1n13: Difference between revisions
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|PDB= 1n13 |SIZE=350|CAPTION= <scene name='initialview01'>1n13</scene>, resolution 1.40Å | |PDB= 1n13 |SIZE=350|CAPTION= <scene name='initialview01'>1n13</scene>, resolution 1.40Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand=AG2:AGMATINE'>AG2</scene> | |LIGAND= <scene name='pdbligand=AG2:AGMATINE'>AG2</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene> | ||
|ACTIVITY= [http://en.wikipedia.org/wiki/Arginine_decarboxylase Arginine decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.19 4.1.1.19] | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Arginine_decarboxylase Arginine decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.19 4.1.1.19] </span> | ||
|GENE= MJ0316 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 Methanocaldococcus jannaschii]) | |GENE= MJ0316 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 Methanocaldococcus jannaschii]) | ||
|DOMAIN= | |||
|RELATEDENTRY=[[1mt1|1MT1]], [[1n2m|1n2m]] | |||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1n13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n13 OCA], [http://www.ebi.ac.uk/pdbsum/1n13 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1n13 RCSB]</span> | |||
}} | }} | ||
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[[Category: Tolbert, W D.]] | [[Category: Tolbert, W D.]] | ||
[[Category: White, R H.]] | [[Category: White, R H.]] | ||
[[Category: agmatine]] | [[Category: agmatine]] | ||
[[Category: arginine]] | [[Category: arginine]] | ||
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[[Category: pyruvoyl group]] | [[Category: pyruvoyl group]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:23:55 2008'' | ||
Revision as of 22:23, 30 March 2008
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| , resolution 1.40Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , | ||||||
| Gene: | MJ0316 (Methanocaldococcus jannaschii) | ||||||
| Activity: | Arginine decarboxylase, with EC number 4.1.1.19 | ||||||
| Related: | 1MT1, 1n2m
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
The Crystal Structure of Pyruvoyl-dependent Arginine Decarboxylase from Methanococcus jannashii
OverviewOverview
The three-dimensional structure of pyruvoyl-dependent arginine decarboxylase from Methanococcus jannaschii was determined at 1.4 A resolution. The pyruvoyl group of arginine decarboxylase is generated by an autocatalytic internal serinolysis reaction at Ser53 in the proenzyme resulting in two polypeptide chains. The structure of the nonprocessing S53A mutant was also determined. The active site of the processed enzyme unexpectedly contained the reaction product agmatine. The crystal structure confirms that arginine decarboxylase is a homotrimer. The protomer fold is a four-layer alphabetabetaalpha sandwich with topology similar to pyruvoyl-dependent histidine decarboxylase. Highly conserved residues Asn47, Ser52, Ser53, Ile54, and Glu109 are proposed to play roles in the self-processing reaction. Agmatine binding residues include the C terminus of the beta chain (Ser52) from one protomer and the Asp35 side chain and the Gly44 and Val46 carbonyl oxygen atoms from an adjacent protomer. Glu109 is proposed to play a catalytic role in the decarboxylation reaction.
About this StructureAbout this Structure
1N13 is a Protein complex structure of sequences from Methanocaldococcus jannaschii. Full crystallographic information is available from OCA.
ReferenceReference
Pyruvoyl-dependent arginine decarboxylase from Methanococcus jannaschii: crystal structures of the self-cleaved and S53A proenzyme forms., Tolbert WD, Graham DE, White RH, Ealick SE, Structure. 2003 Mar;11(3):285-94. PMID:12623016
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