2fdn
From Proteopedia
(New page: 200px<br /><applet load="2fdn" size="450" color="white" frame="true" align="right" spinBox="true" caption="2fdn, resolution 0.94Å" /> '''2[4FE-4S] FERREDOXIN...) |
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| - | [[Image:2fdn.jpg|left|200px]]<br /><applet load="2fdn" size=" | + | [[Image:2fdn.jpg|left|200px]]<br /><applet load="2fdn" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="2fdn, resolution 0.94Å" /> | caption="2fdn, resolution 0.94Å" /> | ||
'''2[4FE-4S] FERREDOXIN FROM CLOSTRIDIUM ACIDI-URICI'''<br /> | '''2[4FE-4S] FERREDOXIN FROM CLOSTRIDIUM ACIDI-URICI'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The crystal structure of the 2[4Fe-4S] ferredoxin from Clostridium | + | The crystal structure of the 2[4Fe-4S] ferredoxin from Clostridium acidurici has been solved using X-ray diffraction data extending to atomic resolution, 0.94 A, recorded at 100 K. The model was refined with anisotropic representation of atomic displacement parameters for all non-hydrogen atoms and with hydrogens riding on their parent atoms. Stereochemical restraints were applied to the protein chain but not to the iron-sulfur clusters. The final R factor is 10.03 % for all data. Inversion of the final least-squares matrix allowed direct estimation of the errors of individual parameters. The estimated errors in positions for protein main chain atoms are below 0.02 A and about 0.003 A for the heavier [4Fe-4S] cluster atoms. Significant differences between the stereochemistry of the two clusters and distortion of both of them from ideal Td tetrahedral symmetry can be defined in detail at this level of accuracy. Regions of alternative conformations include not only protein side chains but also two regions of the main chain. One such region is the loop of residues 25-29, which was highly disordered in the room temperature structure. |
==About this Structure== | ==About this Structure== | ||
| - | 2FDN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Clostridium_acidurici Clostridium acidurici] with SF4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 2FDN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Clostridium_acidurici Clostridium acidurici] with <scene name='pdbligand=SF4:'>SF4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FDN OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Dauter, Z.]] | [[Category: Dauter, Z.]] | ||
[[Category: Meyer, J.]] | [[Category: Meyer, J.]] | ||
| - | [[Category: Moulis, J | + | [[Category: Moulis, J M.]] |
| - | [[Category: Sieker, L | + | [[Category: Sieker, L C.]] |
| - | [[Category: Wilson, K | + | [[Category: Wilson, K S.]] |
[[Category: SF4]] | [[Category: SF4]] | ||
[[Category: 4fe-4s]] | [[Category: 4fe-4s]] | ||
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[[Category: iron-sulfur]] | [[Category: iron-sulfur]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:20:20 2008'' |
Revision as of 15:20, 21 February 2008
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2[4FE-4S] FERREDOXIN FROM CLOSTRIDIUM ACIDI-URICI
Overview
The crystal structure of the 2[4Fe-4S] ferredoxin from Clostridium acidurici has been solved using X-ray diffraction data extending to atomic resolution, 0.94 A, recorded at 100 K. The model was refined with anisotropic representation of atomic displacement parameters for all non-hydrogen atoms and with hydrogens riding on their parent atoms. Stereochemical restraints were applied to the protein chain but not to the iron-sulfur clusters. The final R factor is 10.03 % for all data. Inversion of the final least-squares matrix allowed direct estimation of the errors of individual parameters. The estimated errors in positions for protein main chain atoms are below 0.02 A and about 0.003 A for the heavier [4Fe-4S] cluster atoms. Significant differences between the stereochemistry of the two clusters and distortion of both of them from ideal Td tetrahedral symmetry can be defined in detail at this level of accuracy. Regions of alternative conformations include not only protein side chains but also two regions of the main chain. One such region is the loop of residues 25-29, which was highly disordered in the room temperature structure.
About this Structure
2FDN is a Single protein structure of sequence from Clostridium acidurici with as ligand. Full crystallographic information is available from OCA.
Reference
Atomic resolution (0.94 A) structure of Clostridium acidurici ferredoxin. Detailed geometry of [4Fe-4S] clusters in a protein., Dauter Z, Wilson KS, Sieker LC, Meyer J, Moulis JM, Biochemistry. 1997 Dec 23;36(51):16065-73. PMID:9405040
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