Difference between revisions of "Part:BBa K404300"
 
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This part is a peptide linker, it can be used to connect two protein parts / domains and add additional space between them. This can be necessary to avoid interactions between the different parts when fusion proteins are created. The SEG linker was created to connect our protein domains to a fusion construct.
 
This part is a peptide linker, it can be used to connect two protein parts / domains and add additional space between them. This can be necessary to avoid interactions between the different parts when fusion proteins are created. The SEG linker was created to connect our protein domains to a fusion construct.
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===Usage and Biology===
 
===Usage and Biology===
  
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K404300 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K404300 SequenceAndFeatures</partinfo>
  
  
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===Functional Parameters===
 
===Functional Parameters===
 
<partinfo>BBa_K404300 parameters</partinfo>
 
<partinfo>BBa_K404300 parameters</partinfo>
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<html><table border="1" cellspacing="0" width="100%" !important><tr><!-- Time stamp in ms since 1/1/1970 1375730849949 --><td width="100%" colspan="2" style="background-color: rgb(221, 221, 221);"><strong>Parameters for BioBrick <a href="https://parts.igem.org/wiki/index.php?title=Part:BBa_K404300">BBa_K404300</a> automatically created by the <a href="http://2013.igem.org/Team:TU-Munich/Results/AutoAnnotator">BioBrick-AutoAnnotator</a> version 1.0</strong></td></tr><tr><td width="100%" colspan="2"><strong>Nucleotide sequence</strong> in <strong>RFC 25</strong>, so ATGGCCGGC and ACCGGT were added (in italics) to the 5' and 3' ends: (underlined part encodes the protein)<br><span style="font-family:'Courier New', Arial;">&nbsp;<u><i>ATGGCCGGC</i>GGTGGTTCT&nbsp;...&nbsp;GGCGGTAGC<i>ACCGGT</i></u></span><br>&nbsp;<strong>ORF</strong> from -8 to 114 (excluding stop-codon)</td></tr><tr><td width="100%" colspan="2"><strong>Amino acid sequence:</strong> (RFC25 scars in shown in bold, other sequence features underlined; both given below)<br><span style="font-family:'Courier New', Arial;"><table border="0" cellspacing="0" width="100%" !important><tr><td align="right" width="2%">1&nbsp;</td><td width="98%">MAGGGSGGGSEGGGSEGGGSEGGGSEGGGSEGGGSGGGSTG*</td></tr></table></span></td></tr><tr><td colspan="2" width="100%"><strong>Sequence features:</strong> (with their position in the amino acid sequence, also underlined or shown bold above)<table border="0" cellspacing="0" width="60%" !important></table></td></tr><tr><td width="100%" colspan="2"><strong>Amino acid composition:</strong><table border="0" cellspacing="0" width="100%"><tr><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">A (Ala)</td><td width="50%">1 (2.4%)</td></tr><tr><td width="50%">R (Arg)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">N (Asn)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">D (Asp)</td><td width="50%">0 (0.0%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">C (Cys)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">Q (Gln)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">E (Glu)</td><td width="50%">5 (12.2%)</td></tr><tr><td width="50%">G (Gly)</td><td width="50%">25 (61.0%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">H (His)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">I (Ile)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">L (Leu)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">K (Lys)</td><td width="50%">0 (0.0%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">M (Met)</td><td width="50%">1 (2.4%)</td></tr><tr><td width="50%">F (Phe)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">P (Pro)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">S (Ser)</td><td width="50%">8 (19.5%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">T (Thr)</td><td width="50%">1 (2.4%)</td></tr><tr><td width="50%">W (Trp)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">Y (Tyr)</td><td width="50%">0 (0.0%)</td></tr><tr><td width="50%">V (Val)</td><td width="50%">0 (0.0%)</td></tr></table></td></tr></table></td></tr><tr><td width="40%"><strong>Amino acid counting</strong><table border="0" cellspacing="0" width="100%"><tr><td width=" 7%"></td><td width="53%">Total number:</td><td width="40%">41</td></tr><tr><td width=" 7%"></td><td width="53%">Positively charged (Arg+Lys):</td><td width="40%">0 (0.0%)</td></tr><tr><td width=" 7%"></td><td width="53%">Negatively charged (Asp+Glu):</td><td width="40%">5 (12.2%)</td></tr></table></td><td width="60%"><strong>Biochemical parameters</strong><table border="0" cellspacing="0" width="100%"><tr><td width=" 5%"></td><td width="55%">Molecular mass [Da]:</td><td width="40%">3089.9</td></tr><tr><td width=" 5%"></td><td width="55%">Theoretical pI:</td><td width="40%">3.51</td></tr><tr><td width=" 5%"></td><td width="55%">Extinction coefficient at 280 nm [M<sup>-1</sup> cm<sup>-1</sup>]:</td><td width="40%">0 / 0 (all Cys red/ox)</td></tr></table></td></tr><tr><td colspan="2" width="100%"><strong>Codon usage</strong><table border="0" cellspacing="0" width="75%"><tr><td width=" 4%"></td><td width="21%">Organism:</td><td width="15%"><i>E. coli</i></td><td width="15%"><i>B. subtilis</i></td><td width="15%"><i>S. cerevisiae</i></td><td width="15%"><i>A. thaliana</i></td><td width="15%">Mammals</td></tr><tr><td width=" 4%"></td><td width="21%">Codon quality (CAI):</td><td width="15%">excellent (0.89)</td><td width="15%">good (0.75)</td><td width="15%">good (0.63)</td><td width="15%">good (0.61)</td><td width="15%">good (0.80)</td></tr></table></td></tr><tr><td colspan="2" width="100%"> The BioBrick-AutoAnnotator was created by <a href="http://2013.igem.org/Team:TU-Munich">TU-Munich 2013</a> iGEM team. For more information please see the <a href="http://2013.igem.org/Team:TU-Munich/Results/Software">documentation</a>.<br>If you have any questions, comments or suggestions, please email us at <a href="mailto:igem@wzw.tum.de?Subject=AutoAnnotator" target="_top">igem@wzw.tum.de</a>.</td></tr></table><br></html>

