1a76: Difference between revisions

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-[[Image:1a76.jpg|left|200px]]
-<!--
+==FLAP ENDONUCLEASE-1 FROM METHANOCOCCUS JANNASCHII==
-The line below this paragraph, containing "STRUCTURE_1a76", creates the "Structure Box" on the page.
+<StructureSection load='1a76' size='340' side='right'caption='[[1a76]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1a76]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1A76 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1A76 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-{{STRUCTURE_1a76|  PDB=1a76  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1a76 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1a76 OCA], [https://pdbe.org/1a76 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1a76 RCSB], [https://www.ebi.ac.uk/pdbsum/1a76 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1a76 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/FEN_METJA FEN_METJA] Structure-specific nuclease with 5'-flap endonuclease and 5'-3' exonuclease activities involved in DNA replication and repair. During DNA replication, cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Binds the unpaired 3'-DNA end and kinks the DNA to facilitate 5' cleavage specificity. Cleaves one nucleotide into the double-stranded DNA from the junction in flap DNA, leaving a nick for ligation. Also involved in the base excision repair (BER) pathway. Acts as a genome stabilization factor that prevents flaps from equilibrating into structures that lead to duplications and deletions. Also possesses 5'-3' exonuclease activity on nicked or gapped double-stranded DNA.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a7/1a76_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1a76 ConSurf].
+<div style="clear:both"></div>
-'''FLAP ENDONUCLEASE-1 FROM METHANOCOCCUS JANNASCHII'''
+==See Also==
+*[[Endonuclease 3D structures|Endonuclease 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-Flap endonuclease-1 (FEN-1), a structure specific nuclease, is an essential enzyme for eukaryotic DNA replication and repair. The crystal structure of FEN-1 from Methanococcus jannaschii, determined at 2.0 A resolution, reveals an active site with two metal ions residing on top of a deep cleft where several conserved acidic residues are clustered. Near the active site, a long flexible loop comprised of many basic and aromatic residues forms a hole large enough to accommodate the DNA substrate. Deletion mutations in this loop significantly decreased the nuclease activity and specificity of FEN-1, suggesting that the loop is critical for recognition and cleavage of the junction between single and double-stranded regions of flap DNA.
+[[Category: Large Structures]]
-==About this Structure==
-A76 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1A76 OCA].
-==Reference==
-The crystal structure of flap endonuclease-1 from Methanococcus jannaschii., Hwang KY, Baek K, Kim HY, Cho Y, Nat Struct Biol. 1998 Aug;5(8):707-13. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9699635 9699635]
 [[Category: Methanocaldococcus jannaschii]]
-[[Category: Single protein]]
+[[Category: Baek K]]
-[[Category: Baek, K.]]
+[[Category: Cho Y]]
-[[Category: Cho, Y.]]
+[[Category: Hwang KY]]
-[[Category: Hwang, K Y.]]
+[[Category: Kim H]]
-[[Category: Kim, H.]]
-[[Category: 5'-3' exo/endo nuclease]]
-[[Category: Dna repair]]
-[[Category: Dna replication]]
-[[Category: Rad27]]
-[[Category: Rth]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 09:55:02 2008''