4CRF Hydrolase date Feb 26, 2014
title Creating Novel F1 Inhibitors Through Fragment Based Lead Gen And Structure Aided Drug Design
authors J.Sandmark, L.Oster, O.Fjellstrom, S.Akkaya, H.G.Beisel, P.O.Erik K.Erixon, D.Gustafsson, U.Jurva, D.Kang, D.Karis, W.Knecht, V.Ner I.Nilsson, T.Olsson, A.Redzic, R.Roth, A.Tigerstrom
compound source
Molecule: Coagulation Factor Xia Light Chain
Chain: A
Fragment: Catalytic Domain, Residues 388-625
Engineered: Yes
Mutation: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F11
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
symmetry Space Group: I 2 3
R_factor 0.181 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
120.990 120.990 120.990 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand ALA, CL, GOL, R9B, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCreating Novel Activated Factor XI Inhibitors through Fragment Based Lead Generation and Structure Aided Drug Design., Fjellstrom O, Akkaya S, Beisel HG, Eriksson PO, Erixon K, Gustafsson D, Jurva U, Kang D, Karis D, Knecht W, Nerme V, Nilsson I, Olsson T, Redzic A, Roth R, Sandmark J, Tigerstrom A, Oster L, PLoS One. 2015 Jan 28;10(1):e0113705. doi: 10.1371/journal.pone.0113705., eCollection 2015. PMID:25629509
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (4crf.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 4CRF
  • CSU: Contacts of Structural Units for 4CRF
  • Structure Factors (252 Kb)
  • Retrieve 4CRF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4CRF from S2C, [Save to disk]
  • Re-refined 4crf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4CRF 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 4CRF
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4crf] [4crf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4CRF: [Tryp_SPc ] by SMART
    • Other resources with information on 4CRF
  • Community annotation for 4CRF at PDBWiki (http://pdbwiki.org)

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