1ucs

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[[Image:1ucs.jpg|left|200px]]
 
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==Type III Antifreeze Protein RD1 from an Antarctic Eel Pout==
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The line below this paragraph, containing "STRUCTURE_1ucs", creates the "Structure Box" on the page.
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<StructureSection load='1ucs' size='340' side='right'caption='[[1ucs]], [[Resolution|resolution]] 0.62&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1ucs]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lycodichthys_dearborni Lycodichthys dearborni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UCS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UCS FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 0.62&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ucs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ucs OCA], [https://pdbe.org/1ucs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ucs RCSB], [https://www.ebi.ac.uk/pdbsum/1ucs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ucs ProSAT]</span></td></tr>
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{{STRUCTURE_1ucs| PDB=1ucs | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ANP1_LYCDA ANP1_LYCDA] Contributes to protect fish blood from freezing at subzero sea water temperatures. Lowers the blood freezing point. Binds to nascent ice crystals and prevents further growth (By similarity).
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uc/1ucs_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1ucs ConSurf].
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<div style="clear:both"></div>
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'''Type III Antifreeze Protein RD1 from an Antarctic Eel Pout'''
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==See Also==
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*[[Antifreeze protein 3D structures|Antifreeze protein 3D structures]]
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__TOC__
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==Overview==
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</StructureSection>
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RD1 is a 7-kDa globular protein from the Antarctic eel pout Lycodichthys dearborni. It belongs to type III of the four types of antifreeze proteins (AFPs) found in marine fishes living at subzero temperatures. For type III AFP, a potential ice-binding flat surface has been identified and is imbedded with side chains capable of making hydrogen bonds with a specific lattice plane on ice. So far, all crystallographic studies on type III AFPs were carried out using the Atlantic ocean pout Macrozoarces americanus as the source organism. Here we present the crystal structure of a type III AFP from a different zoarcid fish, and at an ultra-high resolution of 0.62 A. The protein fold of RD1 comprises a compact globular domain with two internal tandem motifs arranged about a pseudo-dyad symmetry. Each motif of the "pretzel fold" includes four short beta-strands and a 3(10) helix. There is a novel internal cavity of 45 A(3) surrounded by eight conserved nonpolar residues. The model contains several residues with alternate conformations, and a number of split water molecules, probably caused by alternate interactions with the protein molecule. After extensive refinement that includes hydrogen atoms, significant residual electron densities associated with the electrons of peptides and many other bonds could be visualized.
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[[Category: Large Structures]]
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==About this Structure==
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1UCS is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Lycodichthys_dearborni Lycodichthys dearborni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UCS OCA].
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==Reference==
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The refined crystal structure of an eel pout type III antifreeze protein RD1 at 0.62-A resolution reveals structural microheterogeneity of protein and solvation., Ko TP, Robinson H, Gao YG, Cheng CH, DeVries AL, Wang AH, Biophys J. 2003 Feb;84(2 Pt 1):1228-37. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12547803 12547803]
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[[Category: Lycodichthys dearborni]]
[[Category: Lycodichthys dearborni]]
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[[Category: Single protein]]
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[[Category: Cheng C-HC]]
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[[Category: Cheng, C H.C.]]
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[[Category: DeVries AL]]
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[[Category: DeVries, A L.]]
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[[Category: Gao Y-G]]
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[[Category: Gao, Y G.]]
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[[Category: Ko T-P]]
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[[Category: Ko, T P.]]
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[[Category: Robinson H]]
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[[Category: Robinson, H.]]
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[[Category: Wang AH-J]]
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[[Category: Wang, A H.J.]]
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[[Category: Pretzel fold]]
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[[Category: Small beta barrel]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 11:02:55 2008''
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Current revision

Type III Antifreeze Protein RD1 from an Antarctic Eel Pout

PDB ID 1ucs

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