homework7

(1)

SO, it is not a new one. Three proteins in the protein detabase were found to be

indentical (100%) with these sequence.

 
 
search result

NAJSP CARDIOTOXIN PRECURSOR

mktlllttvvvtivcldleytlkcnklvplfyktcpagknlcykmfmvatpkvpvkrgcidvcpkssllvkyvccntdrcn

Length = 81 Score = 340 (163.9 bits), Expect = 1.2e-44, P = 1.2e-44 Identities = 60/60

(100%), Positives = 60/60 (100%)

Cytoxin 3 precursor

mktllltlvvvtivcldlgytlkcnklvplfyktcpagknlcykmfmvatpkvpvkrgcidvcpkssllvkyvccntdrcn

Length = 81 Score = 340 (163.9 bits), Expect = 1.2e-44, P = 1.2e-44 Identities = 60/60

(100%), Positives = 60/60 (100%)

Cytoxin 3 - Chinese cobra

lkcnklvplfyktcpagknlcykmfmvatpkvpvkrgcidvcpkssllvkyvccntdrcn

Length = 60 Score = 340 (163.9 bits), Expect = 1.6e-44, P = 1.6e-44 Identities = 60/60

(100%), Positives = 60/60 (100%)

(2)

Sequence Homology with Other Proteins

(3)

Predicted Secondary Protein Structure

I. Chou-Fasman plot

                 .         .         .         .         .         .
 
       LKCNKLVPLFYKTCPAGKNLCYKMFMVATPKVPVKRGCIDVCPKSSLLVKYVCCNTDRCN
 
 helix <--------->        <------------->       <-------->         
 
 sheet     EEEEEEEEE      EEEEEEEEEE        EEEE     EEEEEEEEE     
 
 turns                  T           T     T       TT               
 
 
 
 
 
 Residue totals: H: 36   E: 32   T:  5
 
        percent: H: 60.0 E: 53.3 T:  8.3

II. GARNIER plot

 
           .   10    .   20    .   30    .   40    .   50    .   60
 
       LKCNKLVPLFYKTCPAGKNLCYKMFMVATPKVPVKRGCIDVCPKSSLLVKYVCCNTDRCN
 
 helix H                 HHH     HHHH                              
 
 sheet     EEEEEEEEE        EEEEE      E E  EEEEE    EEEEEEEE      
 
 turns  TTT          TTTT            T  T TT     TTTT        TTTTTT
 
 coil               C                 C                            
 
 
 
 
 
 Residue totals: H:  8   E: 29   T: 21   C:  2

(4)

Charge Distribution

 
 
 
0 +  0 0 + 0 0 0 0 0  0 + 0 0  0 0 0 +  0 0 0  0 +  0 0  0 0 0 0 0 + 0  0 0 + +  0 0 0 -  0 0 0 +  0 0 0 0 0 + 0  0 0 0 0  0 -  +  0 0
 
L K C N K L V P L F Y K T C P A G K N L C Y K M F M V A T P K V P V K R G C I D V C P K S S L L V K Y V C C N T D R C N