1F89 Structural Genomics, Unknown Function date Jun 29, 2000
title Crystal Structure Of Saccharomyces Cerevisiae Nit3, A Member 10 Of The Nitrilase Superfamily
authors D.Kumaran, S.Eswaramoorthy, F.W.Studier, S.Swaminathan, S.K.Burl York Sgx Research Center For Structural Genomics (Nysgxrc)
compound source
Molecule: 32.5 Kda Protein Ylr351c
Chain: A, B
Synonym: Ylr351c, L9638.5
Engineered: Yes
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.229 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.523 53.492 80.985 90.00 112.43 90.00
method X-Ray Diffractionresolution 2.40 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of a putative CN hydrolase from yeast., Kumaran D, Eswaramoorthy S, Gerchman SE, Kycia H, Studier FW, Swaminathan S, Proteins 2003 Aug 1;52(2):283-91. PMID:12833551
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk]
  • Biological Unit Coordinates (1f89.pdb1.gz) 87 Kb
  • CSU: Contacts of Structural Units for 1F89
  • Likely Quarternary Molecular Structure file(s) for 1F89
  • Structure Factors (194 Kb)
  • Retrieve 1F89 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1F89 from S2C, [Save to disk]
  • Re-refined 1f89 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1F89 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 1F89
  • 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
  • 3D motif for 1F89, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f89a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1f89b_, region B [Jmol] [rasmolscript] [script source]
  • 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: [1f89_A] [1f89_B] [1f89]
  • SWISS-PROT database: [P49954]
  • Domain organization of [NIT3_YEAST] by SWISSPFAM
    • Other resources with information on 1F89
  • Community annotation for 1F89 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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