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.


1xm5

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:51, 14 February 2024) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1xm5.png|left|200px]]
 
-
{{STRUCTURE_1xm5| PDB=1xm5 | SCENE= }}
+
==Crystal structure of metal-dependent hydrolase ybeY from E. coli, Pfam UPF0054==
-
 
+
<StructureSection load='1xm5' size='340' side='right'caption='[[1xm5]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
-
===Crystal structure of metal-dependent hydrolase ybeY from E. coli, Pfam UPF0054===
+
== Structural highlights ==
-
 
+
<table><tr><td colspan='2'>[[1xm5]] 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=1XM5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XM5 FirstGlance]. <br>
-
{{ABSTRACT_PUBMED_16511207}}
+
</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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
-
==About this Structure==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1xm5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xm5 OCA], [https://pdbe.org/1xm5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xm5 RCSB], [https://www.ebi.ac.uk/pdbsum/1xm5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xm5 ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1xm5 TOPSAN]</span></td></tr>
-
[[1xm5]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XM5 OCA].
+
</table>
-
 
+
== Function ==
-
==Reference==
+
[https://www.uniprot.org/uniprot/YBEY_ECOLI YBEY_ECOLI] Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. Acts together with the RNase R to eliminate defective 70S ribosomes, but not properly matured 70S ribosomes or individual subunits, by a process mediated specifically by the 30S ribosomal subunit. Involved in the processing of 16S, 23S and 5S rRNAs, with a particularly strong effect on maturation at both the 5'-and 3'-ends of 16S rRNA as well as maturation of the 5'-end of 23S and 5S rRNAs.<ref>PMID:20639334</ref> <ref>PMID:20807199</ref> <ref>PMID:23273979</ref> <ref>PMID:16511207</ref>
-
<ref group="xtra">PMID:016511207</ref><references group="xtra"/>
+
== 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/xm/1xm5_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=1xm5 ConSurf].
 +
<div style="clear:both"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
-
[[Category: Almo, S C.]]
+
[[Category: Large Structures]]
-
[[Category: Burley, S K.]]
+
[[Category: Almo SC]]
-
[[Category: Fedorov, A A.]]
+
[[Category: Burley SK]]
-
[[Category: Fedorov, E V.]]
+
[[Category: Fedorov AA]]
-
[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics.]]
+
[[Category: Fedorov EV]]
-
[[Category: Ramagopal, U A.]]
+
[[Category: Ramagopal UA]]
-
[[Category: Shi, W.]]
+
[[Category: Shi W]]
-
[[Category: Thirumuruhan, R.]]
+
[[Category: Thirumuruhan R]]
-
[[Category: New york sgx research center for structural genomic]]
+
-
[[Category: Nysgxrc target t842]]
+
-
[[Category: Pfam family upf0054]]
+
-
[[Category: Protein structure initiative]]
+
-
[[Category: Psi]]
+
-
[[Category: Structural genomic]]
+
-
[[Category: Unknown function]]
+

Current revision

Crystal structure of metal-dependent hydrolase ybeY from E. coli, Pfam UPF0054

PDB ID 1xm5

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/1xm5"
Personal tools