Team:Stockholm/Project Idea/Proteins
From 2010.igem.org
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== Proteins == | == Proteins == | ||
- | + | === Superoxide dismutase 1 protein, SOD === | |
+ | [http://partsregistry.org/Part:BBa_K380007 Part:BBa_K380007] | ||
+ | |||
+ | |||
+ | Human soluble superoxide dismutase 1 (SOD1) is a soluble cytoplasmic protein functional as a homodimer that binds copper and zink ions. SOD1 catalyzes the reaction O<sup>-</sup><sub>2</sub> + O<sup>-</sup><sub>2</sub> + 2H<sup>+</sup> → H<sub>2</sub>O<sub>2</sub> + O<sub>2</sub>, protecting the cell from oxidative damage. SOD1 was first cloned and expressed in E. coli by [http://www.ncbi.nlm.nih.gov/pubmed/3889846 Hallewell ''et al''., (1985)]. | ||
+ | |||
+ | [[Image:SOD1_dimeric.png|400px|thumb|right|3D structure of human SOD1 in it's dimeric form. Primary citation [http://www.ncbi.nlm.nih.gov/pubmed/20822138 Leinartaite ''et al''. (2010)] ]] | ||
+ | |||
+ | {| | ||
+ | | '''Gene''' (cDNA) | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 465 bp | ||
+ | |- | ||
+ | | removed restriction site | ||
+ | | PfeI | ||
+ | |- | ||
+ | | exchanged nt | ||
+ | | nt331 A → G | ||
+ | |- | ||
+ | | '''Protein''' | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 154 aa | ||
+ | |- | ||
+ | | size | ||
+ | | 15,936 Da | ||
+ | |- | ||
+ | | Fasta | ||
+ | | [http://www.ncbi.nlm.nih.gov/protein/49456443?report=fasta SOD1] | ||
+ | |} | ||
+ | |||
+ | |||
+ | GenBank:[http://www.ncbi.nlm.nih.gov/nucleotide/38489879?report=genbank&log$=nucltop&blast_rank=22&RID=CAM83NYN01S AY450286.1] | ||
+ | |||
+ | First reported by:[http://www.ncbi.nlm.nih.gov/pubmed/3889846 Hallewell ''et al''., (1985)]. | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | === copper chaperon protein for SOD, yCCS === | ||
+ | [http://partsregistry.org/Part:BBa_K380008 Part:BBa_K380008] | ||
+ | |||
+ | |||
+ | Yeast copper chaperon protein (yCCS) is a help chaperon specific for copper/zinc superoxide dismutase located to the cytoplasm. yCCS generates fully metallized, active SOD1 proteins that in turn protects the cell from oxidative damage. | ||
+ | |||
+ | yCCS has been shown to successfully mediate the delivery of copper ions to human SOD1 ([http://www.ncbi.nlm.nih.gov/pubmed/15358352 Ahl ''et al''. 2003]). Co-expression of SOD1 and yCCS yields proteins with higher copper contents, leading to increased activity and more stable proteins. | ||
+ | |||
+ | [[Image:YSOD+yCCS_interaction.jpg|400px|thumb|right|3D structure of yCCS interacting with yeast superoxide dismutase (ySOD) in it's monomeric form. Ions indicated as gray orbs. Primary citation [[http://www.ncbi.nlm.nih.gov/pubmed/11524675 Lamb ''et al''. 2001]] ]] | ||
+ | |||
+ | |||
+ | |||
+ | {| | ||
+ | | '''Gene''' (cDNA) | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 750bp | ||
+ | |- | ||
+ | | removed restriction site | ||
+ | | EcoRI | ||
+ | |- | ||
+ | | exchanged nt | ||
+ | | nt257 T → C | ||
+ | |- | ||
+ | | '''Protein''' | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 249 aa | ||
+ | |- | ||
+ | | size | ||
