This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.


Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


4y4m

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:54, 27 September 2023) (edit) (undo)
 
(One intermediate revision not shown.)
Line 3: Line 3:
<StructureSection load='4y4m' size='340' side='right'caption='[[4y4m]], [[Resolution|resolution]] 2.71&Aring;' scene=''>
<StructureSection load='4y4m' size='340' side='right'caption='[[4y4m]], [[Resolution|resolution]] 2.71&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[4y4m]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Metja Metja]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y4M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y4M FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[4y4m]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii_DSM_2661 Methanocaldococcus jannaschii DSM 2661]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y4M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y4M FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=48F:[[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]METHOXY-OXIDANYL-PHOSPHORYL]+[(2R,3R)-2,3,5-TRIS(OXIDANYL)-4-OXIDANYLIDENE-PENTYL]+HYDROGEN+PHOSPHATE'>48F</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</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]] 2.71&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4y4l|4y4l]], [[4y4n|4y4n]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=48F:[[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]METHOXY-OXIDANYL-PHOSPHORYL]+[(2R,3R)-2,3,5-TRIS(OXIDANYL)-4-OXIDANYLIDENE-PENTYL]+HYDROGEN+PHOSPHATE'>48F</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MJ0601 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243232 METJA])</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=4y4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y4m OCA], [https://pdbe.org/4y4m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y4m RCSB], [https://www.ebi.ac.uk/pdbsum/4y4m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y4m ProSAT]</span></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose_1,5-bisphosphate_isomerase Ribose 1,5-bisphosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.29 5.3.1.29] </span></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=4y4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y4m OCA], [http://pdbe.org/4y4m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y4m RCSB], [http://www.ebi.ac.uk/pdbsum/4y4m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4y4m ProSAT]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/RUBPS_METJA RUBPS_METJA]] Catalyzes the conversion of ribose 1,5-bisphosphate to ribulose 1,5-bisphosphate (RuBP), the CO(2) acceptor and substrate for RubisCO.
+
[https://www.uniprot.org/uniprot/THI4_METJA THI4_METJA] Involved in the biosynthesis of the thiazole moiety of thiamine. Catalyzes the conversion of NAD and glycine to adenosine diphosphate 5-(2-hydroxyethyl)-4-methylthiazole-2-carboxylate (ADT), an adenylated thiazole intermediate, using free sulfide as a source of sulfur.<ref>PMID:26919468</ref> <ref>PMID:26928142</ref>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
Line 26: Line 24:
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Metja]]
+
[[Category: Methanocaldococcus jannaschii DSM 2661]]
-
[[Category: Ribose 1,5-bisphosphate isomerase]]
+
[[Category: Ealick SE]]
-
[[Category: Ealick, S E]]
+
[[Category: Zhang X]]
-
[[Category: Zhang, X]]
+
-
[[Category: Biosynthetic protein]]
+
-
[[Category: Isomerase]]
+
-
[[Category: Thiazole synthase]]
+

Current revision

Thiazole synthase Thi4 from Methanocaldococcus jannaschii

PDB ID 4y4m

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools