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.


3r0g

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:05, 14 March 2024) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='3r0g' size='340' side='right'caption='[[3r0g]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='3r0g' size='340' side='right'caption='[[3r0g]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3r0g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_35395 Atcc 35395]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R0G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R0G FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3r0g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanosarcina_acetivorans Methanosarcina acetivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R0G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R0G FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</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]] 2.2&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2veb|2veb]], [[2vee|2vee]], [[3qzx|3qzx]], [[3qzz|3qzz]]</div></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MA_2883 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2214 ATCC 35395])</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=3r0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r0g OCA], [https://pdbe.org/3r0g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r0g RCSB], [https://www.ebi.ac.uk/pdbsum/3r0g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r0g ProSAT]</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=3r0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r0g OCA], [https://pdbe.org/3r0g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r0g RCSB], [https://www.ebi.ac.uk/pdbsum/3r0g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r0g ProSAT]</span></td></tr>
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q8TLY9_METAC Q8TLY9_METAC]
-
Protoglobin from Methanosarcina acetivorans C2A (MaPgb), a strictly anaerobic methanogenic Archaea, displays peculiar structural and functional properties within members of the hemoglobin superfamily. In fact, MaPgb-specific loops and a N-terminal extension (20 amino acid residues) completely bury the heme within the protein matrix. Therefore, the access of diatomic gaseous molecules to the heme is granted by two apolar tunnels reaching the heme distal site from locations at the B/G and B/E helix interfaces. The presence of two tunnels within the protein matrix could be partly responsible for the slightly biphasic ligand binding behavior. Unusually, MaPgb oxygenation is favored with respect to carbonylation. Here, the crucial role of Tyr(B10)61 and Ile(G11)149 residues, located in the heme distal site and lining the protein matrix tunnels 1 and 2, respectively, on ligand binding to the heme-Fe-atom and on distal site structural organization is reported. In particular, tunnel 1 accessibility is modulated by a complex reorganization of the Trp(B9)60 and Phe(E11)93 side-chains, triggered by mutations of the Tyr(B10)61 and Ile(G11)149 residues, and affected by the presence and type of the distal heme-bound ligand. (c) 2011 IUBMB IUBMB Life, 63(5): 287-294, 2011.
+
-
 
+
-
Structural heterogeneity and ligand gating in ferric methanosarcina acetivorans protoglobin mutants.,Pesce A, Tilleman L, Dewilde S, Ascenzi P, Coletta M, Ciaccio C, Bruno S, Moens L, Bolognesi M, Nardini M IUBMB Life. 2011 May;63(5):287-94. doi: 10.1002/iub.484. PMID:21618401<ref>PMID:21618401</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3r0g" style="background-color:#fffaf0;"></div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Atcc 35395]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Ascenzi, P]]
+
[[Category: Methanosarcina acetivorans]]
-
[[Category: Bolognesi, M]]
+
[[Category: Ascenzi P]]
-
[[Category: Bruno, S]]
+
[[Category: Bolognesi M]]
-
[[Category: Ciaccio, C]]
+
[[Category: Bruno S]]
-
[[Category: Coletta, M]]
+
[[Category: Ciaccio C]]
-
[[Category: Dewilde, S]]
+
[[Category: Coletta M]]
-
[[Category: Moens, L]]
+
[[Category: Dewilde S]]
-
[[Category: Nardini, M]]
+
[[Category: Moens L]]
-
[[Category: Pesce, A]]
+
[[Category: Nardini M]]
-
[[Category: Tilleman, L]]
+
[[Category: Pesce A]]
-
[[Category: Archaea protein]]
+
[[Category: Tilleman L]]
-
[[Category: Globin fold]]
+
-
[[Category: Methanogenesis]]
+
-
[[Category: Oxygen binding]]
+
-
[[Category: Oxygen transport]]
+
-
[[Category: Protoglobin]]
+

Current revision

3D Structure of Ferric Methanosarcina Acetivorans Protoglobin I149F mutant in Aquomet form

PDB ID 3r0g

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/3r0g"
Personal tools