+ | | 27,330 Da | ||
+ | |- | ||
+ | | Fasta | ||
+ | | [http://www.ncbi.nlm.nih.gov/protein/596088?report=fasta yCCS] | ||
+ | |} | ||
+ | |||
+ | |||
+ | GenBank:[http://www.ncbi.nlm.nih.gov/nuccore/NM_001182535.1?report=genbank&log$=seqview NM_001182535.1] | ||
+ | |||
+ | First reported by:[http://www.ncbi.nlm.nih.gov/pubmed/9295278 Culotta ''et al''. (1997)]. | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | ---- | ||
+ | |||
+ | |||
+ | === basic fibroblast growth factor, bFGF === | ||
+ | [http://partsregistry.org/Part:BBa_K380006 Part:BBa_K380006] | ||
+ | |||
+ | |||
+ | |||
+ | [[Image:BFGF.jpg|200px|thumb|right|3D structure of bFGF. Primary citation [http://www.ncbi.nlm.nih.gov/pubmed/20133753 Bae ''et al''. 2010] ]] | ||
+ | |||
+ | |||
+ | |||
+ | {| | ||
+ | | '''Gene''' (cDNA) | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 468 bp | ||
+ | |- | ||
+ | | removed restriction sites | ||
+ | | AgeI | ||
+ | |- | ||
+ | | exchanged nt | ||
+ | | | ||
+ | |- | ||
+ | | '''Protein''' | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 288 aa | ||
+ | |- | ||
+ | | size | ||
+ | | 30,770 Da | ||
+ | |- | ||
+ | | Fasta | ||
+ | | [http://www.ncbi.nlm.nih.gov/protein/153285461?report=fasta bFGF] | ||
+ | |} | ||
+ | |||
+ | |||
+ | GenBank: | ||
+ | |||
+ | First reported by: | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | ---- | ||
+ | |||
+ | |||
+ | === Protein A, z domain === | ||
+ | [http://partsregistry.org/Part:BBa_K380009 Part:BBa_K380009] | ||
+ | |||
+ | |||
+ | |||
+ | [[Image:|300px|thumb|right|]] | ||
+ | |||
+ | |||
+ | |||
+ | {| | ||
+ | | '''Genepart''' | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 174 bp | ||
+ | |- | ||
+ | | removed restriction sites | ||
+ | | - | ||
+ | |- | ||
+ | | exchanged nt | ||
+ | | - | ||
+ | |- | ||
+ | | '''Protein''' | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 58 aa | ||
+ | |- | ||
+ | | size | ||
+ | | | ||
+ | |- | ||
+ | | Fasta | ||
+ | | | ||
+ | |} | ||
+ | |||
+ | |||
+ | GenBank: | ||
+ | |||
+ | First reported by: | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | ---- | ||
+ | |||
+ | |||
+ | === IgG protease, IdeS === | ||
+ | [http://partsregistry.org/Part:BBa_K380010 Part:BBa_K380010] | ||
+ | |||
+ | |||
+ | |||
+ | [[Image:IdeS.jpg|200px|thumb|right|3D structure of IdeS. Primary citation [http://www.ncbi.nlm.nih.gov/pubmed/15574492 Wenig ''et al''. 2004] ]] | ||
+ | |||
+ | |||
+ | |||
+ | {| | ||
+ | | '''Gene''' (cDNA) | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 930 bp | ||
+ | |- | ||
+ | | removed restriction sites | ||
+ | | - | ||
+ | |- | ||
+ | | exchanged nt | ||
+ | | - | ||
+ | |- | ||
+ | | '''Protein''' | ||
+ | | | ||
+ | |- | ||
+ | | length | ||
+ | | 339 aa | ||
+ | |- | ||
+ | | size | ||
+ | | 37,977 Da | ||
+ | |- | ||
+ | | Fasta | ||
+ | | [http://www.ncbi.nlm.nih.gov/protein/209559219?report=fasta IdeS] | ||
+ | |} | ||
+ | |||
+ | |||
+ | GenBank: | ||
+ | |||
+ | First reported by: | ||
+ | |||
+ | |||
+ | |||
+ | |||
|} | |} | ||
{{Stockholm/Footer}} | {{Stockholm/Footer}} |
Revision as of 23:59, 26 October 2010