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.

2xj5

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 21:27, 18 November 2020

The structure of cytochrome c peroxidase Compound II

Structural highlights

2xj5 is a 1 chain structure with sequence from Atcc 18824. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Related:	1cpg, 1bva, 2v23, 3ccx, 6ccp, 1aeu, 1dcc, 1s6v, 1bej, 1ml2, 1ccl, 1beq, 1jci, 1aem, 1u74, 2b10, 2pcc, 1aeb, 1cpd, 1ccg, 1cca, 1ac4, 1cmu, 1aeo, 1bep, 1aet, 1aeh, 1aev, 2pcb, 1kxn, 1aen, 1aeg, 5ccp, 4ccp, 2x07, 2cep, 1cmp, 1cce, 1ryc, 2b0z, 1bes, 1dsp, 1z53, 2b12, 1bem, 1mkr, 1sog, 1ccj, 1aee, 1cpe, 1a2f, 1jdr, 1dse, 1aes, 1a2g, 1zbz, 1bek, 1mkq, 1cck, 1mk8, 1ebe, 1cci, 1krj, 2b11, 1cyf, 1aef, 1aek, 1ccb, 1u75, 1ac8, 1dsg, 1dj1, 1dj5, 2ccp, 1cmt, 7ccp, 1aej, 1ds4, 1aeq, 1sdq, 2x08, 2gb8, 1kxm, 4ccx, 1kok, 1bj9, 2bcn, 1ccp, 1zby, 2cyp, 1dso, 1stq, 3ccp, 2v2e, 2xil, 1aa4, 1aed, 1ccc, 1cmq, 1cpf
Activity:	Cytochrome-c peroxidase, with EC number 1.11.1.5
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[CCPR_YEAST] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Heme enzymes are ubiquitous in biology and catalyse a vast array of biological redox processes. The formation of high-valent ferryl intermediates of the heme iron (known as Compounds I and Compound II) is implicated for number of catalytic heme enzymes, but these species are formed only transiently and thus have proved somewhat elusive. In consequence, there has been conflicting evidence as to the nature of these ferryl intermediates in a number of different heme enzymes, in particular the precise nature of the bond between the heme iron and the bound oxygen atom. In this work, we present high-resolution crystal structures of both Compound I and Compound II intermediates in two different heme peroxidase enzymes, cytochrome c peroxidase and ascorbate peroxidase, allowing direct and accurate comparison of the bonding interactions in the different intermediates. A consistent picture emerges across all structures, showing lengthening of the ferryl oxygen bond (and presumed protonation) on reduction of Compound I to Compound II. These data clarify long-standing inconsistencies on the nature of the ferryl heme species in these intermediates.

The nature of the ferryl heme in compounds I and II.,Gumiero A, Metcalfe CL, Pearson AR, Raven EL, Moody PC J Biol Chem. 2010 Nov 8. PMID:21062738^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Gumiero A, Metcalfe CL, Pearson AR, Raven EL, Moody PC. The nature of the ferryl heme in compounds I and II. J Biol Chem. 2010 Nov 8. PMID:21062738 doi:10.1074/jbc.M110.183483

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2xj5"

