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.


1s4d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:25, 25 October 2023) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal Structure Analysis of the S-adenosyl-L-methionine dependent uroporphyrinogen-III C-methyltransferase SUMT==
==Crystal Structure Analysis of the S-adenosyl-L-methionine dependent uroporphyrinogen-III C-methyltransferase SUMT==
-
<StructureSection load='1s4d' size='340' side='right' caption='[[1s4d]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
+
<StructureSection load='1s4d' size='340' side='right'caption='[[1s4d]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1s4d]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"pseudomonas_denitrificans"_(christensen_1903)_bergey_et_al._1923,_nom._rejic. "pseudomonas denitrificans" (christensen 1903) bergey et al. 1923, nom. rejic.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S4D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S4D FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[1s4d]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_denitrificans_(nom._rej.) Pseudomonas denitrificans (nom. rej.)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S4D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S4D FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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]] 2.7&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">COBA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=43306 "Pseudomonas denitrificans" (Christensen 1903) Bergey et al. 1923, nom. rejic.])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uroporphyrinogen-III_C-methyltransferase Uroporphyrinogen-III C-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.107 2.1.1.107] </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=1s4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s4d OCA], [https://pdbe.org/1s4d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s4d RCSB], [https://www.ebi.ac.uk/pdbsum/1s4d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s4d ProSAT]</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=1s4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s4d OCA], [http://pdbe.org/1s4d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s4d RCSB], [http://www.ebi.ac.uk/pdbsum/1s4d PDBsum]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/SUMT_PSEDE SUMT_PSEDE]] Catalyzes the methylation of both C-2 and C-7 of uroporphyrinogen III leading to precorrin-1 and precorrin-2; their oxidative esterification gives respectively factor I octamethyl ester and sirohydrochlorin.
+
[https://www.uniprot.org/uniprot/SUMT_SINSX SUMT_SINSX] Catalyzes the two successive C-2 and C-7 methylation reactions involved in the conversion of uroporphyrinogen III to precorrin-2 via the intermediate formation of precorrin-1. It is a step in the biosynthesis of both cobalamin (vitamin B12) and siroheme. Neither uroporphyrin III nor the chlorin (factor I) is a substrate of SUMT.<ref>PMID:2546914</ref>
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
-
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/s4/1s4d_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/s4/1s4d_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
</jmolCheckbox>
</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=1s4d ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
Line 33: Line 33:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Uroporphyrinogen-III C-methyltransferase]]
+
[[Category: Large Structures]]
-
[[Category: Brindley, A A]]
+
[[Category: Brindley AA]]
-
[[Category: Getzoff, E D]]
+
[[Category: Getzoff ED]]
-
[[Category: Graham, R M]]
+
[[Category: Graham RM]]
-
[[Category: Raux, E]]
+
[[Category: Raux E]]
-
[[Category: Roessner, C A]]
+
[[Category: Roessner CA]]
-
[[Category: Roper, D I]]
+
[[Category: Roper DI]]
-
[[Category: Schubert, H L]]
+
[[Category: Schubert HL]]
-
[[Category: Scott, A I]]
+
[[Category: Scott AI]]
-
[[Category: Stamford, N P.J]]
+
[[Category: Stamford NPJ]]
-
[[Category: Stroupe, M E]]
+
[[Category: Stroupe ME]]
-
[[Category: Vevodova, J]]
+
[[Category: Vevodova J]]
-
[[Category: Warren, M J]]
+
[[Category: Warren MJ]]
-
[[Category: Wilson, K S]]
+
[[Category: Wilson KS]]
-
[[Category: Cobalamin]]
+
-
[[Category: Sah]]
+
-
[[Category: Sam]]
+
-
[[Category: Tetrapyrrole biosynthesis]]
+
-
[[Category: Transferase]]
+
-
[[Category: Uroporphyrinogen-iii methyltransferase]]
+

Current revision

Crystal Structure Analysis of the S-adenosyl-L-methionine dependent uroporphyrinogen-III C-methyltransferase SUMT

PDB ID 1s4d

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1s4d"
Personal tools