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5w71

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Revision as of 09:47, 1 January 2020

X-ray structure of BtrR from Bacillus circulans in the presence of the 2-DOS external aldimine

Structural highlights

5w71 is a 2 chain structure with sequence from Atcc 24. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Related:	5w70
Gene:	btrR, btrS (ATCC 24)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[GLDSA_BACCI] Catalyzes the PLP-dependent transamination of 2-deoxy-scyllo-inosose (DOI) to form 2-deoxy-scyllo-inosamine (DOIA) using L-glutamine as the amino donor. Also catalyzes the transamination of 3-amino-2,3-dideoxy-scyllo-inosose (amino-DOI) into 2-deoxystreptamine (DOS). Is also able to catalyze the transamination of scyllo-inosose to form scyllo-inosamine, although this reaction may be not physiological.^[1] ^[2] ^[3]

Publication Abstract from PubMed

Aminoglycoside antibiotics represent a classical group of antimicrobials first discovered in the 1940s. Due to their ototoxic and nephrotoxic side effects, they are typically only used against Gram negative bacteria which have become resistant to other therapeutics. One family of aminoglycosides includes such compounds as butirosin, ribostamycin, neomycin, and kanamycin, amongst others. The common theme in these antibiotics is that they are constructed around a chemically stable aminocyclitol unit referred to as 2-deoxystreptamine (2-DOS). Four enzymes are required for the in vivo production of 2-DOS. Here, we report the structure of RbmB from Streptomyces ribosidificus, which is a pyridoxal 5'-phosphate dependent enzyme that catalyzes two of the required steps in 2-DOS formation by functioning on distinct substrates. For this analysis, the structure of the external aldimine form of RbmB with 2-DOS was determined to 2.1 A resolution. In addition, the structure of a similar enzyme, BtrR from Bacillus circulans, was also determined to 2.1 A resolution in the same external aldimine form. These two structures represent the first detailed molecular descriptions of the active sites for those aminotransferases involved in 2-DOS production. Given the fact that the 2-DOS unit is widespread amongst aminoglycoside antibiotics, the data presented herein provide new molecular insight into the biosynthesis of these sugar-based drugs.

The structure of RbmB from Streptomyces ribosidificus, an aminotransferase involved in the biosynthesis of ribostamycin.,Zachman-Brockmeyer TR, Thoden JB, Holden HM Protein Sci. 2017 Sep;26(9):1886-1892. doi: 10.1002/pro.3221. Epub 2017 Jul 23. PMID:28685903^[4]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Tamegai H, Nango E, Kuwahara M, Yamamoto H, Ota Y, Kuriki H, Eguchi T, Kakinuma K. Identification of L-glutamine: 2-deoxy-scyllo-inosose aminotransferase required for the biosynthesis of butirosin in Bacillus circulans. J Antibiot (Tokyo). 2002 Aug;55(8):707-14. PMID:12374384
↑ Huang F, Li Y, Yu J, Spencer JB. Biosynthesis of aminoglycoside antibiotics: cloning, expression and characterisation of an aminotransferase involved in the pathway to 2-deoxystreptamine. Chem Commun (Camb). 2002 Dec 7;(23):2860-1. PMID:12478783
↑ Yokoyama K, Kudo F, Kuwahara M, Inomata K, Tamegai H, Eguchi T, Kakinuma K. Stereochemical recognition of doubly functional aminotransferase in 2-deoxystreptamine biosynthesis. J Am Chem Soc. 2005 Apr 27;127(16):5869-74. PMID:15839685 doi:http://dx.doi.org/10.1021/ja0445948
↑ Zachman-Brockmeyer TR, Thoden JB, Holden HM. The structure of RbmB from Streptomyces ribosidificus, an aminotransferase involved in the biosynthesis of ribostamycin. Protein Sci. 2017 Sep;26(9):1886-1892. doi: 10.1002/pro.3221. Epub 2017 Jul 23. PMID:28685903 doi:http://dx.doi.org/10.1002/pro.3221

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5w71"

@@ Line 1: / Line 1: @@
 ==X-ray structure of BtrR from Bacillus circulans in the presence of the 2-DOS external aldimine==
-<StructureSection load='5w71' size='340' side='right' caption='[[5w71]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+<StructureSection load='5w71' size='340' side='right'caption='[[5w71]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5w71]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W71 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W71 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5w71]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_24 Atcc 24]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W71 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W71 FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9YM:[4-({[(1R,2S,3S,4R,5S)-5-amino-2,3,4-trihydroxycyclohexyl]amino}methyl)-5-hydroxy-6-methylpyridin-3-yl]methyl+dihydrogen+phosphate'>9YM</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5w70|5w70]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">btrR, btrS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1397 ATCC 24])</td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5w71 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w71 OCA], [http://pdbe.org/5w71 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w71 RCSB], [http://www.ebi.ac.uk/pdbsum/5w71 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w71 ProSAT]</span></td></tr>
 </table>
@@ Line 23: / Line 24: @@
 __TOC__
 </StructureSection>
+[[Category: Atcc 24]]
+[[Category: Large Structures]]
 [[Category: Holden, H M]]
 [[Category: Thoden, J B]]

5w71

From Proteopedia

Revision as of 09:47, 1 January 2020

X-ray structure of BtrR from Bacillus circulans in the presence of the 2-DOS external aldimine

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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