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.


3cd6

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:34, 21 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3cd6.png|left|200px]]
 
-
<!--
+
==Co-cystal of large Ribosomal Subunit mutant G2616A with CC-Puromycin==
-
The line below this paragraph, containing "STRUCTURE_3cd6", creates the "Structure Box" on the page.
+
<StructureSection load='3cd6' size='340' side='right'caption='[[3cd6]], [[Resolution|resolution]] 2.75&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[3cd6]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Haloarcula_marismortui Haloarcula marismortui]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CD6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CD6 FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.75&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1MA:6-HYDRO-1-METHYLADENOSINE-5-MONOPHOSPHATE'>1MA</scene>, <scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=OMU:O2-METHYLURIDINE+5-MONOPHOSPHATE'>OMU</scene>, <scene name='pdbligand=PPU:PUROMYCIN-5-MONOPHOSPHATE'>PPU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</scene></td></tr>
-
{{STRUCTURE_3cd6| PDB=3cd6 | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3cd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cd6 OCA], [https://pdbe.org/3cd6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cd6 RCSB], [https://www.ebi.ac.uk/pdbsum/3cd6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cd6 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RL22_HALMA RL22_HALMA] This protein binds specifically to 23S rRNA. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).[HAMAP-Rule:MF_01331] Contacts all 6 domains of the 23S rRNA, helping stabilize their relative orientation. An extended beta-hairpin in the C-terminus forms part of the polypeptide exit tunnel, in which it helps forms a bend with protein L4, while most of the rest of the protein is located at the polypeptide exit tunnel on the outside of the subunit.[HAMAP-Rule:MF_01331]
 +
== 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/cd/3cd6_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/main_output.php?pdb_ID=3cd6 ConSurf].
 +
<div style="clear:both"></div>
-
===Co-cystal of large Ribosomal Subunit mutant G2616A with CC-Puromycin===
+
==See Also==
-
 
+
*[[Ribosome 3D structures|Ribosome 3D structures]]
-
 
+
__TOC__
-
<!--
+
</StructureSection>
-
The line below this paragraph, {{ABSTRACT_PUBMED_18455733}}, adds the Publication Abstract to the page
+
-
(as it appears on PubMed at http://www.pubmed.gov), where 18455733 is the PubMed ID number.
+
-
-->
+
-
{{ABSTRACT_PUBMED_18455733}}
+
-
 
+
-
==About this Structure==
+
-
3CD6 is a 32 chains structure of sequences from [http://en.wikipedia.org/wiki/Haloarcula_marismortui Haloarcula marismortui]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CD6 OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:18455733</ref><references group="xtra"/>
+
[[Category: Haloarcula marismortui]]
[[Category: Haloarcula marismortui]]
-
[[Category: Blaha, G.]]
+
[[Category: Large Structures]]
-
[[Category: Gurel, G.]]
+
[[Category: Blaha G]]
-
[[Category: 23s rrna]]
+
[[Category: Gurel G]]
-
[[Category: Cc-puromycin]]
+
-
[[Category: G2616a mutation]]
+
-
[[Category: Large ribosomal subunit]]
+
-
[[Category: Ribosome]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 04:13:30 2009''
+

Current revision

Co-cystal of large Ribosomal Subunit mutant G2616A with CC-Puromycin

PDB ID 3cd6

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/3cd6"
Personal tools