBT Hydrolase Rna date Jun 06, 2001
title Crystal Structure Of Ribotoxin Restrictocin Complexed With A 29-Mer Sarcinricin Domain Rna Analog
authors X.Yang, T.Gerczei, L.Glover, C.C.Correll
compound source
Molecule: 29-Mer Sarcinricin Domain Rna Analog
Chain: C, D
Engineered: Yes
Synthetic: Yes
Other_details: The Rna Sequence Contains 14 Highly Conserved Nucleotides Among All Living Species.;

Molecule: Restrictocin
Chain: A, B
Synonym: Ribonuclease Mitogillin
Ec: 3.1.27.-

Organism_scientific: Aspergillus Restrictus
Organism_taxid: 5064
symmetry Space Group: P 1 21 1
R_factor 0.224 R_Free 0.282
length a length b length c angle alpha angle beta angle gamma
62.001 102.822 41.617 90.00 93.88 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand K enzyme Hydrolase E.C.3.1.27 BRENDA
related structures by homologous chain: 1JBR, 1R4Y
A, B
  • nuclease activity
  • endoribonuclease activity
  • ribonuclease activity

  • Primary referenceCrystal structures of restrictocin-inhibitor complexes with implications for RNA recognition and base flipping., Yang X, Gerczei T, Glover LT, Correll CC, Nat Struct Biol 2001 Nov;8(11):968-73. PMID:11685244
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (1jbt.pdb1.gz) 38 Kb
  • Biological Unit Coordinates (1jbt.pdb2.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 1JBT
  • CSU: Contacts of Structural Units for 1JBT
  • Likely Quarternary Molecular Structure file(s) for 1JBT
  • Structure Factors (107 Kb)
  • Retrieve 1JBT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JBT from S2C, [Save to disk]
  • Re-refined 1jbt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1JBT 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 1JBT
  • 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 1JBT, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jbta_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1jbtb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1jbt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1jbt_B] [1jbt_D] [1jbt] [1jbt_C] [1jbt_A]
  • SWISS-PROT database: [P67876]
  • Domain organization of [RNMG_ASPRE] by SWISSPFAM
  • Other resources with information on 1JBT
  • Community annotation for 1JBT 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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