@@ Line 3: / Line 3: @@
 <StructureSection load='2xj5' size='340' side='right'caption='[[2xj5]], [[Resolution|resolution]] 1.69&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2xj5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XJ5 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2xj5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2XJ5 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1cpg|1cpg]], [[1bva|1bva]], [[2v23|2v23]], [[3ccx|3ccx]], [[6ccp|6ccp]], [[1aeu|1aeu]], [[1dcc|1dcc]], [[1s6v|1s6v]], [[1bej|1bej]], [[1ml2|1ml2]], [[1ccl|1ccl]], [[1beq|1beq]], [[1jci|1jci]], [[1aem|1aem]], [[1u74|1u74]], [[2b10|2b10]], [[2pcc|2pcc]], [[1aeb|1aeb]], [[1cpd|1cpd]], [[1ccg|1ccg]], [[1cca|1cca]], [[1ac4|1ac4]], [[1cmu|1cmu]], [[1aeo|1aeo]], [[1bep|1bep]], [[1aet|1aet]], [[1aeh|1aeh]], [[1aev|1aev]], [[2pcb|2pcb]], [[1kxn|1kxn]], [[1aen|1aen]], [[1aeg|1aeg]], [[5ccp|5ccp]], [[4ccp|4ccp]], [[2x07|2x07]], [[2cep|2cep]], [[1cmp|1cmp]], [[1cce|1cce]], [[1ryc|1ryc]], [[2b0z|2b0z]], [[1bes|1bes]], [[1dsp|1dsp]], [[1z53|1z53]], [[2b12|2b12]], [[1bem|1bem]], [[1mkr|1mkr]], [[1sog|1sog]], [[1ccj|1ccj]], [[1aee|1aee]], [[1cpe|1cpe]], [[1a2f|1a2f]], [[1jdr|1jdr]], [[1dse|1dse]], [[1aes|1aes]], [[1a2g|1a2g]], [[1zbz|1zbz]], [[1bek|1bek]], [[1mkq|1mkq]], [[1cck|1cck]], [[1mk8|1mk8]], [[1ebe|1ebe]], [[1cci|1cci]], [[1krj|1krj]], [[2b11|2b11]], [[1cyf|1cyf]], [[1aef|1aef]], [[1aek|1aek]], [[1ccb|1ccb]], [[1u75|1u75]], [[1ac8|1ac8]], [[1dsg|1dsg]], [[1dj1|1dj1]], [[1dj5|1dj5]], [[2ccp|2ccp]], [[1cmt|1cmt]], [[7ccp|7ccp]], [[1aej|1aej]], [[1ds4|1ds4]], [[1aeq|1aeq]], [[1sdq|1sdq]], [[2x08|2x08]], [[2gb8|2gb8]], [[1kxm|1kxm]], [[4ccx|4ccx]], [[1kok|1kok]], [[1bj9|1bj9]], [[2bcn|2bcn]], [[1ccp|1ccp]], [[1zby|1zby]], [[2cyp|2cyp]], [[1dso|1dso]], [[1stq|1stq]], [[3ccp|3ccp]], [[2v2e|2v2e]], [[2xil|2xil]], [[1aa4|1aa4]], [[1aed|1aed]], [[1ccc|1ccc]], [[1cmq|1cmq]], [[1cpf|1cpf]]</td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1cpg|1cpg]], [[1bva|1bva]], [[2v23|2v23]], [[3ccx|3ccx]], [[6ccp|6ccp]], [[1aeu|1aeu]], [[1dcc|1dcc]], [[1s6v|1s6v]], [[1bej|1bej]], [[1ml2|1ml2]], [[1ccl|1ccl]], [[1beq|1beq]], [[1jci|1jci]], [[1aem|1aem]], [[1u74|1u74]], [[2b10|2b10]], [[2pcc|2pcc]], [[1aeb|1aeb]], [[1cpd|1cpd]], [[1ccg|1ccg]], [[1cca|1cca]], [[1ac4|1ac4]], [[1cmu|1cmu]], [[1aeo|1aeo]], [[1bep|1bep]], [[1aet|1aet]], [[1aeh|1aeh]], [[1aev|1aev]], [[2pcb|2pcb]], [[1kxn|1kxn]], [[1aen|1aen]], [[1aeg|1aeg]], [[5ccp|5ccp]], [[4ccp|4ccp]], [[2x07|2x07]], [[2cep|2cep]], [[1cmp|1cmp]], [[1cce|1cce]], [[1ryc|1ryc]], [[2b0z|2b0z]], [[1bes|1bes]], [[1dsp|1dsp]], [[1z53|1z53]], [[2b12|2b12]], [[1bem|1bem]], [[1mkr|1mkr]], [[1sog|1sog]], [[1ccj|1ccj]], [[1aee|1aee]], [[1cpe|1cpe]], [[1a2f|1a2f]], [[1jdr|1jdr]], [[1dse|1dse]], [[1aes|1aes]], [[1a2g|1a2g]], [[1zbz|1zbz]], [[1bek|1bek]], [[1mkq|1mkq]], [[1cck|1cck]], [[1mk8|1mk8]], [[1ebe|1ebe]], [[1cci|1cci]], [[1krj|1krj]], [[2b11|2b11]], [[1cyf|1cyf]], [[1aef|1aef]], [[1aek|1aek]], [[1ccb|1ccb]], [[1u75|1u75]], [[1ac8|1ac8]], [[1dsg|1dsg]], [[1dj1|1dj1]], [[1dj5|1dj5]], [[2ccp|2ccp]], [[1cmt|1cmt]], [[7ccp|7ccp]], [[1aej|1aej]], [[1ds4|1ds4]], [[1aeq|1aeq]], [[1sdq|1sdq]], [[2x08|2x08]], [[2gb8|2gb8]], [[1kxm|1kxm]], [[4ccx|4ccx]], [[1kok|1kok]], [[1bj9|1bj9]], [[2bcn|2bcn]], [[1ccp|1ccp]], [[1zby|1zby]], [[2cyp|2cyp]], [[1dso|1dso]], [[1stq|1stq]], [[3ccp|3ccp]], [[2v2e|2v2e]], [[2xil|2xil]], [[1aa4|1aa4]], [[1aed|1aed]], [[1ccc|1ccc]], [[1cmq|1cmq]], [[1cpf|1cpf]]</div></td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </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=2xj5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xj5 OCA], [http://pdbe.org/2xj5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xj5 RCSB], [http://www.ebi.ac.uk/pdbsum/2xj5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xj5 ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2xj5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xj5 OCA], [http://pdbe.org/2xj5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xj5 RCSB], [http://www.ebi.ac.uk/pdbsum/2xj5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xj5 ProSAT]</span></td></tr>
 </table>
 == Function ==

2xj5

From Proteopedia

Revision as of 21:27, 18 November 2020

The structure of cytochrome c peroxidase Compound II

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox