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| - | [[Image:2z8f.jpg|left|200px]] | |
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| - | {{Structure
| + | ==The galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum in complex with lacto-N-tetraose== |
| - | |PDB= 2z8f |SIZE=350|CAPTION= <scene name='initialview01'>2z8f</scene>, resolution 1.65Å
| + | <StructureSection load='2z8f' size='340' side='right'caption='[[2z8f]], [[Resolution|resolution]] 1.65Å' scene=''> |
| - | |SITE= <scene name='pdbsite=AC1:Bgc+Binding+Site+For+Residue+A+4'>AC1</scene>, <scene name='pdbsite=AC2:Gal+Binding+Site+For+Residue+A+3'>AC2</scene>, <scene name='pdbsite=AC3:Nag+Binding+Site+For+Residue+A+2'>AC3</scene>, <scene name='pdbsite=AC4:Gal+Binding+Site+For+Residue+A+1'>AC4</scene>, <scene name='pdbsite=AC5:Bgc+Binding+Site+For+Residue+B+4'>AC5</scene>, <scene name='pdbsite=AC6:Gal+Binding+Site+For+Residue+B+3'>AC6</scene>, <scene name='pdbsite=AC7:Nag+Binding+Site+For+Residue+B+2'>AC7</scene>, <scene name='pdbsite=AC8:Gal+Binding+Site+For+Residue+B+1'>AC8</scene>, <scene name='pdbsite=AC9:Zn+Binding+Site+For+Residue+A+11'>AC9</scene>, <scene name='pdbsite=BC1:Zn+Binding+Site+For+Residue+B+12'>BC1</scene>, <scene name='pdbsite=BC2:Zn+Binding+Site+For+Residue+A+13'>BC2</scene>, <scene name='pdbsite=BC3:Zn+Binding+Site+For+Residue+B+14'>BC3</scene>, <scene name='pdbsite=BC4:Zn+Binding+Site+For+Residue+B+15'>BC4</scene>, <scene name='pdbsite=BC5:Na+Binding+Site+For+Residue+B+16'>BC5</scene>, <scene name='pdbsite=BC6:Na+Binding+Site+For+Residue+A+17'>BC6</scene>, <scene name='pdbsite=BC7:Na+Binding+Site+For+Residue+A+18'>BC7</scene>, <scene name='pdbsite=BC8:Mes+Binding+Site+For+Residue+A+21'>BC8</scene> and <scene name='pdbsite=BC9:Mes+Binding+Site+For+Residue+B+22'>BC9</scene>
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
| + | <table><tr><td colspan='2'>[[2z8f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bifidobacterium_longum Bifidobacterium longum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z8F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z8F FirstGlance]. <br> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | |DOMAIN=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2z8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z8f OCA], [https://pdbe.org/2z8f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z8f RCSB], [https://www.ebi.ac.uk/pdbsum/2z8f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z8f ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2z8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z8f OCA], [http://www.ebi.ac.uk/pdbsum/2z8f PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2z8f RCSB]</span>
| + | == Function == |
| - | }}
| + | [https://www.uniprot.org/uniprot/A8W790_BIFLN A8W790_BIFLN] |
| | + | == Evolutionary Conservation == |
| | + | [[Image:Consurf_key_small.gif|200px|right]] |
| | + | Check<jmol> |
| | + | <jmolCheckbox> |
| | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z8/2z8f_consurf.spt"</scriptWhenChecked> |
| | + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> |
| | + | <text>to colour the structure by Evolutionary Conservation</text> |
| | + | </jmolCheckbox> |
| | + | </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=2z8f ConSurf]. |
| | + | <div style="clear:both"></div> |
| | | | |
| - | '''The galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum in complex with lacto-N-tetraose'''
| + | ==See Also== |
| - | | + | *[[ABC transporter 3D structures|ABC transporter 3D structures]] |
| - | | + | __TOC__ |
| - | ==Overview== | + | </StructureSection> |
| - | A recombinant galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) from Bifidobacterium longum JCM1217 has been prepared and crystallized by the hanging-drop vapour-diffusion method using 10 mg ml(-1) purified enzyme, 0.01 M zinc sulfate, 0.1 M MES buffer pH 5.9-6.4 and 20-22%(v/v) PEG MME 550 in the presence of 5 mM disaccharide ligands. Suitable crystals grew after 10 d incubation at 293 K. The crystals belong to space group C222(1), with unit-cell parameters a = 106.3, b = 143.6, c = 114.6 A for the lacto-N-biose I complex and a = 106.4, b = 143.4, c = 115.5 A for the galacto-N-biose complex, and diffracted to 1.85 and 1.99 A resolution, respectively.
| + | |
| - | | + | |
| - | ==About this Structure==
| + | |
| - | 2Z8F is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bifidobacterium_longum Bifidobacterium longum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z8F OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Purification, crystallization and preliminary X-ray analysis of the galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum JCM1217., Wada J, Suzuki R, Fushinobu S, Kitaoka M, Wakagi T, Shoun H, Ashida H, Kumagai H, Katayama T, Yamamoto K, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2007 Sep 1;63(Pt, 9):751-3. Epub 2007 Aug 10. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17768345 17768345]
| + | |
| | [[Category: Bifidobacterium longum]] | | [[Category: Bifidobacterium longum]] |
| - | [[Category: Single protein]] | + | [[Category: Large Structures]] |
| - | [[Category: Fushinobu, S.]] | + | [[Category: Fushinobu S]] |
| - | [[Category: Katayama, T.]] | + | [[Category: Katayama T]] |
| - | [[Category: Suzuki, R.]] | + | [[Category: Suzuki R]] |
| - | [[Category: Wada, J.]] | + | [[Category: Wada J]] |
| - | [[Category: abc transporter]]
| + | |
| - | [[Category: human milk oligosacchalide]]
| + | |
| - | [[Category: mucin core-1]]
| + | |
| - | [[Category: sugar binding protein]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:19:22 2008''
| + | |
