Team:DTU-Denmark/Protein Models

From 2013.igem.org

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''homology models of all three subunits of AMO''
''homology models of all three subunits of AMO''
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At the time of writing neither of the the three subunits from ''Nitrosomonas Europae'' is available as 3D structures, so each of the subunits was identified at UNIPROT, and their sequence was homologymodelled using CPHmodels-3.2
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{| class="wikitable"
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|-
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! style="background: silver" |Resource
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! style="background: #66CC00" | AmoA
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! style="background: #2B7C37" | AmoB
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! style="background: #99CC33" | AmoC
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|-
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| Uniprot
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| [http://www.uniprot.org/uniprot/Q04507 Q04507]
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| [http://www.uniprot.org/uniprot/Q04508 Q04508]
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| [http://www.uniprot.org/uniprot/Q82T63 Q82T63]
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|-
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| Template pdb code and chain
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| 1YEW.A
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| 1YEW.B
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| 3RGB.C
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|}
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===Hao===
===Hao===
Hydroxylamine oxidoreductase
Hydroxylamine oxidoreductase

Revision as of 19:37, 1 October 2013

Protein Models

It turns out that the structures of some of the proteins we want our mutants to express have been determined.

Contents

Mutant 1

AMO

Ammonia monooxygenase

DTU AMO.png

homology models of all three subunits of AMO

At the time of writing neither of the the three subunits from Nitrosomonas Europae is available as 3D structures, so each of the subunits was identified at UNIPROT, and their sequence was homologymodelled using CPHmodels-3.2

Resource AmoA AmoB AmoC
Uniprot [http://www.uniprot.org/uniprot/Q04507 Q04507] [http://www.uniprot.org/uniprot/Q04508 Q04508] [http://www.uniprot.org/uniprot/Q82T63 Q82T63]
Template pdb code and chain 1YEW.A 1YEW.B 3RGB.C

Hao

Hydroxylamine oxidoreductase

DTU Hao.png

source [http://www.rcsb.org/pdb/explore.do?structureId=1fgj 1FGJ]

cc554

Cytochrome c554

DTU CycA.png

source [http://www.rcsb.org/pdb/explore.do?structureId=1ft5 1FT5]


Mutant 2

NirS

Nitrite reductase

DTU NirS NO.png

As a dimer with N2 - source [http://www.rcsb.org/pdb/explore/explore.do?structureId=1nno 1NNO]


All models were made and visualized in [http://sourceforge.net/projects/pymol/ PyMOL v1.6]


Retrieved from "http://2013.igem.org/Team:DTU-Denmark/Protein_Models"