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.


1uka

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:40, 25 October 2023) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with (S)-2-methylbutyrate==
==Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with (S)-2-methylbutyrate==
-
<StructureSection load='1uka' size='340' side='right' caption='[[1uka]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+
<StructureSection load='1uka' size='340' side='right'caption='[[1uka]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1uka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_liquefaciens"_flugge_1886 "bacillus fluorescens liquefaciens" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UKA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UKA FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[1uka]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_fluorescens Pseudomonas fluorescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UKA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UKA FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SMB:2-METHYLBUTANOIC+ACID'>SMB</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]] 1.7&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1iun|1iun]], [[1iuo|1iuo]], [[1iup|1iup]], [[1uk6|1uk6]], [[1uk7|1uk7]], [[1uk8|1uk8]], [[1uk9|1uk9]], [[1ukb|1ukb]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SMB:2-METHYLBUTANOIC+ACID'>SMB</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CUMD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=294 "Bacillus fluorescens liquefaciens" Flugge 1886])</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=1uka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uka OCA], [https://pdbe.org/1uka PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uka RCSB], [https://www.ebi.ac.uk/pdbsum/1uka PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uka 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/2-hydroxymuconate-6-semialdehyde_hydrolase 2-hydroxymuconate-6-semialdehyde hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.7.1.9 3.7.1.9] </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=1uka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uka OCA], [http://pdbe.org/1uka PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uka RCSB], [http://www.ebi.ac.uk/pdbsum/1uka PDBsum]</span></td></tr>
+
</table>
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/P96965_PSEFL P96965_PSEFL]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
-
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uk/1uka_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uk/1uka_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
</jmolCheckbox>
</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/chain_selection.php?pdb_ID=2ata ConSurf].
+
</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=1uka ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
Line 32: Line 33:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Bacillus fluorescens liquefaciens flugge 1886]]
+
[[Category: Large Structures]]
-
[[Category: 2-hydroxymuconate-6-semialdehyde hydrolase]]
+
[[Category: Pseudomonas fluorescens]]
-
[[Category: Fushinobu, S]]
+
[[Category: Fushinobu S]]
-
[[Category: Hidaka, M]]
+
[[Category: Hidaka M]]
-
[[Category: Jun, S Y]]
+
[[Category: Jun S-Y]]
-
[[Category: Nojiri, H]]
+
[[Category: Nojiri H]]
-
[[Category: Omori, T]]
+
[[Category: Omori T]]
-
[[Category: Shoun, H]]
+
[[Category: Shoun H]]
-
[[Category: Wakagi, T]]
+
[[Category: Wakagi T]]
-
[[Category: Yamane, H]]
+
[[Category: Yamane H]]
-
[[Category: Alpha/beta-hydrolase]]
+
-
[[Category: Aromatic compound]]
+
-
[[Category: Beta-ketolase]]
+
-
[[Category: Cumene]]
+
-
[[Category: Cumene degradation]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Isopropylbenzene]]
+
-
[[Category: Meta-cleavage compound hydrolase]]
+
-
[[Category: Pcb]]
+
-
[[Category: Polychlorinated biphenyl degradation]]
+
-
[[Category: Pseudomonas fluorescens ip01]]
+
-
[[Category: Substrate specificity]]
+

Current revision

Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with (S)-2-methylbutyrate

PDB ID 1uka

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/1uka"
Personal tools