3FCL Hydrolase date Nov 21, 2008
title Complex Of Ung2 And A Fragment-Based Designed Inhibitor
authors M.A.Bianchet, S.Chung, J.B.Parker, L.M.Amzel, J.T.Stivers
compound source
Molecule: Uracil-Dna Glycosylase
Chain: A, B
Synonym: Udg
Ec: 3.2.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ung, Dgu, Ung1, Ung15
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.189 R_Free 0.237
length a length b length c angle alpha angle beta angle gamma
70.108 43.387 70.684 90.00 90.43 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand 3FL, SCN BindingDB enzyme Hydrolase E.C.3.2.2 BRENDA
A, B

Primary referenceImpact of linker strain and flexibility in the design of a fragment-based inhibitor., Chung S, Parker JB, Bianchet M, Amzel LM, Stivers JT, Nat Chem Biol. 2009 Jun;5(6):407-13. Epub 2009 Apr 26. PMID:19396178
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk]
  • Biological Unit Coordinates (3fcl.pdb1.gz) 44 Kb
  • Biological Unit Coordinates (3fcl.pdb2.gz) 45 Kb
  • LPC: Ligand-Protein Contacts for 3FCL
  • CSU: Contacts of Structural Units for 3FCL
  • Likely Quarternary Molecular Structure file(s) for 3FCL
  • Structure Factors (506 Kb)
  • Retrieve 3FCL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FCL from S2C, [Save to disk]
  • Re-refined 3fcl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3FCL 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 3FCL
  • 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 3FCL, from MSDmotif at EBI
  • Fold representative 3fcl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fcl_B] [3fcl_A] [3fcl]
  • SWISS-PROT database: [P13051]
  • Domain organization of [UNG_HUMAN] by SWISSPFAM
  • Domains found in 3FCL: [UDG] [UreE_C ] by SMART
  • Other resources with information on 3FCL
  • Community annotation for 3FCL 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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