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| | ==The structure of the oligopeptide-binding protein, AppA, from Bacillus subtilis in complex with a nonapeptide.== | | ==The structure of the oligopeptide-binding protein, AppA, from Bacillus subtilis in complex with a nonapeptide.== |
| - | <StructureSection load='1xoc' size='340' side='right' caption='[[1xoc]], [[Resolution|resolution]] 1.55Å' scene=''> | + | <StructureSection load='1xoc' size='340' side='right'caption='[[1xoc]], [[Resolution|resolution]] 1.55Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[1xoc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XOC FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[1xoc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XOC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XOC FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.55Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">appA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=1xoc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xoc OCA], [http://pdbe.org/1xoc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xoc RCSB], [http://www.ebi.ac.uk/pdbsum/1xoc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xoc 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=1xoc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xoc OCA], [https://pdbe.org/1xoc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xoc RCSB], [https://www.ebi.ac.uk/pdbsum/1xoc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xoc ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/APPA_BACSU APPA_BACSU]] This protein is a component of an oligopeptide permease, a binding protein-dependent transport system. This APP system can completely substitute for the OPP system in both sporulation and genetic competence. AppA can bind and transport tetra- and pentapeptides but not tripeptides. | + | [https://www.uniprot.org/uniprot/APPA_BACSU APPA_BACSU] This protein is a component of an oligopeptide permease, a binding protein-dependent transport system. This APP system can completely substitute for the OPP system in both sporulation and genetic competence. AppA can bind and transport tetra- and pentapeptides but not tripeptides. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | ==See Also== | | ==See Also== |
| - | *[[Oligopeptide-binding protein|Oligopeptide-binding protein]] | + | *[[ABC transporter 3D structures|ABC transporter 3D structures]] |
| | + | *[[AppA protein BLUF domain|AppA protein BLUF domain]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Vibrio subtilis ehrenberg 1835]] | + | [[Category: Bacillus subtilis]] |
| - | [[Category: Blagova, E V]] | + | [[Category: Large Structures]] |
| - | [[Category: Brannigan, J A]] | + | [[Category: Blagova EV]] |
| - | [[Category: Levdikov, V M]] | + | [[Category: Brannigan JA]] |
| - | [[Category: Vagin, A A]] | + | [[Category: Levdikov VM]] |
| - | [[Category: Wilkinson, A J]] | + | [[Category: Vagin AA]] |
| - | [[Category: Wright, L]] | + | [[Category: Wilkinson AJ]] |
| - | [[Category: Appa]]
| + | [[Category: Wright L]] |
| - | [[Category: Bacillus subtili]]
| + | |
| - | [[Category: Oligopeptide]]
| + | |
| - | [[Category: Transport]]
| + | |
| - | [[Category: Transport protein]]
| + | |
| Structural highlights
Function
APPA_BACSU This protein is a component of an oligopeptide permease, a binding protein-dependent transport system. This APP system can completely substitute for the OPP system in both sporulation and genetic competence. AppA can bind and transport tetra- and pentapeptides but not tripeptides.
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Besides their role as a source of amino acids for Bacillus subtilis, exogenous peptides play important roles in the signalling pathways leading to the development of competence and sporulation. B.subtilis has three peptide transport systems all belonging to the ATP-binding cassette family, a dipeptide permease (Dpp) and two oligopeptide permeases (Opp and App) with overlapping specificity. These comprise a membrane-spanning channel through which the peptide passes, a pair of ATPases which couple ATP hydrolysis to peptide translocation and a lipid-modified, membrane-anchored extracellular "binding-protein" that serves as the receptor for the system. Here, we present the crystal structure of a soluble form of the peptide-binding protein AppA, which has been solved to 1.6 A spacing by anomalous scattering and molecular replacement methods. The structure reveals a protein made of two distinct lobes with a topology similar to those of DppA from Escherichia coli and OppA from Salmonella typhimurium. Examination of the interlobe region reveals an enlarged pocket, containing electron density defining a nonapeptide ligand. The main-chain of the peptide is well defined and makes a series of polar contacts with the protein including salt-bridges at both its termini. The side-chain density is ambiguous in places, consistent with the interpretation that a population of peptides is bound, whose average electron density resembles the amino acid sequence N-VDSKNTSSW-C.
The structure of the oligopeptide-binding protein, AppA, from Bacillus subtilis in complex with a nonapeptide.,Levdikov VM, Blagova EV, Brannigan JA, Wright L, Vagin AA, Wilkinson AJ J Mol Biol. 2005 Jan 28;345(4):879-92. PMID:15588833[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Levdikov VM, Blagova EV, Brannigan JA, Wright L, Vagin AA, Wilkinson AJ. The structure of the oligopeptide-binding protein, AppA, from Bacillus subtilis in complex with a nonapeptide. J Mol Biol. 2005 Jan 28;345(4):879-92. PMID:15588833 doi:10.1016/j.jmb.2004.10.089
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