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| | ==Structure of the periplasmic binding protein (PBP) NocT from Agrobacterium tumefaciens C58 in complex with noroctopinic acid.== | | ==Structure of the periplasmic binding protein (PBP) NocT from Agrobacterium tumefaciens C58 in complex with noroctopinic acid.== |
| - | <StructureSection load='5otc' size='340' side='right' caption='[[5otc]], [[Resolution|resolution]] 2.20Å' scene=''> | + | <StructureSection load='5otc' size='340' side='right'caption='[[5otc]], [[Resolution|resolution]] 2.20Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5otc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrfc Agrfc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OTC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OTC FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5otc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OTC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OTC FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AQK:(2~{S})-5-azanyl-2-(2-hydroxy-2-oxoethylamino)pentanoic+acid'>AQK</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">nocT, Atu6027, AGR_pTi_67 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRFC])</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AQK:(2~{S})-5-azanyl-2-(2-hydroxy-2-oxoethylamino)pentanoic+acid'>AQK</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></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=5otc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5otc OCA], [http://pdbe.org/5otc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5otc RCSB], [http://www.ebi.ac.uk/pdbsum/5otc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5otc ProSAT]</span></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=5otc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5otc OCA], [https://pdbe.org/5otc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5otc RCSB], [https://www.ebi.ac.uk/pdbsum/5otc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5otc ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/NOCT_AGRFC NOCT_AGRFC]] Component of the nopaline active transport system probably consisting of four subunits: Q, M, P and T. This system is also capable of transporting octopine provided that catabolic functions are induced with nopaline. | + | [https://www.uniprot.org/uniprot/NOCT_AGRFC NOCT_AGRFC] Component of the nopaline active transport system probably consisting of four subunits: Q, M, P and T. This system is also capable of transporting octopine provided that catabolic functions are induced with nopaline. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Agrfc]]
| + | [[Category: Agrobacterium fabrum str. C58]] |
| - | [[Category: Morera, S]]
| + | [[Category: Large Structures]] |
| - | [[Category: Vigouroux, A]]
| + | [[Category: Morera S]] |
| - | [[Category: Agrobacterium tumefacien]] | + | [[Category: Vigouroux A]] |
| - | [[Category: Arginine]] | + | |
| - | [[Category: Bacterial]] | + | |
| - | [[Category: Bacterial protein]] | + | |
| - | [[Category: Dna]]
| + | |
| - | [[Category: Gene expression regulation]]
| + | |
| - | [[Category: Gene]]
| + | |
| - | [[Category: Ligand]]
| + | |
| - | [[Category: Plant tumor]]
| + | |
| - | [[Category: Plasmid]]
| + | |
| - | [[Category: Protein binding]]
| + | |
| Structural highlights
5otc is a 2 chain structure with sequence from Agrobacterium fabrum str. C58. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | X-ray diffraction, Resolution 2.2Å |
| Ligands: | , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
NOCT_AGRFC Component of the nopaline active transport system probably consisting of four subunits: Q, M, P and T. This system is also capable of transporting octopine provided that catabolic functions are induced with nopaline.
Publication Abstract from PubMed
Agrobacterium pathogens of octopine- and nopaline-types force host plants to produce either octopine or nopaline compounds, which they use as nutrients. Two Agrobacterium ABC-transporters and their cognate periplasmic binding proteins (PBPs) OccJ and NocT import octopine and nopaline/octopine, respectively. Here, we show that both octopine transport and degradation confer a selective advantage to octopine-type A. tumefaciens when it colonizes plants. We report the X-ray structures of the unliganded PBP OccJ and its complex with octopine as well as a structural comparison with NocT and the related PBP LAO from Salmonella enterica, which binds amino acids (lysine, arginine and ornithine). We investigated the specificity of OccJ, NocT and LAO using several ligands such as amino acids, octopine, nopaline and octopine analogues. OccJ displays a high selectivity and nanomolar range affinity for octopine. Altogether, the structural and affinity data allowed to define an octopine binding signature in PBPs and to construct a OccJ mutant impaired in octopine binding, a selective octopine-binding NocT and a non-selective octopine-binding LAO by changing one single residue in these PBPs. We proposed the PBP OccJ as a major trait in the ecological specialization of octopine-type Agrobacterium pathogens when they colonize and exploit the plant host.
Structural basis for high specificity of octopine binding in the plant pathogen Agrobacterium tumefaciens.,Vigouroux A, El Sahili A, Lang J, Aumont-Nicaise M, Dessaux Y, Faure D, Morera S Sci Rep. 2017 Dec 21;7(1):18033. doi: 10.1038/s41598-017-18243-8. PMID:29269740[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Vigouroux A, El Sahili A, Lang J, Aumont-Nicaise M, Dessaux Y, Faure D, Morera S. Structural basis for high specificity of octopine binding in the plant pathogen Agrobacterium tumefaciens. Sci Rep. 2017 Dec 21;7(1):18033. doi: 10.1038/s41598-017-18243-8. PMID:29269740 doi:http://dx.doi.org/10.1038/s41598-017-18243-8
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