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.


5hr7

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:51, 16 August 2023) (edit) (undo)
 
(One intermediate revision not shown.)
Line 1: Line 1:
==X-ray crystal structure of C118A RlmN from Escherichia coli with cross-linked in vitro transcribed tRNA==
==X-ray crystal structure of C118A RlmN from Escherichia coli with cross-linked in vitro transcribed tRNA==
-
<StructureSection load='5hr7' size='340' side='right' caption='[[5hr7]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+
<StructureSection load='5hr7' size='340' side='right'caption='[[5hr7]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[5hr7]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HR7 FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[5hr7]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HR7 FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5AD:5-DEOXYADENOSINE'>5AD</scene>, <scene name='pdbligand=MET:METHIONINE'>MET</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 2.4&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CAS:S-(DIMETHYLARSENIC)CYSTEINE'>CAS</scene>, <scene name='pdbligand=SMC:S-METHYLCYSTEINE'>SMC</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5AD:5-DEOXYADENOSINE'>5AD</scene>, <scene name='pdbligand=CAS:S-(DIMETHYLARSENIC)CYSTEINE'>CAS</scene>, <scene name='pdbligand=MET:METHIONINE'>MET</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SMC:S-METHYLCYSTEINE'>SMC</scene></td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5hr6|5hr6]]</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=5hr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr7 OCA], [https://pdbe.org/5hr7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hr7 RCSB], [https://www.ebi.ac.uk/pdbsum/5hr7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hr7 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/23S_rRNA_(adenine(2503)-C(2))-methyltransferase 23S rRNA (adenine(2503)-C(2))-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.192 2.1.1.192] </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=5hr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr7 OCA], [http://pdbe.org/5hr7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hr7 RCSB], [http://www.ebi.ac.uk/pdbsum/5hr7 PDBsum]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/RLMN_ECO24 RLMN_ECO24]] Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity.
+
[https://www.uniprot.org/uniprot/RLMN_ECOLI RLMN_ECOLI] Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity. Unmodified tRNA is not a suitable substrate for RlmN, which suggests that RlmN works in a late step during tRNA maturation.<ref>PMID:18025251</ref> <ref>PMID:21415317</ref> <ref>PMID:22891362</ref>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
Line 21: Line 19:
</div>
</div>
<div class="pdbe-citations 5hr7" style="background-color:#fffaf0;"></div>
<div class="pdbe-citations 5hr7" style="background-color:#fffaf0;"></div>
 +
 +
==See Also==
 +
*[[TRNA methyltransferase 3D structures|TRNA methyltransferase 3D structures]]
 +
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Boal, A K]]
+
[[Category: Escherichia coli]]
-
[[Category: Booker, S J]]
+
[[Category: Large Structures]]
-
[[Category: Grove, T L]]
+
[[Category: Boal AK]]
-
[[Category: Schwalm, E L]]
+
[[Category: Booker SJ]]
-
[[Category: Iron-sulfur cluster]]
+
[[Category: Grove TL]]
-
[[Category: Oxidoreductase-rna complex]]
+
[[Category: Schwalm EL]]
-
[[Category: Protein-rna complex]]
+
-
[[Category: Radical sam enzyme]]
+
-
[[Category: Transfer rna]]
+

Current revision

X-ray crystal structure of C118A RlmN from Escherichia coli with cross-linked in vitro transcribed tRNA

PDB ID 5hr7

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/5hr7"
Personal tools