4h2y: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 ==Crystal structure of engineered Bradyrhizobium japonicum glycine:[carrier protein] ligase complexed with carrier protein from Agrobacterium tumefaciens and ATP==
-<StructureSection load='4h2y' size='340' side='right' caption='[[4h2y]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+<StructureSection load='4h2y' size='340' side='right'caption='[[4h2y]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4h2y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrt5 Agrt5] and [http://en.wikipedia.org/wiki/Bradu Bradu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H2Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H2Y FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4h2y]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58] and [https://en.wikipedia.org/wiki/Bradyrhizobium_diazoefficiens_USDA_110 Bradyrhizobium diazoefficiens USDA 110]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H2Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H2Y FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNS:4-PHOSPHOPANTETHEINE'>PNS</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNS:4-PHOSPHOPANTETHEINE'>PNS</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3mf2|3mf2]], [[4h2s|4h2s]], [[4h2t|4h2t]], [[4h2u|4h2u]], [[4h2v|4h2v]], [[4h2w|4h2w]], [[4h2x|4h2x]]</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=4h2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h2y OCA], [https://pdbe.org/4h2y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h2y RCSB], [https://www.ebi.ac.uk/pdbsum/4h2y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h2y ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bll0957 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224911 BRADU]), AGR_C_4658, Atu2571 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRT5])</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=4h2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h2y OCA], [http://pdbe.org/4h2y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4h2y RCSB], [http://www.ebi.ac.uk/pdbsum/4h2y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4h2y ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/AACL1_BRAJA AACL1_BRAJA]] Catalyzes the ATP-dependent activation of L-glycine and its transfer to the phosphopantetheine prosthetic group covalently attached to the vicinal carrier protein bsr0959 of yet unknown function. May participate in nonribosomal peptide synthesis or related processes. L-alanine is a poor substrate whereas L-serine or D-amino acids are not substrates for ATP-dependent activation. Does not display tRNA aminoacylation activity. [[http://www.uniprot.org/uniprot/AACP_AGRT5 AACP_AGRT5]] Aminoacyl carrier protein. Can be charged with L-alanine, L-glycine or L-serine, via the formation of a thioester bond between the amino acid and the 4'-phosphopantetheinyl prosthetic group, catalyzed by the Atu2573 ligase.
+[https://www.uniprot.org/uniprot/AACL1_BRADU AACL1_BRADU] Catalyzes the ATP-dependent activation of L-glycine and its transfer to the phosphopantetheine prosthetic group covalently attached to the vicinal carrier protein bsr0959 of yet unknown function. May participate in nonribosomal peptide synthesis or related processes. L-alanine is a poor substrate whereas L-serine or D-amino acids are not substrates for ATP-dependent activation. Does not display tRNA aminoacylation activity.<ref>PMID:20663952</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Agrt5]]
+[[Category: Agrobacterium fabrum str. C58]]
-[[Category: Bradu]]
+[[Category: Bradyrhizobium diazoefficiens USDA 110]]
-[[Category: Ivic, N]]
+[[Category: Large Structures]]
-[[Category: Luic, M]]
+[[Category: Ivic N]]
-[[Category: Mocibob, M]]
+[[Category: Luic M]]
-[[Category: Weygand-Durasevic, I]]
+[[Category: Mocibob M]]
-[[Category: Aminoacyl-trna synthetase]]
+[[Category: Weygand-Durasevic I]]
-[[Category: Atp binding]]
-[[Category: Carrier protein]]
-[[Category: Glycine binding]]
-[[Category: Ligase]]
-[[Category: Seryl-trna synthetase]]