Coding

Part:BBa_K1159311

Designed by: TU Munich 2013   Group: iGEM13_TU-Munich   (2013-09-15)
Revision as of 11:00, 25 October 2013 by ChristopherW (Talk | contribs)

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GFPmut1

This part codes for GFPmut1 which is flanked by RFC[25] pre- and suffix.

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
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 641

Protein data table for BioBrick BBa_K1159311 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)
 ATGGCCGGCAGTAAAGGA ... CTCTACAAAACCGGT
 ORF from nucleotide position -8 to 717 (excluding stop-codon)
Amino acid sequence: (RFC 25 scars in shown in bold, other sequence features underlined; both given below)
1 
101 
201 		MAGSKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTLTYGVQCFSRYPDHMKQHDFFKSAMPEGYVQERTI
FFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLSPDN
HYLSTQSALSKDPNEKRDHMVLLEFVTAAGITHGMDELYKTG*
Sequence features: (with their position in the amino acid sequence, see the list of supported features)
None of the supported features appeared in the sequence
Amino acid composition:
Ala (A)9 (3.7%)
Arg (R)6 (2.5%)
Asn (N)13 (5.4%)
Asp (D)18 (7.4%)
Cys (C)2 (0.8%)
Gln (Q)8 (3.3%)
Glu (E)16 (6.6%)
Gly (G)24 (9.9%)
His (H)10 (4.1%)
Ile (I)12 (5.0%)
Leu (L)19 (7.9%)
Lys (K)20 (8.3%)
Met (M)6 (2.5%)
Phe (F)12 (5.0%)
Pro (P)10 (4.1%)
Ser (S)11 (4.5%)
Thr (T)17 (7.0%)
Trp (W)1 (0.4%)
Tyr (Y)11 (4.5%)
Val (V)17 (7.0%)
Amino acid counting
Total number:242
Positively charged (Arg+Lys):26 (10.7%)
Negatively charged (Asp+Glu):34 (14.0%)
Aromatic (Phe+His+Try+Tyr):34 (14.0%)
Biochemical parameters
Atomic composition:C1211H1864N322O371S8
Molecular mass [Da]:27126.5
Theoretical pI:5.67
Extinction coefficient at 280 nm [M-1 cm-1]:21890 / 22015 (all Cys red/ox)
Plot for hydrophobicity, charge, predicted secondary structure, solvent accessability, transmembrane helices and disulfid bridges 
Codon usage
Organism:E. coliB. subtilisS. cerevisiaeA. thalianaP. patensMammals
Codon quality (CAI):good (0.72)good (0.76)good (0.74)excellent (0.82)good (0.78)good (0.69)
Alignments (obtained from PredictProtein.org)
SwissProt:P42212 (98% identity on 238 AAs), Q9U6Y3 (25% identity on 217 AAs)
TrEML:B7UCZ6 (98% identity on 238 AAs), B9U1C3 (98% identity on 239 AAs), Q71RY9 (98% identity on 238 AAs)
PDB:1gfl (98% identity on 229 AAs), 1emm (97% identity on 221 AAs)
Predictions (obtained from PredictProtein.org)
Subcellular Localization (reliability in brackets)
Archaea:secreted (100%)
Bacteria:cytosol (54%)
Eukarya:cytosol (37%)
Gene Ontology (reliability in brackets)
Molecular Function Ontology: -
Biological Process Ontology:GO:0018298 (44%), GO:0008218 (31%)
 
Predicted features:
Disulfid bridges: -
Transmembrane helices: -
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Categories
Parameters
None