2Y48 Oxidoreductase date Jan 05, 2011
title Crystal Structure Of Lsd1-Corest In Complex With A N- Terminal Snail Peptide
authors R.Baron, C.Binda, M.Tortorici, J.A.Mccammon, A.Mattevi
compound source
Molecule: Lysine-Specific Demethylase 1a
Chain: A
Fragment: Residues 123-852
Synonym: Lysine-Specific Demethylase 1, Braf35-Hdac Complex Bhc110, Flavin-Containing Amine Oxidase Domain-Containing 2;
Ec: 1.-.-.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Rest Corepressor 1
Chain: B
Fragment: Residues 305-482
Synonym: Corepressor Corest, Protein Corest
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Zinc Finger Protein Snai1
Chain: C
Fragment: N-Terminal 20 Amino Acids Tail, Resiudes 2-21
Synonym: Transcription Factor Snail, Protein Snail Homolog Protein Sna

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: I 2 2 2
R_factor 0.21227 R_Free 0.24559
crystal
cell
length a length b length c angle alpha angle beta angle gamma
119.170 181.460 234.440 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand FAD enzyme Oxidoreductase E.C.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceMolecular Mimicry and Ligand Recognition in Binding and Catalysis by the Histone Demethylase LSD1-CoREST Complex., Baron R, Binda C, Tortorici M, McCammon JA, Mattevi A, Structure. 2011 Feb 9;19(2):212-20. PMID:21300290
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (137 Kb) [Save to disk]
  • Biological Unit Coordinates (2y48.pdb1.gz) 131 Kb
  • LPC: Ligand-Protein Contacts for 2Y48
  • CSU: Contacts of Structural Units for 2Y48
  • Structure Factors (725 Kb)
  • Retrieve 2Y48 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y48 from S2C, [Save to disk]
  • Re-refined 2y48 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y48 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 2Y48
  • 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 2Y48, from MSDmotif at EBI
  • Fold representative 2y48 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y48_C] [2y48_A] [2y48_B] [2y48]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2Y48: [SANT ] by SMART
  • Other resources with information on 2Y48
  • Community annotation for 2Y48 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
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