1gn9

From Proteopedia

(Difference between revisions)

Current revision

Hybrid Cluster Protein from Desulfovibrio desulfuricans ATCC 27774 X-ray structure at 2.6A resolution using synchrotron radiation at a wavelength of 1.722A

Structural highlights

1gn9 is a 2 chain structure with sequence from Desulfovibrio desulfuricans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.6Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

HCP_DESDA Catalyzes the reduction of hydroxylamine to form NH(3) and H(2)O (By similarity).[HAMAP-Rule:MF_00069]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The structures of the hybrid cluster proteins (HCPs) from the sulfate-reducing bacteria Desulfovibrio desulfuricans (ATCC 27774) and Desulfovibrio vulgaris (Hildenborough) have been elucidated at a resolution of 1.25 A using X-ray synchrotron radiation techniques. In the case of the D. desulfuricans protein, protein isolation, purification, crystallization and X-ray data collection were carried out under strict anaerobic conditions, whereas for the D. vulgaris protein the conditions were aerobic. However, both structures are essentially the same, comprising three domains and two iron-sulfur centres. One of these centres situated near the exterior of the molecules in domain 1 is a cubane [4Fe-4S] cluster, whereas the other, located at the interface of the three domains, contains the unusual four-iron cluster initially found in the D. vulgaris protein. Details of the structures and the associated EPR spectroscopy of the D. desulfuricans protein are reported herein. These structures show that the nature of the hybrid cluster, containing both oxygen and sulfur bridges, is independent of the presence of oxygen in the isolation and crystallization procedure and also does not vary significantly with changes in the oxidation state. The structures and amino acid sequences of the HCP are compared with the recently elucidated structure of the catalytic subunit of a carbon monoxide dehydrogenase from Carboxydothermus hydrogenoformans and related dehydrogenases. Electronic supplementary material to this paper can be obtained by using the Springer Link server located at http://dx.doi.org/10.1007/s00775-001-0326-y.

Hybrid cluster proteins (HCPs) from Desulfovibrio desulfuricans ATCC 27774 and Desulfovibrio vulgaris (Hildenborough): X-ray structures at 1.25 A resolution using synchrotron radiation.,Macedo S, Mitchell EP, Romao CV, Cooper SJ, Coelho R, Liu MY, Xavier AV, LeGall J, Bailey S, Garner DC, Hagen WR, Teixeira M, Carrondo MA, Lindley P J Biol Inorg Chem. 2002 Apr;7(4-5):514-25. Epub 2002 Jan 23. PMID:11941509^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Macedo S, Mitchell EP, Romao CV, Cooper SJ, Coelho R, Liu MY, Xavier AV, LeGall J, Bailey S, Garner DC, Hagen WR, Teixeira M, Carrondo MA, Lindley P. Hybrid cluster proteins (HCPs) from Desulfovibrio desulfuricans ATCC 27774 and Desulfovibrio vulgaris (Hildenborough): X-ray structures at 1.25 A resolution using synchrotron radiation. J Biol Inorg Chem. 2002 Apr;7(4-5):514-25. Epub 2002 Jan 23. PMID:11941509 doi:10.1007/s00775-001-0326-y

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1gn9"

@@ Line 3: / Line 3: @@
 <StructureSection load='1gn9' size='340' side='right'caption='[[1gn9]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1gn9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_desulfuricans Desulfovibrio desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GN9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GN9 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1gn9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_desulfuricans Desulfovibrio desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GN9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GN9 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FSF:4FE-2S-O+HYBRID+CLUSTER'>FSF</scene>, <scene name='pdbligand=FSO:IRON/SULFUR/OXYGEN+HYBRID+CLUSTER'>FSO</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1gnl|1gnl]]</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=1gn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gn9 OCA], [https://pdbe.org/1gn9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gn9 RCSB], [https://www.ebi.ac.uk/pdbsum/1gn9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gn9 ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1gn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gn9 OCA], [http://pdbe.org/1gn9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gn9 RCSB], [http://www.ebi.ac.uk/pdbsum/1gn9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1gn9 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/HCP_DESDA HCP_DESDA]] Catalyzes the reduction of hydroxylamine to form NH(3) and H(2)O (By similarity).[HAMAP-Rule:MF_00069]
+[https://www.uniprot.org/uniprot/HCP_DESDA HCP_DESDA] Catalyzes the reduction of hydroxylamine to form NH(3) and H(2)O (By similarity).[HAMAP-Rule:MF_00069]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 16: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gn/1gn9_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 36: / Line 35: @@
 [[Category: Desulfovibrio desulfuricans]]
 [[Category: Large Structures]]
-[[Category: Bailey, S]]
+[[Category: Bailey S]]
-[[Category: Carrondo, M A]]
+[[Category: Carrondo MA]]
-[[Category: Coelho, R]]
+[[Category: Coelho R]]
-[[Category: Cooper, S J]]
+[[Category: Cooper SJ]]
-[[Category: Garner, D C]]
+[[Category: Garner DC]]
-[[Category: Hagen, W R]]
+[[Category: Hagen WR]]
-[[Category: Legall, J]]
+[[Category: Legall J]]
-[[Category: Lindley, P]]
+[[Category: Lindley P]]
-[[Category: Liu, M Y]]
+[[Category: Liu MY]]
-[[Category: Macedo, S]]
+[[Category: Macedo S]]
-[[Category: Mitchell, E P]]
+[[Category: Mitchell EP]]
-[[Category: Romao, C V]]
+[[Category: Romao CV]]
-[[Category: Teixeira, M]]
+[[Category: Teixeira M]]
-[[Category: Xavier, A V]]
+[[Category: Xavier AV]]
-[[Category: Anaerobic desulfovibrio desulfurican]]
-[[Category: Hybrid cluster]]
-[[Category: Hybrid cluster protein]]
-[[Category: Iron anomalous]]

1gn9

From Proteopedia

Current revision

Hybrid Cluster Protein from Desulfovibrio desulfuricans ATCC 27774 X-ray structure at 2.6A resolution using synchrotron radiation at a wavelength of 1.722A

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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