6I0X Hydrolase date Oct 26, 2018
title Porphyromonas Gingivalis Peptidylarginine Deminase (Ppad) Mu G231ne232tn235d In Complex With Cl-Amidine.
authors F.X.Gomis-Ruth, T.Goulas, M.Sola, J.Potempa
compound source
Molecule: Peptidylarginine Deiminase
Chain: A, B
Ec: 3.5.3.-
Engineered: Yes
Other_details: The Present Is A Triple Point Mutant G231ne232tn235d. In Addition, Catalytic Cysteine C351 Is Modified By The Inhibitor Cl-Amidine Resulting In New Resid
Organism_scientific: Porphyromonas Gingivalis (Strain Atcc W83);
Organism_taxid: 242619
Strain: Atcc Baa-308 W83
Gene: Pg_1424
Expression_system: Porphyromonas Gingivalis
Expression_system_taxid: 837
symmetry Space Group: C 1 2 1
R_factor 0.180 R_Free 0.193
crystal
cell
length a length b length c angle alpha angle beta angle gamma
123.840 71.870 104.720 90.00 95.86 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand BFB, GOL, NA enzyme Hydrolase E.C.3.5.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructure, function and inhibition of a genomic/clinical variant of Porphyromonas gingivalis peptidylarginine deiminase., Bereta G, Goulas T, Madej M, Bielecka E, Sola M, Potempa J, Gomis-Ruth FX, Protein Sci. 2019 Jan 14. doi: 10.1002/pro.3571. PMID:30638292
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (294 Kb) [Save to disk]
  • Biological Unit Coordinates (6i0x.pdb1.gz) 147 Kb
  • Biological Unit Coordinates (6i0x.pdb2.gz) 146 Kb
  • LPC: Ligand-Protein Contacts for 6I0X
  • CSU: Contacts of Structural Units for 6I0X
  • Structure Factors (1211 Kb)
  • Retrieve 6I0X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6I0X from S2C, [Save to disk]
  • View 6I0X 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 6I0X
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6i0x_B] [6i0x_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6I0X
  • Community annotation for 6I0X at PDBWiki (http://pdbwiki.org)

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