2uub

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:30, 6 November 2024) (edit) (undo)
 
(One intermediate revision not shown.)
Line 3: Line 3:
<StructureSection load='2uub' size='340' side='right'caption='[[2uub]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
<StructureSection load='2uub' size='340' side='right'caption='[[2uub]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[2uub]] is a 23 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2UUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2UUB FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[2uub]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2UUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2UUB FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.8&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=6MZ:N6-METHYLADENOSINE-5-MONOPHOSPHATE'>6MZ</scene>, <scene name='pdbligand=CM0:5-(CARBOXYMETHOXY)+URIDINE-5-MONOPHOSPHATE'>CM0</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6MZ:N6-METHYLADENOSINE-5-MONOPHOSPHATE'>6MZ</scene>, <scene name='pdbligand=CM0:5-(CARBOXYMETHOXY)+URIDINE-5-MONOPHOSPHATE'>CM0</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</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"><div style='overflow: auto; max-height: 3em;'>[[1fjg|1fjg]], [[1gix|1gix]], [[1i94|1i94]], [[1i95|1i95]], [[1i96|1i96]], [[1i97|1i97]], [[1ibk|1ibk]], [[1ibl|1ibl]], [[1ibm|1ibm]], [[1j5e|1j5e]], [[1jgo|1jgo]], [[1jgp|1jgp]], [[1jgq|1jgq]], [[1l1u|1l1u]], [[1n32|1n32]], [[1n33|1n33]], [[1n34|1n34]], [[1n36|1n36]], [[1pns|1pns]], [[1pnx|1pnx]], [[1xmo|1xmo]], [[1xmq|1xmq]], [[1xnq|1xnq]], [[1xnr|1xnr]], [[1yl4|1yl4]], [[2b64|2b64]], [[2b9m|2b9m]], [[2b9o|2b9o]], [[2f4v|2f4v]], [[2j00|2j00]], [[2j02|2j02]], [[2uu9|2uu9]], [[2uua|2uua]], [[2uuc|2uuc]], [[1fka|1fka]], [[1hnw|1hnw]], [[1hnx|1hnx]], [[1hnz|1hnz]], [[1hr0|1hr0]], [[1qd7|1qd7]], [[1twt|1twt]], [[1g1x|1g1x]], [[1dv4|1dv4]], [[1eg0|1eg0]], [[1rss|1rss]], [[1emi|1emi]], [[1mvr|1mvr]], [[1pn7|1pn7]], [[1pn8|1pn8]], [[1qzc|1qzc]]</div></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=2uub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2uub OCA], [https://pdbe.org/2uub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2uub RCSB], [https://www.ebi.ac.uk/pdbsum/2uub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2uub 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=2uub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2uub OCA], [https://pdbe.org/2uub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2uub RCSB], [https://www.ebi.ac.uk/pdbsum/2uub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2uub ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[https://www.uniprot.org/uniprot/RS16_THET8 RS16_THET8]] Binds to the lower part of the body of the 30S subunit, where it stabilizes two of its domains.[HAMAP-Rule:MF_00385] [[https://www.uniprot.org/uniprot/RS6_THET8 RS6_THET8]] Located on the outer edge of the platform on the body of the 30S subunit.[HAMAP-Rule:MF_00360] [[https://www.uniprot.org/uniprot/RS9_THET8 RS9_THET8]] Part of the top of the head of the 30S subunit. The C-terminal region penetrates the head emerging in the P-site where it contacts tRNA.[HAMAP-Rule:MF_00532_B] [[https://www.uniprot.org/uniprot/RS8_THET8 RS8_THET8]] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit central domain. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit.[HAMAP-Rule:MF_01302_B]
+
[https://www.uniprot.org/uniprot/RS20_THET8 RS20_THET8] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the bottom of the body of the 30S subunit, by binding to several RNA helices of the 16S rRNA.[HAMAP-Rule:MF_00500]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 16: Line 15:
<jmolCheckbox>
<jmolCheckbox>
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uu/2uub_consurf.spt"</scriptWhenChecked>
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uu/2uub_consurf.spt"</scriptWhenChecked>
-
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
</jmolCheckbox>
</jmolCheckbox>
Line 39: Line 38:
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Thermus thermophilus]]
+
[[Category: Synthetic construct]]
-
[[Category: Agris, P F]]
+
[[Category: Thermus thermophilus HB8]]
-
[[Category: Dziergowska, A]]
+
[[Category: Agris PF]]
-
[[Category: Malkiewicz, A]]
+
[[Category: Dziergowska A]]
-
[[Category: Murphy, F V]]
+
[[Category: Malkiewicz A]]
-
[[Category: Ramakrishnan, V]]
+
[[Category: Murphy FV]]
-
[[Category: Vendeix, F A.P]]
+
[[Category: Ramakrishnan V]]
-
[[Category: Weixlbaumer, A]]
+
[[Category: Vendeix FAP]]
-
[[Category: Cmo5u]]
+
[[Category: Weixlbaumer A]]
-
[[Category: Coiled coil]]
+
-
[[Category: Metal-binding]]
+
-
[[Category: Modification]]
+
-
[[Category: Mrna]]
+
-
[[Category: Paromomycin]]
+
-
[[Category: Ribonucleoprotein]]
+
-
[[Category: Ribosomal protein]]
+
-
[[Category: Ribosome]]
+
-
[[Category: Rna-binding]]
+
-
[[Category: Rrna-binding]]
+
-
[[Category: Translation]]
+
-
[[Category: Trna]]
+
-
[[Category: Trna-binding]]
+
-
[[Category: Zinc]]
+
-
[[Category: Zinc-finger]]
+

Current revision

Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a Valine-ASL with cmo5U in position 34 bound to an mRNA with a GUU-codon in the A-site and paromomycin.

PDB ID 2uub

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/2uub"
Personal tools