5DUQ Hydrolase date Sep 20, 2015
title Active Human C1-Inhibitor In Complex With Dextran Sulfate
authors M.Dijk, J.Holkers, P.Voskamp, B.M.Giannetti, W.J.Waterreus, H.A.V N.S.Pannu
compound source
Molecule: Plasma Protease C1 Inhibitor
Chain: A, B
Synonym: C1inh,C1 Esterase Inhibitor,C1-Inhibiting Factor,S
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Serping1, C1in, C1nh
Expression_system: Oryctolagus Cuniculus
Expression_system_taxid: 9986
symmetry Space Group: C 1 2 1
R_factor 0.228 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.100 197.424 56.779 90.00 103.31 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand BGC, GLC, NAG, SO3 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceHow Dextran Sulfate Affects C1-inhibitor Activity: A Model for Polysaccharide Potentiation., Dijk M, Holkers J, Voskamp P, Giannetti BM, Waterreus WJ, van Veen HA, Pannu NS, Structure. 2016 Dec 6;24(12):2182-2189. doi: 10.1016/j.str.2016.09.013. Epub 2016, Nov 3. PMID:27818099
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk]
  • Biological Unit Coordinates (5duq.pdb1.gz) 118 Kb
  • LPC: Ligand-Protein Contacts for 5DUQ
  • CSU: Contacts of Structural Units for 5DUQ
  • Structure Factors (494 Kb)
  • Retrieve 5DUQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DUQ from S2C, [Save to disk]
  • Re-refined 5duq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DUQ 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 5DUQ
  • 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: [5duq_B] [5duq_A] [5duq]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5DUQ: [SERPIN ] by SMART
  • Other resources with information on 5DUQ
  • Community annotation for 5DUQ at PDBWiki (http://pdbwiki.org)

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