1RY2 Ligase date Dec 19, 2003
title Crystal Structure Of Yeast Acetyl-Coenzyme A Synthetase In C With Amp
authors G.Jogl, L.Tong
compound source
Molecule: Acetyl-Coenzyme A Synthetase 1
Chain: A
Synonym: Acetate--Coa Ligase 1; Acyl-Activating Enzyme 1; A
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Star
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: P 3
R_factor 0.199 R_Free 0.258
length a length b length c angle alpha angle beta angle gamma
107.130 107.130 54.790 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand AMP enzyme Ligase E.C. BRENDA

Primary referenceCrystal structure of yeast acetyl-coenzyme A synthetase in complex with AMP., Jogl G, Tong L, Biochemistry 2004 Feb 17;43(6):1425-31. PMID:14769018
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (1ry2.pdb1.gz) 290 Kb
  • LPC: Ligand-Protein Contacts for 1RY2
  • CSU: Contacts of Structural Units for 1RY2
  • Likely Quarternary Molecular Structure file(s) for 1RY2
  • Structure Factors (313 Kb)
  • Retrieve 1RY2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RY2 from S2C, [Save to disk]
  • Re-refined 1ry2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RY2 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 1RY2
  • 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 1RY2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ry2a_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1ry2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ry2_A] [1ry2]
  • SWISS-PROT database: [Q01574]
  • Domain organization of [ACS1_YEAST] by SWISSPFAM
  • Other resources with information on 1RY2
  • Community annotation for 1RY2 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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