2ax2: Difference between revisions

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-[[Image:2ax2.gif|left|200px]]<br />
-<applet load="2ax2" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="2ax2, resolution 1.50&Aring;" />
-'''Production and X-ray crystallographic analysis of fully deuterated human carbonic anhydrase II'''<br />
-==Overview==
+==Production and X-ray crystallographic analysis of fully deuterated human carbonic anhydrase II==
-Human carbonic anhydrase II (HCA II) is a zinc metalloenzyme that, catalyzes the reversible hydration and dehydration of carbon dioxide and, bicarbonate, respectively. The rate-limiting step in catalysis is the, intramolecular transfer of a proton between the zinc-bound solvent, (H2O/OH-) and the proton-shuttling residue His64. This distance, (approximately 7.5 A) is spanned by a well defined active-site solvent, network stabilized by amino-acid side chains (Tyr7, Asn62, Asn67, Thr199, and Thr200). Despite the availability of high-resolution (approximately, 1.0 A) X-ray crystal structures of HCA II, there is currently no, definitive information available on the positions and orientations of the, H atoms of the solvent network or active-site amino acids and their, ionization states. In preparation for neutron diffraction studies to, elucidate this hydrogen-bonding network, perdeuterated HCA II has been, expressed, purified, crystallized and its X-ray structure determined to, 1.5 A resolution. The refined structure is highly isomorphous with, hydrogenated HCA II, especially with regard to the active-site, architecture and solvent network. This work demonstrates the suitability, of these crystals for neutron macromolecular crystallography.
+<StructureSection load='2ax2' size='340' side='right'caption='[[2ax2]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2ax2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AX2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AX2 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ax2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ax2 OCA], [https://pdbe.org/2ax2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ax2 RCSB], [https://www.ebi.ac.uk/pdbsum/2ax2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ax2 ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[https://www.uniprot.org/uniprot/CAH2_HUMAN CAH2_HUMAN] Defects in CA2 are the cause of osteopetrosis autosomal recessive type 3 (OPTB3) [MIM:[https://omim.org/entry/259730 259730]; also known as osteopetrosis with renal tubular acidosis, carbonic anhydrase II deficiency syndrome, Guibaud-Vainsel syndrome or marble brain disease. Osteopetrosis is a rare genetic disease characterized by abnormally dense bone, due to defective resorption of immature bone. The disorder occurs in two forms: a severe autosomal recessive form occurring in utero, infancy, or childhood, and a benign autosomal dominant form occurring in adolescence or adulthood. Autosomal recessive osteopetrosis is usually associated with normal or elevated amount of non-functional osteoclasts. OPTB3 is associated with renal tubular acidosis, cerebral calcification (marble brain disease) and in some cases with mental retardation.<ref>PMID:1928091</ref> <ref>PMID:1542674</ref> <ref>PMID:8834238</ref> <ref>PMID:9143915</ref> <ref>PMID:15300855</ref>
+== Function ==
+[https://www.uniprot.org/uniprot/CAH2_HUMAN CAH2_HUMAN] Essential for bone resorption and osteoclast differentiation (By similarity). Reversible hydration of carbon dioxide. Can hydrate cyanamide to urea. Involved in the regulation of fluid secretion into the anterior chamber of the eye.<ref>PMID:10550681</ref> <ref>PMID:11831900</ref>
+== 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/ax/2ax2_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=2ax2 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Human carbonic anhydrase II (HCA II) is a zinc metalloenzyme that catalyzes the reversible hydration and dehydration of carbon dioxide and bicarbonate, respectively. The rate-limiting step in catalysis is the intramolecular transfer of a proton between the zinc-bound solvent (H2O/OH-) and the proton-shuttling residue His64. This distance (approximately 7.5 A) is spanned by a well defined active-site solvent network stabilized by amino-acid side chains (Tyr7, Asn62, Asn67, Thr199 and Thr200). Despite the availability of high-resolution (approximately 1.0 A) X-ray crystal structures of HCA II, there is currently no definitive information available on the positions and orientations of the H atoms of the solvent network or active-site amino acids and their ionization states. In preparation for neutron diffraction studies to elucidate this hydrogen-bonding network, perdeuterated HCA II has been expressed, purified, crystallized and its X-ray structure determined to 1.5 A resolution. The refined structure is highly isomorphous with hydrogenated HCA II, especially with regard to the active-site architecture and solvent network. This work demonstrates the suitability of these crystals for neutron macromolecular crystallography.
-==Disease==
+Production and X-ray crystallographic analysis of fully deuterated human carbonic anhydrase II.,Budayova-Spano M, Fisher SZ, Dauvergne MT, Agbandje-McKenna M, Silverman DN, Myles DA, McKenna R Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Jan 1;62(Pt 1):6-9., Epub 2005 Dec 16. PMID:16511248<ref>PMID:16511248</ref>
-Known disease associated with this structure: Osteopetrosis, autosomal recessive 3, with renal tubular acidosis OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=611492 611492]]
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-AX2 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Carbonate_dehydratase Carbonate dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.1 4.2.1.1] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2AX2 OCA].
+</div>
+<div class="pdbe-citations 2ax2" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Production and X-ray crystallographic analysis of fully deuterated human carbonic anhydrase II., Budayova-Spano M, Fisher SZ, Dauvergne MT, Agbandje-McKenna M, Silverman DN, Myles DA, McKenna R, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2006 Jan 1;62(Pt, 1):6-9. Epub 2005 Dec 16. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16511248 16511248]
+*[[Carbonic anhydrase 3D structures|Carbonic anhydrase 3D structures]]
-[[Category: Carbonate dehydratase]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Budayova-Spano, M.]]
+[[Category: Budayova-Spano M]]
-[[Category: Dauvergne, M.T.]]
+[[Category: Dauvergne MT]]
-[[Category: Fisher, S.Z.]]
+[[Category: Fisher SZ]]
-[[Category: McKenna, R.M.]]
+[[Category: McKenna RM]]
-[[Category: Myles, D.A.A.]]
+[[Category: Myles DAA]]
-[[Category: Silverman, D.N.]]
+[[Category: Silverman DN]]
-[[Category: ZN]]
-[[Category: perdeurated human carbonic anhydrase ii proton transfer]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 20:55:29 2007''