1sf2: Difference between revisions

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New page: left|200px<br /><applet load="1sf2" size="450" color="white" frame="true" align="right" spinBox="true" caption="1sf2, resolution 2.4Å" /> '''Structure of E. coli ...
 
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[[Image:1sf2.jpg|left|200px]]<br /><applet load="1sf2" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1sf2, resolution 2.4&Aring;" />
'''Structure of E. coli gamma-aminobutyrate aminotransferase'''<br />


==Overview==
==Structure of E. coli gamma-aminobutyrate aminotransferase==
The X-ray crystal structures of Escherichia coli gamma-aminobutyrate, aminotransferase unbound and bound to the inhibitor aminooxyacetate are, reported. The enzyme crystallizes from ammonium sulfate solutions in the, P3(2)21 space group with a tetramer in the asymmetric unit. Diffraction, data were collected to 2.4 A resolution for the unliganded enzyme and 1.9, A resolution for the aminooxyacetate complex. The overall structure of the, enzyme is similar to those of other aminotransferase subgroup II enzymes., The ability of gamma-aminobutyrate aminotransferase to act on primary, amine substrates (gamma-aminobutyrate) in the first half-reaction and, alpha-amino acids in the second is proposed to be enabled by the presence, of Glu211, whose side chain carboxylate alternates between interactions, with Arg398 in the primary amine half-reaction and an alternative binding, site in the alpha-amino acid half-reaction, in which Arg398 binds the, substrate alpha-carboxylate. The specificity for a carboxylate group on, the substrate side chain is due primarily to the presence of Arg141, but, also requires substantial local main chain rearrangements relative to the, structurally homologous enzyme dialkylglycine decarboxylase, which is, specific for small alkyl side chains. No iron-sulfur cluster is found in, the bacterial enzyme as was found in the pig enzyme [Storici, P., De, Biase, D., Bossa, F., Bruno, S., Mozzarelli, A., Peneff, C., Silverman, R., B., and Schirmer, T. (2004) J. Biol. Chem. 279, 363-73.]. The binding of, aminooxyacetate causes remarkably small changes in the active site, structure, and no large domain movements are observed. Active site, structure comparisons with pig gamma-aminobutyrate aminotransferase and, dialkylglycine decarboxylase are discussed.
<StructureSection load='1sf2' size='340' side='right'caption='[[1sf2]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1sf2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SF2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SF2 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]] 2.4&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</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'>[https://proteopedia.org/fgij/fg.htm?mol=1sf2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sf2 OCA], [https://pdbe.org/1sf2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sf2 RCSB], [https://www.ebi.ac.uk/pdbsum/1sf2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sf2 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/GABT_ECOLI GABT_ECOLI] Catalyzes the transfer of the amino group from gamma-aminobutyrate (GABA) to alpha-ketoglutarate (KG) to yield succinic semialdehyde (SSA).<ref>PMID:20639325</ref>
== 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/sf/1sf2_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=1sf2 ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1SF2 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with SO4, PLP and EDO as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/4-aminobutyrate_transaminase 4-aminobutyrate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.19 2.6.1.19] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1SF2 OCA].
*[[Aminotransferase 3D structures|Aminotransferase 3D structures]]
 
== References ==
==Reference==
<references/>
Crystal structures of unbound and aminooxyacetate-bound Escherichia coli gamma-aminobutyrate aminotransferase., Liu W, Peterson PE, Carter RJ, Zhou X, Langston JA, Fisher AJ, Toney MD, Biochemistry. 2004 Aug 31;43(34):10896-905. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15323550 15323550]
__TOC__
[[Category: 4-aminobutyrate transaminase]]
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Carter, R.J.]]
[[Category: Carter RJ]]
[[Category: Fisher, A.J.]]
[[Category: Fisher AJ]]
[[Category: Langston, J.A.]]
[[Category: Langston JA]]
[[Category: Liu, W.]]
[[Category: Liu W]]
[[Category: Peterson, P.E.]]
[[Category: Peterson PE]]
[[Category: Toney, M.D.]]
[[Category: Toney MD]]
[[Category: Zhou, X.]]
[[Category: Zhou X]]
[[Category: EDO]]
[[Category: PLP]]
[[Category: SO4]]
[[Category: aminotransferase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:20:00 2007''

Latest revision as of 11:31, 1 May 2024

Structure of E. coli gamma-aminobutyrate aminotransferaseStructure of E. coli gamma-aminobutyrate aminotransferase

Structural highlights

1sf2 is a 4 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.4Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

GABT_ECOLI Catalyzes the transfer of the amino group from gamma-aminobutyrate (GABA) to alpha-ketoglutarate (KG) to yield succinic semialdehyde (SSA).[1]

Evolutionary Conservation

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

See Also

References

  1. ↑ Kurihara S, Kato K, Asada K, Kumagai H, Suzuki H. A putrescine-inducible pathway comprising PuuE-YneI in which gamma-aminobutyrate is degraded into succinate in Escherichia coli K-12. J Bacteriol. 2010 Sep;192(18):4582-91. doi: 10.1128/JB.00308-10. Epub 2010 Jul, 16. PMID:20639325 doi:http://dx.doi.org/10.1128/JB.00308-10

1sf2, resolution 2.40Å

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