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PDBsum entry 5l3c
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protein ligands Protein-protein interface(s) links
Oxidoreductase/repressor PDB id
5l3c

 

 

 

 

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JSmol PyMol  
Contents
Protein chains
666 a.a.
134 a.a.
Ligands
FAD
PDB id:
5l3c
Name: Oxidoreductase/repressor
Title: Human lsd1/corest: lsd1 e379k mutation
Structure: Lysine-specific histone demethylase 1a. Chain: a. Synonym: braf35-hdac complex protein bhc110,flavin-containing amine oxidase domain-containing protein 2. Engineered: yes. Mutation: yes. Rest corepressor 1. Chain: b. Synonym: protein corest.
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: kdm1a, aof2, kdm1, kiaa0601, lsd1. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Gene: rcor1, kiaa0071, rcor. Expression_system_variant: rosetta
Resolution:
3.31Å     R-factor:   0.199     R-free:   0.223
Authors: S.Pilotto,V.Speranzini,C.Marabelli,A.Mattevi
Key ref: S.Pilotto et al. (2016). LSD1/KDM1A mutations associated to a newly described form of intellectual disability impair demethylase activity and binding to transcription factors. Hum Mol Genet, 25, 2578-2587. PubMed id: 27094131 DOI: 10.1093/hmg/ddw120
Date:
06-Apr-16     Release date:   04-May-16    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
O60341  (KDM1A_HUMAN) -  Lysine-specific histone demethylase 1A from Homo sapiens
Seq:
Struc: 		 
Seq:
Struc: 		852 a.a.
666 a.a.*
Protein chain
Pfam   ArchSchema ?
Q9UKL0  (RCOR1_HUMAN) -  REST corepressor 1 from Homo sapiens
Seq:
Struc: 		485 a.a.
134 a.a.
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class: Chain A: E.C.1.14.99.66  - [histone-H3]-N(6),N(6)-dimethyl-L-lysine(4) FAD-dependent demethylase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: N6,N6-dimethyl-L-lysyl4-[histone H3] + 2 A + 2 H2O = L-lysyl4- [histone H3] + 2 formaldehyde + 2 AH2
N(6),N(6)-dimethyl-L-lysyl(4)-[histone H3]
 + 2 × A
 + 2 × H2O
 = L-lysyl(4)- [histone H3]
 + 2 × formaldehyde
 + 2 × AH2
Molecule diagrams generated from .mol files obtained from the KEGG ftp site

 

 
    Key reference    
 
 
DOI no: 10.1093/hmg/ddw120 Hum Mol Genet 25:2578-2587 (2016)
PubMed id: 27094131  
 
 
LSD1/KDM1A mutations associated to a newly described form of intellectual disability impair demethylase activity and binding to transcription factors.
S.Pilotto, V.Speranzini, C.Marabelli, F.Rusconi, E.Toffolo, B.Grillo, E.Battaglioli, A.Mattevi.
 
  ABSTRACT  
 
No abstract given.

 

 

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