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.


1od8

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:36, 13 December 2023) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
==Xylanase Xyn10A from Streptomyces lividans in complex with xylobio-isofagomine lactam==
==Xylanase Xyn10A from Streptomyces lividans in complex with xylobio-isofagomine lactam==
-
<StructureSection load='1od8' size='340' side='right' caption='[[1od8]], [[Resolution|resolution]] 1.05&Aring;' scene=''>
+
<StructureSection load='1od8' size='340' side='right'caption='[[1od8]], [[Resolution|resolution]] 1.05&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1od8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_lividans"_krasil'nikov_et_al._1965 "actinomyces lividans" krasil'nikov et al. 1965]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1OD8 FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[1od8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_lividans Streptomyces lividans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OD8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OD8 FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XDL:XYLOSE-DERIVED+ISOFAGOMINE+LACTAM'>XDL</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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]] 1.05&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1e0v|1e0v]], [[1e0w|1e0w]], [[1e0x|1e0x]], [[1knl|1knl]], [[1knm|1knm]], [[1mc9|1mc9]], [[1xas|1xas]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XDL:XYLOSE-DERIVED+ISOFAGOMINE+LACTAM'>XDL</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=1od8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1od8 OCA], [https://pdbe.org/1od8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1od8 RCSB], [https://www.ebi.ac.uk/pdbsum/1od8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1od8 ProSAT]</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=1od8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1od8 OCA], [http://pdbe.org/1od8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1od8 RCSB], [http://www.ebi.ac.uk/pdbsum/1od8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1od8 ProSAT]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/XYNA_STRLI XYNA_STRLI]] Contributes to hydrolyze hemicellulose, the major component of plant cell-walls. XLNA and XLNB seem to act sequentially on the substrate to yield xylobiose and xylose as carbon sources.
+
[https://www.uniprot.org/uniprot/XYNA_STRLI XYNA_STRLI] Contributes to hydrolyze hemicellulose, the major component of plant cell-walls. XLNA and XLNB seem to act sequentially on the substrate to yield xylobiose and xylose as carbon sources.
== 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/od/1od8_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/od/1od8_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>
Line 34: Line 33:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Actinomyces lividans krasil'nikov et al. 1965]]
+
[[Category: Large Structures]]
-
[[Category: Endo-1,4-beta-xylanase]]
+
[[Category: Streptomyces lividans]]
-
[[Category: Davies, G J]]
+
[[Category: Davies GJ]]
-
[[Category: Gloster, T M]]
+
[[Category: Gloster TM]]
-
[[Category: Roberts, S]]
+
[[Category: Roberts S]]
-
[[Category: Glycoside hydrolase family 10]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Hydrolase-lectin complex]]
+
-
[[Category: Hydrolase/lectin]]
+
-
[[Category: Isofagomine lactam]]
+
-
[[Category: Lectin]]
+
-
[[Category: Transition state mimic]]
+
-
[[Category: Xylan degradation]]
+
-
[[Category: Xylanase]]
+

Current revision

Xylanase Xyn10A from Streptomyces lividans in complex with xylobio-isofagomine lactam

PDB ID 1od8

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/1od8"
Personal tools