3ixf

From Proteopedia

(Difference between revisions)

Current revision

Crystal Structure of Dehaloperoxidase B at 1.58 and Structural Characterization of the AB Dimer from Amphitrite ornata

Structural highlights

3ixf is a 2 chain structure with sequence from Amphitrite ornata. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.58Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q9NAV7_9ANNE

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

As members of the globin superfamily, dehaloperoxidase (DHP) isoenzymes A and B from the marine annelid Amphitrite ornata possess hemoglobin function, but they also exhibit a biologically relevant peroxidase activity that is capable of converting 2,4,6-trihalophenols to the corresponding 2,6-dihaloquinones in the presence of hydrogen peroxide. Here, a comprehensive structural study of recombinant DHP B, both by itself and cocrystallized with isoenzyme A, using X-ray diffraction is presented. The structure of DHP B refined to 1.58 A resolution exhibits the same distal histidine (His55) conformational flexibility as that observed in isoenzyme A, as well as additional changes to the distal and proximal hydrogen-bonding networks. Furthermore, preliminary characterization of the DHP AB heterodimer is presented, which exhibits differences in the AB interface that are not observed in the A-only or B-only homodimers. These structural investigations of DHP B provide insights that may relate to the mechanistic details of the H(2)O(2)-dependent oxidative dehalogenation reaction catalyzed by dehaloperoxidase, present a clearer description of the function of specific residues in DHP at the molecular level and lead to a better understanding of the paradigms of globin structure-function relationships.

Structure of dehaloperoxidase B at 1.58 A resolution and structural characterization of the AB dimer from Amphitrite ornata.,de Serrano V, D'Antonio J, Franzen S, Ghiladi RA Acta Crystallogr D Biol Crystallogr. 2010 May;66(Pt 5):529-38. Epub 2010, Apr 21. PMID:20445228^[1]

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

References

↑ de Serrano V, D'Antonio J, Franzen S, Ghiladi RA. Structure of dehaloperoxidase B at 1.58 A resolution and structural characterization of the AB dimer from Amphitrite ornata. Acta Crystallogr D Biol Crystallogr. 2010 May;66(Pt 5):529-38. Epub 2010, Apr 21. PMID:20445228 doi:10.1107/S0907444910004580

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ixf"

@@ Line 1: / Line 1: @@
 ==Crystal Structure of Dehaloperoxidase B at 1.58 and Structural Characterization of the AB Dimer from Amphitrite ornata==
-<StructureSection load='3ixf' size='340' side='right' caption='[[3ixf]], [[Resolution|resolution]] 1.58&Aring;' scene=''>
+<StructureSection load='3ixf' size='340' side='right'caption='[[3ixf]], [[Resolution|resolution]] 1.58&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ixf]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Amphitrite_ornata Amphitrite ornata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IXF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IXF FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ixf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Amphitrite_ornata Amphitrite ornata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IXF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IXF FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.58&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dhpB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=129555 Amphitrite ornata])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=3ixf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ixf OCA], [http://pdbe.org/3ixf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ixf RCSB], [http://www.ebi.ac.uk/pdbsum/3ixf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ixf ProSAT]</span></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=3ixf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ixf OCA], [https://pdbe.org/3ixf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ixf RCSB], [https://www.ebi.ac.uk/pdbsum/3ixf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ixf ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q9NAV7_9ANNE Q9NAV7_9ANNE]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 29: / Line 31: @@
 ==See Also==
-*[[Dehaloperoxidase|Dehaloperoxidase]]
+*[[Dehaloperoxidase 3D structures|Dehaloperoxidase 3D structures]]
 == References ==
 <references/>
@@ Line 35: / Line 37: @@
 </StructureSection>
 [[Category: Amphitrite ornata]]
-[[Category: Antonio, J D]]
+[[Category: Large Structures]]
-[[Category: Franzen, S]]
+[[Category: D'Antonio J]]
-[[Category: Ghiladi, R A]]
+[[Category: Franzen S]]
-[[Category: Serrano, V S.de]]
+[[Category: Ghiladi RA]]
-[[Category: Thompson, M K]]
+[[Category: Thompson MK]]
-[[Category: Globin]]
+[[Category: De Serrano VS]]
-[[Category: Heme]]
-[[Category: Oxidoreductase]]
-[[Category: Oxygen transport]]
-[[Category: Peroxidase]]
-[[Category: Transport]]

3ixf

From Proteopedia

Current revision

Crystal Structure of Dehaloperoxidase B at 1.58 and Structural Characterization of the AB Dimer from Amphitrite ornata

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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