2k7i: Difference between revisions

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 ==Solution NMR structure of protein ATU0232 from AGROBACTERIUM TUMEFACIENS. Northeast Structural Genomics Consortium (NESG) target AtT3. Ontario Center for Structural Proteomics target ATC0223.==
-<StructureSection load='2k7i' size='340' side='right' caption='[[2k7i]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='2k7i' size='340' side='right'caption='[[2k7i]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2k7i]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrt5 Agrt5]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K7I OCA]. <br>
+<table><tr><td colspan='2'>[[2k7i]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K7I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K7I FirstGlance]. <br>
-</td></tr><tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Atu0232, AGR_C_390 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRT5])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2k7i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k7i OCA], [https://pdbe.org/2k7i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k7i RCSB], [https://www.ebi.ac.uk/pdbsum/2k7i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k7i ProSAT], [https://www.topsan.org/Proteins/NESGC/2k7i TOPSAN]</span></td></tr>
-<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2k7i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k7i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k7i RCSB], [http://www.ebi.ac.uk/pdbsum/2k7i PDBsum], [http://www.topsan.org/Proteins/NESGC/2k7i TOPSAN]</span></td></tr>
+</table>
-<table>
+== Function ==
+[https://www.uniprot.org/uniprot/Y232_AGRFC Y232_AGRFC]
 == 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/k7/2k7i_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k7/2k7i_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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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=2k7i ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The quality of protein structures determined by nuclear magnetic resonance (NMR) spectroscopy is contingent on the number and quality of experimentally-derived resonance assignments, distance and angular restraints. Two key features of protein NMR data have posed challenges for the routine and automated structure determination of small to medium sized proteins; (1) spectral resolution - especially of crowded nuclear Overhauser effect spectroscopy (NOESY) spectra, and (2) the reliance on a continuous network of weak scalar couplings as part of most common assignment protocols. In order to facilitate NMR structure determination, we developed a semi-automated strategy that utilizes non-uniform sampling (NUS) and multidimensional decomposition (MDD) for optimal data collection and processing of selected, high resolution multidimensional NMR experiments, combined it with an ABACUS protocol for sequential and side chain resonance assignments, and streamlined this procedure to execute structure and refinement calculations in CYANA and CNS, respectively. Two graphical user interfaces (GUIs) were developed to facilitate efficient analysis and compilation of the data and to guide automated structure determination. This integrated method was implemented and refined on over 30 high quality structures of proteins ranging from 5.5 to 16.5 kDa in size.
-A novel strategy for NMR resonance assignment and protein structure determination.,Lemak A, Gutmanas A, Chitayat S, Karra M, Fares C, Sunnerhagen M, Arrowsmith CH J Biomol NMR. 2011 Jan;49(1):27-38. Epub 2010 Dec 14. PMID:21161328<ref>PMID:21161328</ref>
-From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-</div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: Agrt5]]
+[[Category: Agrobacterium fabrum str. C58]]
-[[Category: Arrowsmith, C.]]
+[[Category: Large Structures]]
-[[Category: Bansal, S.]]
+[[Category: Arrowsmith C]]
-[[Category: Lemak, A.]]
+[[Category: Bansal S]]
-[[Category: Montelione, G T.]]
+[[Category: Lemak A]]
-[[Category: NESG, Northeast Structural Genomics Consortium.]]
+[[Category: Montelione GT]]
-[[Category: Prestegard, J.]]
+[[Category: Prestegard J]]
-[[Category: Semesi, A.]]
+[[Category: Semesi A]]
-[[Category: Srisailam, S.]]
+[[Category: Srisailam S]]
-[[Category: Yee, A.]]
+[[Category: Yee A]]
-[[Category: Nesg]]
-[[Category: Northeast structural genomics consortium]]
-[[Category: Protein of unknown function]]
-[[Category: Protein structure initiative]]
-[[Category: Structural genomic]]
-[[Category: Swapped dimer. psi2]]
-[[Category: Unknown function]]