Latest revision as of 19:29, 5 August 2013

SEG-Linker

Amino acid sequence:
GGSGGGSEGGGSEGGGSEGGGSEGGGSEGGGSGGGS




This part is a peptide linker, it can be used to connect two protein parts / domains and add additional space between them. This can be necessary to avoid interactions between the different parts when fusion proteins are created. The SEG linker was created to connect our protein domains to a fusion construct.

Usage and Biology

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Functional Parameters


Parameters for BioBrick BBa_K404300 automatically created by the BioBrick-AutoAnnotator version 1.0
Nucleotide sequence in RFC 25, so ATGGCCGGC and ACCGGT were added (in italics) to the 5' and 3' ends: (underlined part encodes the protein)
 ATGGCCGGCGGTGGTTCT ... GGCGGTAGCACCGGT
 ORF from -8 to 114 (excluding stop-codon)
Amino acid sequence: (RFC25 scars in shown in bold, other sequence features underlined; both given below)
1 MAGGGSGGGSEGGGSEGGGSEGGGSEGGGSEGGGSGGGSTG*
Sequence features: (with their position in the amino acid sequence, also underlined or shown bold above)
Amino acid composition:
A (Ala)1 (2.4%)
R (Arg)0 (0.0%)
N (Asn)0 (0.0%)
D (Asp)0 (0.0%)
C (Cys)0 (0.0%)
Q (Gln)0 (0.0%)
E (Glu)5 (12.2%)
G (Gly)25 (61.0%)
H (His)0 (0.0%)
I (Ile)0 (0.0%)
L (Leu)0 (0.0%)
K (Lys)0 (0.0%)
M (Met)1 (2.4%)
F (Phe)0 (0.0%)
P (Pro)0 (0.0%)
S (Ser)8 (19.5%)
T (Thr)1 (2.4%)
W (Trp)0 (0.0%)
Y (Tyr)0 (0.0%)
V (Val)0 (0.0%)
Amino acid counting
Total number:41
Positively charged (Arg+Lys):0 (0.0%)
Negatively charged (Asp+Glu):5 (12.2%)
Biochemical parameters
Molecular mass [Da]:3089.9
Theoretical pI:3.51
Extinction coefficient at 280 nm [M-1 cm-1]:0 / 0 (all Cys red/ox)
Codon usage
Organism:E. coliB. subtilisS. cerevisiaeA. thalianaMammals
Codon quality (CAI):excellent (0.89)good (0.75)good (0.63)good (0.61)good (0.80)
The BioBrick-AutoAnnotator was created by TU-Munich 2013 iGEM team. For more information please see the documentation.
If you have any questions, comments or suggestions, please email us at igem@wzw.tum.de.