3SYU Hydrolase date Jul 18, 2011
title Re-Refined Coordinates For Pdb Entry 1det - Ribonuclease T1 Carboxymethylated At Glu 58 In Complex With 2'Gmp
authors O.S.Smart, T.O.Womack, G.Bricogne
compound source
Molecule: Guanyl-Specific Ribonuclease T1
Chain: A
Synonym: Rnase T1
Ec: 3.1.27.3
 Organism_scientific: Aspergillus Oryzae
Organism_taxid: 510516
Strain: Atcc 42149 Rib 40
symmetry Space Group: I 2 3
R_factor 0.138 R_Free 0.165
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.690 88.690 88.690 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand 2GP, CGA, NA, UNX enzyme Hydrolase E.C.3.1.27.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • nuclease activity
  • endonuclease activity
  • endoribonuclease activity
  • ribonuclease activity


    • Primary referenceExploiting structure similarity in refinement: automated NCS and target-structure restraints in BUSTER., Smart OS, Womack TO, Flensburg C, Keller P, Paciorek W, Sharff A, Vonrhein C, Bricogne G, Acta Crystallogr D Biol Crystallogr. 2012 Apr;68(Pt 4):368-80. Epub 2012 Mar 16. PMID:22505257
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (3syu.pdb1.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 3SYU
  • CSU: Contacts of Structural Units for 3SYU
  • Structure Factors (305 Kb)
  • Retrieve 3SYU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3SYU from S2C, [Save to disk]
  • Re-refined 3syu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3SYU 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 3SYU
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3SYU, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3syu] [3syu_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3SYU
  • Community annotation for 3SYU at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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