1SZ3 Hydrolase date Apr 02, 2004
title Crystal Structure Of Nudix Hydrolase Dr1025 In Complexed With Gnp And Mg+2
authors W.Ranatunga, E.E.Hill, J.L.Mooster, E.L.Holbrook, U.Schulze- Gahmen, W.Xu, M.J.Bessman, S.E.Brenner, S.R.Holbrook, Berkeley Structural Genomics Center (Bsgc)
compound source
Molecule: Muttnudix Family Protein
Chain: A, B
Ec: 3.6.1.-
Engineered: Yes
Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299
Gene: Dr1025
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Tuner
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24a
symmetry Space Group: P 41
R_factor 0.213 R_Free 0.234
length a length b length c angle alpha angle beta angle gamma
53.072 53.072 122.197 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand GNP, MG enzyme Hydrolase E.C.3.6.1 BRENDA
related structures by homologous chain: 1SU2
A, B

Primary referenceStructural Studies of the Nudix Hydrolase DR1025 From Deinococcus radiodurans and its Ligand Complexes., Ranatunga W, Hill EE, Mooster JL, Holbrook EL, Schulze-Gahmen U, Xu W, Bessman MJ, Brenner SE, Holbrook SR, J Mol Biol 2004 May 21;339(1):103-16. PMID:15123424
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (1sz3.pdb1.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 1SZ3
  • CSU: Contacts of Structural Units for 1SZ3
  • Likely Quarternary Molecular Structure file(s) for 1SZ3
  • Structure Factors (337 Kb)
  • Retrieve 1SZ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SZ3 from S2C, [Save to disk]
  • Re-refined 1sz3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1SZ3 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 1SZ3
  • 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 1SZ3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sz3a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1sz3b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1sz3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1sz3_A] [1sz3] [1sz3_B]
  • SWISS-PROT database: [Q9RVK2]
  • Domain organization of [Q9RVK2_DEIRA] by SWISSPFAM
  • Other resources with information on 1SZ3
  • Community annotation for 1SZ3 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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