5K57 Hydrolase date May 23, 2016
title Hdd Domain From Human Ddi2
authors V.Veverka
compound source
Molecule: Protein Ddi1 Homolog 2
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ddi2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
Primary referenceHuman DNA-Damage-Inducible 2 Protein Is Structurally and Functionally Distinct from Its Yeast Ortholog., Siva M, Svoboda M, Veverka V, Trempe JF, Hofmann K, Kozisek M, Hexnerova R, Sedlak F, Belza J, Brynda J, Sacha P, Hubalek M, Starkova J, Flaisigova I, Konvalinka J, Saskova KG, Sci Rep. 2016 Jul 27;6:30443. doi: 10.1038/srep30443. PMID:27461074
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (797 Kb) [Save to disk]
  • Biological Unit Coordinates (5k57.pdb1.gz) 27 Kb
  • CSU: Contacts of Structural Units for 5K57
  • Original NMR restraints for 5K57 from PDB
  • Retrieve 5K57 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5K57 from S2C, [Save to disk]
  • View 5K57 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 5K57
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5k57 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5k57_A] [5k57]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5K57
  • Community annotation for 5K57 at PDBWiki (http://pdbwiki.org)

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