2cfm

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[[Image:2cfm.gif|left|200px]]
[[Image:2cfm.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 2cfm |SIZE=350|CAPTION= <scene name='initialview01'>2cfm</scene>, resolution 1.80&Aring;
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The line below this paragraph, containing "STRUCTURE_2cfm", creates the "Structure Box" on the page.
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|SITE= <scene name='pdbsite=AC1:Amp+Binding+Site+For+Chain+A'>AC1</scene>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_ligase_(ATP) DNA ligase (ATP)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.1 6.5.1.1] </span>
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or leave the SCENE parameter empty for the default display.
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|GENE=
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-->
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|DOMAIN=
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{{STRUCTURE_2cfm| PDB=2cfm | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2cfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cfm OCA], [http://www.ebi.ac.uk/pdbsum/2cfm PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2cfm RCSB]</span>
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}}
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'''ATP-DEPENDENT DNA LIGASE FROM PYROCOCCUS FURIOSUS'''
'''ATP-DEPENDENT DNA LIGASE FROM PYROCOCCUS FURIOSUS'''
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==Reference==
==Reference==
The closed structure of an archaeal DNA ligase from Pyrococcus furiosus., Nishida H, Kiyonari S, Ishino Y, Morikawa K, J Mol Biol. 2006 Jul 28;360(5):956-67. Epub 2006 Jun 12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16820169 16820169]
The closed structure of an archaeal DNA ligase from Pyrococcus furiosus., Nishida H, Kiyonari S, Ishino Y, Morikawa K, J Mol Biol. 2006 Jul 28;360(5):956-67. Epub 2006 Jun 12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16820169 16820169]
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[[Category: DNA ligase (ATP)]]
 
[[Category: Pyrococcus furiosus]]
[[Category: Pyrococcus furiosus]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: Morikawa, K.]]
[[Category: Morikawa, K.]]
[[Category: Nishida, H.]]
[[Category: Nishida, H.]]
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[[Category: cell cycle]]
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[[Category: Cell cycle]]
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[[Category: cell division]]
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[[Category: Cell division]]
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[[Category: dna damage]]
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[[Category: Dna damage]]
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[[Category: dna recombination]]
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[[Category: Dna recombination]]
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[[Category: dna repair]]
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[[Category: Dna repair]]
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[[Category: dna replication]]
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[[Category: Dna replication]]
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[[Category: ligase]]
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[[Category: Ligase]]
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[[Category: nucleotide-binding]]
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[[Category: Nucleotide-binding]]
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[[Category: protein-nucleotide complex]]
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[[Category: Protein-nucleotide complex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 22:01:23 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:20:48 2008''
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Revision as of 19:01, 3 May 2008

Image:2cfm.gif

Template:STRUCTURE 2cfm

ATP-DEPENDENT DNA LIGASE FROM PYROCOCCUS FURIOSUS


Overview

DNA ligases join single-strand breaks in double-stranded DNA, and are essential to maintain genome integrity in DNA metabolism. Here, we report the 1.8 A resolution structure of Pyrococcus furiosus DNA ligase (PfuLig), which represents the first full-length atomic view of an ATP-dependent eukaryotic-type DNA ligase. The enzyme comprises the N-terminal DNA-binding domain, the middle adenylation domain, and the C-terminal OB-fold domain. The architecture of each domain resembles those of human DNA ligase I, but the domain arrangements differ strikingly between the two enzymes. The closed conformation of the two "catalytic core" domains at the carboxyl terminus in PfuLig creates a small compartment, which holds a non-covalently bound AMP molecule. This domain rearrangement results from the "domain-connecting" role of the helical extension conserved at the C termini in archaeal and eukaryotic DNA ligases. The DNA substrate in the human open-ligase is replaced by motif VI in the Pfu closed-ligase. Both the shapes and electrostatic distributions are similar between motif VI and the DNA substrate, suggesting that motif VI in the closed state mimics the incoming substrate DNA. Two basic residues (R531 and K534) in motif VI reside within the active site pocket and interact with the phosphate group of the bound AMP. The crystallographic and functional analyses of mutant enzymes revealed that these two residues within the RxDK sequence play essential and complementary roles in ATP processing. This sequence is also conserved exclusively among the covalent nucleotidyltransferases, even including mRNA-capping enzymes with similar helical extensions at the C termini.

About this Structure

2CFM is a Single protein structure of sequence from Pyrococcus furiosus. Full crystallographic information is available from OCA.

Reference

The closed structure of an archaeal DNA ligase from Pyrococcus furiosus., Nishida H, Kiyonari S, Ishino Y, Morikawa K, J Mol Biol. 2006 Jul 28;360(5):956-67. Epub 2006 Jun 12. PMID:16820169 Page seeded by OCA on Sat May 3 22:01:23 2008

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