1wur

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (13:34, 13 March 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1wur.gif|left|200px]]<br /><applet load="1wur" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1wur, resolution 1.82&Aring;" />
 
-
'''Structure of GTP cyclohydrolase I Complexed with 8-oxo-dGTP'''<br />
 
-
==Overview==
+
==Structure of GTP cyclohydrolase I Complexed with 8-oxo-dGTP==
-
GTP cyclohydrolase I (GTPCH1) catalyzes the conversion of GTP to dihydroneopterin 3'-triphosphate. We found that an 8-oxoguanine derivative of GTP (8-oxo-GTP) strongly bound to GTPCH1 from Thermus thermophilus HB8 (tGTPCH1) as a competitive inhibitor. The affinity of 8-oxo-GTP was three orders of magnitude greater than that of GTP. These results suggest that 8-oxo-GTP is a transition state analogue of GTPCH1. We have solved the X-ray crystal structures of tGTPCH1 complexed with 8-oxo-GTP and 8-oxo-dGTP at 2.0 and 1.8 A resolution, respectively, as well as the free form of the enzyme at 2.2 A resolution. In the structure of tGTPCH1 complexed with 8-oxo-GTP or 8-oxo-dGTP, the oxygen atoms at O8 of the 8-oxoguanine groups, together with residues Cys108, His111 and Cys179, are coordinated to the zinc ion. The water molecule between Ndelta1 of His177 and N7 of 8-oxoguanine is conserved in both structures. These structural data are in accordance with one of the proposed transition states. Superimpositioning of the structures indicates the imidazole ring of His110 is rotated, implying concomitant proton transfer to the ribose ring O4'. Based on these structural data we propose a novel reaction mechanism for GTPCH1.
+
<StructureSection load='1wur' size='340' side='right'caption='[[1wur]], [[Resolution|resolution]] 1.82&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1wur]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WUR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WUR 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]] 1.82&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8DG:8-OXO-2-DEOXYGUANOSINE-5-TRIPHOSPHATE'>8DG</scene>, <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=1wur FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wur OCA], [https://pdbe.org/1wur PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wur RCSB], [https://www.ebi.ac.uk/pdbsum/1wur PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wur ProSAT], [https://www.topsan.org/Proteins/RSGI/1wur TOPSAN]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q5SH52_THET8 Q5SH52_THET8]
 +
== 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/wu/1wur_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=1wur ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1WUR is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with <scene name='pdbligand=ZN:'>ZN</scene> and <scene name='pdbligand=8DG:'>8DG</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/GTP_cyclohydrolase_I GTP cyclohydrolase I], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.16 3.5.4.16] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WUR OCA].
+
*[[Cyclohydrolase 3D structures|Cyclohydrolase 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Novel reaction mechanism of GTP cyclohydrolase I. High-resolution X-ray crystallography of Thermus thermophilus HB8 enzyme complexed with a transition state analogue, the 8-oxoguanine derivative., Tanaka Y, Nakagawa N, Kuramitsu S, Yokoyama S, Masui R, J Biochem. 2005 Sep;138(3):263-75. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16169877 16169877]
+
[[Category: Large Structures]]
-
[[Category: GTP cyclohydrolase I]]
+
-
[[Category: Single protein]]
+
[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
-
[[Category: Kuramitsu, S.]]
+
[[Category: Kuramitsu S]]
-
[[Category: Masui, R.]]
+
[[Category: Masui R]]
-
[[Category: Nakagawa, N.]]
+
[[Category: Nakagawa N]]
-
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
+
[[Category: Tanaka Y]]
-
[[Category: Tanaka, Y.]]
+
[[Category: Yokoyama S]]
-
[[Category: Yokoyama, S.]]
+
-
[[Category: 8DG]]
+
-
[[Category: ZN]]
+
-
[[Category: beta barrel]]
+
-
[[Category: hydrolase]]
+
-
[[Category: national project on protein structural and functional analyses]]
+
-
[[Category: nppsfa]]
+
-
[[Category: protein-inhibitor complex]]
+
-
[[Category: pteridine]]
+
-
[[Category: riken structural genomics/proteomics initiative]]
+
-
[[Category: rsgi]]
+
-
[[Category: structural genomics]]
+
-
[[Category: tetrahydrobiopterin]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:48:20 2008''
+

Current revision

Structure of GTP cyclohydrolase I Complexed with 8-oxo-dGTP

PDB ID 1wur

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1wur"
Personal tools