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PDBsum entry 3fd2
Go to PDB code: 
protein dna_rna metals links
Hydrolase/DNA PDB id
3fd2

 

 

 

 

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Contents
Protein chain
338 a.a. *
DNA/RNA
Metals
_CA ×2
Waters ×35
* Residue conservation analysis
PDB id:
3fd2
Name: Hydrolase/DNA
Title: Crystal structure of mmsoi/DNA complex with calcium
Structure: Site-specific DNA endonuclease i-msoi. Chain: a. Engineered: yes. Other_details: fusion protein comprises residues 1-170 of i-msoi, a linker of 33 residues (tgsgsgskhptltlptttsqenlpngsgsgsgt) and a 2nd i-msoi (1-170 residues).. 5'-d( Gp Cp Ap Gp Ap Ap Cp Gp Tp Cp Gp Tp Gp Ap Gp Ap Cp Ap Gp Tp Tp Cp Cp G)-3'. Chain: b.
Source: Monomastix sp. (Strain oke-1), monomastix sp. Oke-1, unidentified. Organism_taxid: 141716. Strain: oke-1. Gene: orf170, the chloroplast large subunit rdna intron gene. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Synthetic construct.
Resolution:
2.69Å     R-factor:   0.215     R-free:   0.281
Authors: H.Li,R.J.Monnat
Key ref: H.Li et al. (2009). Generation of single-chain LAGLIDADG homing endonucleases from native homodimeric precursor proteins. Nucleic Acids Res, 37, 1650-1662. PubMed id: 19153140
Date:
24-Nov-08     Release date:   30-Jun-09    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
C0JWR6  (C0JWR6_MONSK) -  Site-specific DNA endonuclease I-MsoI from Monomastix sp. (strain OKE-1)
Seq:
Struc: 		170 a.a.
338 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

DNA/RNA chains
  G-C-A-G-A-A-C-G-T-C-G-T-G-A-G-A-C-A-G-T-T-C-C-G 24 bases
  C-G-G-A-A-C-T-G-T-C-T-C-A-C-G-A-C-G-T-T-C-T-G-C 24 bases

 Enzyme reactions 
   Enzyme class: E.C.3.1.-.-
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

 

 
Nucleic Acids Res 37:1650-1662 (2009)
PubMed id: 19153140  
 
 
Generation of single-chain LAGLIDADG homing endonucleases from native homodimeric precursor proteins.
H.Li, S.Pellenz, U.Ulge, B.L.Stoddard, R.J.Monnat.
 
  ABSTRACT  
 
Homing endonucleases (HEs) cut long DNA target sites with high specificity to initiate and target the lateral transfer of mobile introns or inteins. This high site specificity of HEs makes them attractive reagents for gene targeting to promote DNA modification or repair. We have generated several hundred catalytically active, monomerized versions of the well-characterized homodimeric I-CreI and I-MsoI LAGLIDADG family homing endonuclease (LHE) proteins. Representative monomerized I-CreI and I-MsoI proteins (collectively termed mCreIs or mMsoIs) were characterized in detail by using a combination of biochemical, biophysical and structural approaches. We also demonstrated that both mCreI and mMsoI proteins can promote cleavage-dependent recombination in human cells. The use of single chain LHEs should simplify gene modification and targeting by requiring the expression of a single small protein in cells, rather than the coordinate expression of two separate protein coding genes as is required when using engineered heterodimeric zinc finger or homing endonuclease proteins.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
20846960 I.G.Muñoz, J.Prieto, S.Subramanian, J.Coloma, P.Redondo, M.Villate, N.Merino, M.Marenchino, M.D'Abramo, F.L.Gervasio, S.Grizot, F.Daboussi, J.Smith, I.Chion-Sotinel, F.Pâques, P.Duchateau, A.Alibés, F.Stricher, L.Serrano, F.J.Blanco, and G.Montoya (2011).
Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus.
  Nucleic Acids Res, 39, 729-743.
PDB codes: 2xe0 3mx9 3mxa 3mxb
21508956 N.Windbichler, M.Menichelli, P.A.Papathanos, S.B.Thyme, H.Li, U.Y.Ulge, B.T.Hovde, D.Baker, R.J.Monnat, A.Burt, and A.Crisanti (2011).
A synthetic homing endonuclease-based gene drive system in the human malaria mosquito.
  Nature, 473, 212-215.  
21047873 S.Arnould, C.Delenda, S.Grizot, C.Desseaux, F.Pâques, G.H.Silva, and J.Smith (2011).
The I-CreI meganuclease and its engineered derivatives: applications from cell modification to gene therapy.
  Protein Eng Des Sel, 24, 27-31.  
20435674 J.Ashworth, G.K.Taylor, J.J.Havranek, S.A.Quadri, B.L.Stoddard, and D.Baker (2010).
Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs.
  Nucleic Acids Res, 38, 5601-5608.
PDB codes: 3ko2 3mip 3mis
19915993 M.J.Marcaida, I.G.Muñoz, F.J.Blanco, J.Prieto, and G.Montoya (2010).
Homing endonucleases: from basics to therapeutic applications.
  Cell Mol Life Sci, 67, 727-748.  
20133886 M.Zaremba, and V.Siksnys (2010).
Molecular scissors under light control.
  Proc Natl Acad Sci U S A, 107, 1259-1260.  
19396851 H.Katada, and M.Komiyama (2009).
Artificial restriction DNA cutters as new tools for gene manipulation.
  Chembiochem, 10, 1279-1288.  
19584299 S.Grizot, J.Smith, F.Daboussi, J.Prieto, P.Redondo, N.Merino, M.Villate, S.Thomas, L.Lemaire, G.Montoya, F.J.Blanco, F.Pâques, and P.Duchateau (2009).
Efficient targeting of a SCID gene by an engineered single-chain homing endonuclease.
  Nucleic Acids Res, 37, 5405-5419.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.

 

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