2iv2

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|PDB= 2iv2 |SIZE=350|CAPTION= <scene name='initialview01'>2iv2</scene>, resolution 2.27&Aring;
|PDB= 2iv2 |SIZE=350|CAPTION= <scene name='initialview01'>2iv2</scene>, resolution 2.27&Aring;
|SITE= <scene name='pdbsite=AC1:S+Binding+Site+For+Chain+X'>AC1</scene>
|SITE= <scene name='pdbsite=AC1:S+Binding+Site+For+Chain+X'>AC1</scene>
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|LIGAND= <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=2MD:GUANYLATE-O&#39;-PHOSPHORIC+ACID+MONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,5,6,7,8A,9,10,10A-OCTAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)+ESTER'>2MD</scene>, <scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene> and <scene name='pdbligand=S:SULFUR ATOM'>S</scene>
+
|LIGAND= <scene name='pdbligand=2MD:GUANYLATE-O&#39;-PHOSPHORIC+ACID+MONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,5,6,7,8A,9,10,10A-OCTAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)+ESTER'>2MD</scene>, <scene name='pdbligand=CSE:SELENOCYSTEINE'>CSE</scene>, <scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=S:SULFUR+ATOM'>S</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Formate_dehydrogenase Formate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.1.2 1.2.1.2]
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Formate_dehydrogenase Formate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.1.2 1.2.1.2] </span>
|GENE=
|GENE=
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|DOMAIN=
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2iv2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iv2 OCA], [http://www.ebi.ac.uk/pdbsum/2iv2 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2iv2 RCSB]</span>
}}
}}
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[[Category: Raaijmakers, H C.A.]]
[[Category: Raaijmakers, H C.A.]]
[[Category: Romao, M J.]]
[[Category: Romao, M J.]]
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[[Category: 2MD]]
 
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[[Category: MGD]]
 
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[[Category: MO]]
 
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[[Category: S]]
 
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[[Category: SF4]]
 
[[Category: 4fe-4]]
[[Category: 4fe-4]]
[[Category: anaerobic]]
[[Category: anaerobic]]
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[[Category: selenocysteine]]
[[Category: selenocysteine]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 15:22:40 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:49:00 2008''

Revision as of 00:49, 31 March 2008

Image:2iv2.gif


PDB ID 2iv2

Drag the structure with the mouse to rotate
, resolution 2.27Å
Sites:
Ligands: , , , , ,
Activity: Formate dehydrogenase, with EC number 1.2.1.2
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



REINTERPRETATION OF REDUCED FORM OF FORMATE DEHYDROGENASE H FROM E. COLI


Overview

Re-evaluation of the crystallographic data of the molybdenum-containing E. coli formate dehydrogenase H (Boyington et al. Science 275:1305-1308, 1997), reported in two redox states, reveals important structural differences for the formate-reduced form, with large implications for the reaction mechanism proposed in that work. We have re-refined the reduced structure with revised protocols and found substantial rearrangement in some parts of it. The original model is essentially correct but an important loop close to the molybdenum active site was mistraced, and, therefore, catalytic relevant residues were located in wrong positions. In particular selenocysteine-140, a ligand of molybdenum in the original work, and essential for catalysis, is no longer bound to the metal after reduction of the enzyme with formate. These results are incompatible with the originally proposed reaction mechanism. On the basis of our new interpretation, we have revised and proposed a new reaction mechanism, which reconciles the new X-ray model with previous biochemical and extended X-ray absorption fine structure data.

About this Structure

2IV2 is a Single protein structure of sequence from [1]. Full crystallographic information is available from OCA.

Reference

Formate-reduced E. coli formate dehydrogenase H: The reinterpretation of the crystal structure suggests a new reaction mechanism., Raaijmakers HC, Romao MJ, J Biol Inorg Chem. 2006 Oct;11(7):849-54. Epub 2006 Jul 8. PMID:16830149

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