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.


1vdh

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (00:01, 28 December 2023) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
==Structure-based functional identification of a novel heme-binding protein from thermus thermophilus HB8==
==Structure-based functional identification of a novel heme-binding protein from thermus thermophilus HB8==
-
<StructureSection load='1vdh' size='340' side='right' caption='[[1vdh]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+
<StructureSection load='1vdh' size='340' side='right'caption='[[1vdh]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1vdh]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VDH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VDH FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[1vdh]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VDH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VDH FirstGlance]. <br>
-
</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=1vdh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vdh OCA], [http://pdbe.org/1vdh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vdh RCSB], [http://www.ebi.ac.uk/pdbsum/1vdh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1vdh ProSAT], [http://www.topsan.org/Proteins/RSGI/1vdh TOPSAN]</span></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&#8491;</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=1vdh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vdh OCA], [https://pdbe.org/1vdh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vdh RCSB], [https://www.ebi.ac.uk/pdbsum/1vdh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vdh ProSAT], [https://www.topsan.org/Proteins/RSGI/1vdh TOPSAN]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/Y1714_THET8 Y1714_THET8]] May function as heme-dependent peroxidase. When reconstituted with heme, can generate oxygen using chlorite or hydrogen peroxide as substrate (in vitro), but has very low affinity for hydrogen peroxide and chlorite and extremely low enzyme activity, indicating that these are not its natural substrates.<ref>PMID:15965735</ref>
+
[https://www.uniprot.org/uniprot/CHDC_THET8 CHDC_THET8] Involved in coproporphyrin-dependent heme b biosynthesis. Catalyzes the decarboxylation of Fe-coproporphyrin III (coproheme) to heme b (protoheme IX), the last step of the pathway. The reaction occurs in a stepwise manner with a three-propionate harderoheme intermediate (By similarity). When reconstituted with heme, can generate oxygen using chlorite or hydrogen peroxide as substrate (in vitro), but has very low affinity for hydrogen peroxide and chlorite and extremely low enzyme activity (PubMed:15965735).[HAMAP-Rule:MF_01442]<ref>PMID:15965735</ref>
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 31: Line 32:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
+
[[Category: Large Structures]]
-
[[Category: Ebihara, A]]
+
[[Category: Thermus thermophilus]]
-
[[Category: Inoue, Y]]
+
[[Category: Ebihara A]]
-
[[Category: Kousumi, Y]]
+
[[Category: Inoue Y]]
-
[[Category: Kuramitsu, S]]
+
[[Category: Kousumi Y]]
-
[[Category: Masui, R]]
+
[[Category: Kuramitsu S]]
-
[[Category: Okamoto, A]]
+
[[Category: Masui R]]
-
[[Category: Structural genomic]]
+
[[Category: Okamoto A]]
-
[[Category: Shibata, T]]
+
[[Category: Shibata T]]
-
[[Category: Ueyama, N]]
+
[[Category: Ueyama N]]
-
[[Category: Yamamoto, H]]
+
[[Category: Yamamoto H]]
-
[[Category: Yokoyama, S]]
+
[[Category: Yokoyama S]]
-
[[Category: Beta barrel]]
+
-
[[Category: Rsgi]]
+
-
[[Category: Unknown function]]
+

Current revision

Structure-based functional identification of a novel heme-binding protein from thermus thermophilus HB8

PDB ID 1vdh

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/1vdh"
Personal tools