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.


1ydf

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:56, 14 February 2024) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1ydf.png|left|200px]]
 
-
{{STRUCTURE_1ydf| PDB=1ydf | SCENE= }}
+
==Crystal structure of a HAD-like phosphatase from Streptococcus pneumoniae==
-
 
+
<StructureSection load='1ydf' size='340' side='right'caption='[[1ydf]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
-
===Crystal structure of a HAD-like phosphatase from Streptococcus pneumoniae===
+
== Structural highlights ==
-
 
+
<table><tr><td colspan='2'>[[1ydf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_TIGR4 Streptococcus pneumoniae TIGR4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YDF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YDF FirstGlance]. <br>
-
 
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
-
==About this Structure==
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-
[[1ydf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YDF OCA].
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ydf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ydf OCA], [https://pdbe.org/1ydf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ydf RCSB], [https://www.ebi.ac.uk/pdbsum/1ydf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ydf ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1ydf TOPSAN]</span></td></tr>
-
[[Category: Streptococcus pneumoniae]]
+
</table>
-
[[Category: Burley, S K.]]
+
== Function ==
-
[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics.]]
+
[https://www.uniprot.org/uniprot/A0A0H2UQJ9_STRPN A0A0H2UQJ9_STRPN]
-
[[Category: Seetharaman, J.]]
+
== Evolutionary Conservation ==
-
[[Category: Swaminathan, S.]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: Hydrolase haloacid dehalogenase-like family]]
+
Check<jmol>
-
[[Category: Hypothetical protein]]
+
<jmolCheckbox>
-
[[Category: New york sgx research center for structural genomic]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yd/1ydf_consurf.spt"</scriptWhenChecked>
-
[[Category: Nysgxrc]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
[[Category: Protein structure initiative]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: Psi]]
+
</jmolCheckbox>
-
[[Category: Structural genomic]]
+
</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=1ydf ConSurf].
-
[[Category: Unknown function]]
+
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Streptococcus pneumoniae TIGR4]]
 +
[[Category: Burley SK]]
 +
[[Category: Seetharaman J]]
 +
[[Category: Swaminathan S]]

Current revision

Crystal structure of a HAD-like phosphatase from Streptococcus pneumoniae

PDB ID 1ydf

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools