1erz

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:06, 7 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1erz.gif|left|200px]]
 
-
<!--
+
==CRYSTAL STRUCTURE OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE WITH A NOVEL CATALYTIC FRAMEWORK COMMON TO AMIDOHYDROLASES==
-
The line below this paragraph, containing "STRUCTURE_1erz", creates the "Structure Box" on the page.
+
<StructureSection load='1erz' size='340' side='right'caption='[[1erz]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[1erz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_sp._KNK712 Agrobacterium sp. KNK712]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ERZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ERZ FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</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=1erz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1erz OCA], [https://pdbe.org/1erz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1erz RCSB], [https://www.ebi.ac.uk/pdbsum/1erz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1erz ProSAT]</span></td></tr>
-
{{STRUCTURE_1erz| PDB=1erz | SCENE= }}
+
</table>
-
 
+
== Function ==
-
'''CRYSTAL STRUCTURE OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE WITH A NOVEL CATALYTIC FRAMEWORK COMMON TO AMIDOHYDROLASES'''
+
[https://www.uniprot.org/uniprot/DCAS_AGRSK DCAS_AGRSK] The enzyme catalyzes the hydrolysis of N-carbamoyl-D-amino acids to the corresponding which are useful intermediates in the preparation of beta-lactam antibiotics. Industrial production of beta-lactam antibiotics is now being developed using this enzyme.
-
 
+
== Evolutionary Conservation ==
-
 
+
[[Image:Consurf_key_small.gif|200px|right]]
-
==Overview==
+
Check<jmol>
-
BACKGROUND: N-carbamyl-D-amino acid amidohydrolase (DCase) catalyzes the hydrolysis of N-carbamyl-D-amino acids to the corresponding D-amino acids, which are useful intermediates in the preparation of beta-lactam antibiotics. To understand the catalytic mechanism of N-carbamyl-D-amino acid hydrolysis, the substrate specificity and thermostability of the enzyme, we have determined the structure of DCase from Agrobacterium sp. strain KNK712. RESULTS: The crystal structure of DCase has been determined to 1.7 A resolution. The enzyme forms a homotetramer and each monomer consists of a variant of the alpha + beta fold. The topology of the enzyme comprises a sandwich of parallel beta sheets surrounded by two layers of alpha helices, this topology has not been observed in other amidohydrolases such as the N-terminal nucleophile (Ntn) hydrolases. CONCLUSIONS: The catalytic center could be identified and consists of Glu46, Lys126 and Cys171. Cys171 was found to be the catalytic nucleophile, and its nucleophilic character appeared to be increased through general-base activation by Glu46. DCase shows only weak sequence similarity with a family of amidohydrolases, including beta-alanine synthase, aliphatic amidases and nitrilases, but might share highly conserved residues in a novel framework, which could provide a possible explanation for the catalytic mechanism for this family of enzymes.
+
<jmolCheckbox>
-
 
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/er/1erz_consurf.spt"</scriptWhenChecked>
-
==About this Structure==
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
1ERZ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_sp. Agrobacterium sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ERZ OCA].
+
<text>to colour the structure by Evolutionary Conservation</text>
-
 
+
</jmolCheckbox>
-
==Reference==
+
</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=1erz ConSurf].
-
Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel catalytic framework common to amidohydrolases., Nakai T, Hasegawa T, Yamashita E, Yamamoto M, Kumasaka T, Ueki T, Nanba H, Ikenaka Y, Takahashi S, Sato M, Tsukihara T, Structure. 2000 Jul 15;8(7):729-37. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10903946 10903946]
+
<div style="clear:both"></div>
-
[[Category: Agrobacterium sp.]]
+
__TOC__
-
[[Category: N-carbamoyl-D-amino acid hydrolase]]
+
</StructureSection>
-
[[Category: Single protein]]
+
[[Category: Agrobacterium sp. KNK712]]
-
[[Category: Hasegawa, T.]]
+
[[Category: Large Structures]]
-
[[Category: Ikenaka, Y.]]
+
[[Category: Hasegawa T]]
-
[[Category: Kumasaka, T.]]
+
[[Category: Ikenaka Y]]
-
[[Category: Nakai, T.]]
+
[[Category: Kumasaka T]]
-
[[Category: Nanba, H.]]
+
[[Category: Nakai T]]
-
[[Category: Sato, M.]]
+
[[Category: Nanba H]]
-
[[Category: Takahashi, S.]]
+
[[Category: Sato M]]
-
[[Category: Tsukihara, T.]]
+
[[Category: Takahashi S]]
-
[[Category: Ueki, T.]]
+
[[Category: Tsukihara T]]
-
[[Category: Yamamoto, M.]]
+
[[Category: Ueki T]]
-
[[Category: Yamashita, E.]]
+
[[Category: Yamamoto M]]
-
[[Category: Four-layer sandwich]]
+
[[Category: Yamashita E]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 15:27:04 2008''
+

Current revision

CRYSTAL STRUCTURE OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE WITH A NOVEL CATALYTIC FRAMEWORK COMMON TO AMIDOHYDROLASES

PDB ID 1erz

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1erz"
Personal tools