David Liu, a student in the department of Life Sciences, got a clone from E coli.
Here is the DNA sequence:

  TGGATGCCATGTTCCGGAGGTAATATGAAGAAATCAATATTATTTATTTTTCTTT 
  CTGTATTGTCTTTTTCACCTTTCGCTCAGGATGCTAAACCAGTAGAGTCTTCAAA 
  AGAAAAAATCACACTAGAATCAAAAAAATGTAACATTGCAAAAAAAAGTAATA 
  AAAGTGGTCCTGAAAGCATGAATAGTAGCAATTACTGCTGTGAATTGTGTTGTA 
  ATCCTGCTTGTACCGGGTGCTATTAATAATATAAAGGGAACTAAACAGTTCCCT 
  TTATATTTGTTCTGATTCTGATGATGTCTGTAACGTATGTCCTGTTGCTTTGTTG
  AATAAATCGA 

Let's do following analysis by using Sequence Analysis : 

1. DNA sequence translation
2. Identify this protein
3. Residue charge analysis
4. Hydrophobicity
5. Possible functions or pattern of this protein
6. Calculate its pI and molecular weight

DNA sequence translation

Tool : Translate 
The corresponding polypeptide sequence is -------

5'3' Frame 1
W Met P C S G G N Met K K S I L F I F L S V L S F S P F A Q D A K P V E S S K 
E K I T L E S K K C N I A K K S N K S G P E S Met N S S N Y C C E L C C N P A 
C T G C Stop Stop Y K G N Stop T V P F I F V L I L Met Met S V T Y V L L L 
C Stop I N R 

5'3' Frame 2
G C H V P E V I Stop R N Q Y Y L F F F L Y C L F H L S L R Met L N Q StopS 
L Q K K K S H Stop N Q K N V T L Q K K V I K V V L K A Stop I V A I T A V 
N C V V I L L V P G A I N N I K G T K Q F P L Y L F Stop F Stop Stop C L Stop 
R Met S C C F V E Stop I 

5'3' Frame 3
D A Met F R R Stop Y E E I N I I Y F S F C I V F F T F R S G C Stop T S R V F 
K R K N H T R I K K Met Stop H C K K K Stop Stop K W S Stop K H E Stop 
Stop Q L L L Stop I V L Stop S C L Y R V L L I I Stop R E L N S S L Y I C S D 
S D D V C N V C P V A L L N K S 

3'5' Frame 1
S I Y S T K Q Q D I R Y R H H Q N Q N K Y K G N C L V P F I L L I A P G T S R I 
T T Q F T A V I A T I H A F R T T F I T F F C N V T F F Stop F Stop C D F F F Stop 
R L Y W F S I L S E R Stop K R Q Y R K K N K Stop Y Stop F L H I T S G T W 
H P 

3'5' Frame 2
R F I Q Q S N R T Y V T D I I R I R T N I K G T V Stop F P L Y Y Stop Stop H 
P V Q A G L Q H N S Q Q Stop L L L F Met L S G P L L L L F F A Met L H F F D 
S S V I F S F E D S T G L A S Stop A K G E K D N T E R K I N N I D F F I L P P 
E H G I 

3'5' Frame 3
D L F N K A T G H T L Q T S S E S E Q I Stop R E L F S S L Y I I N S T R Y K Q 
D Y N T I H S S N C Y Y S C F Q D H F Y Y F F L Q C Y I F L I L V Stop F F L L 
K T L L V Stop H P E R K V K K T I Q K E K Stop I I L I S S Y Y L R N Met A 
S 

The most possiple amino acid sequence of all above is ------- 
Met P C S G G N Met K K S I L F I F L S V L S F S P F A Q D A K P V E S S K E K 
I T L E S K K C N I A K K S N K S G P E S Met N S S N Y C C E L C C 
N P A C T G C Y

other analysis

Tool : NCBI BLAST

最相近的已知Protein為--------
sp|P26588|HST4_ECOLI  HEAT-STABLE ENTEROTOXIN A4 PRECURSOR  258

other analysis

Tool : ProtParam & Protein Colourer

Total number of negatively charged residues (Asp + Glu): 6
Total number of positively charged residues (Arg + Lys): 10

Color protein by charge -----[blue:HKR  red:DE]
M P C S G G N M K K S I L F I F L S V L S F S P F A Q D A K P V E S S K E K I T 
L E S K K C N I A K K S N K S G P E S M N S S N Y C C E L C C N P A C T G C Y

other analysis

Tool : ProtScale

Using the scale  Hphob./Eisenberg   

the individual values for the 20 amino acids are: 

Ala:  0.620  Arg: -2.530  Asn: -0.780  Asp: -0.900  Cys:  0.290  Gln: -0.850  
Glu: -0.740  Gly:  0.480  His: -0.400  Ile:  1.380  Leu:  1.060  Lys: -1.500  
Met:  0.640  Phe:  1.190  Pro:  0.120  Ser: -0.180  Thr: -0.050  Trp:  0.810  
Tyr:  0.260  Val:  1.080  Asx: -0.840  Glx: -0.795  Xaa: -0.000  

Weights for window positions 1,..,7, using linear weight variation model:

   1     2     3     4     5     6     7     
 0.40  0.60  0.80  1.00  0.80  0.60  0.40 
 edge             center             edge



other analysis

Tool : ScanProsite

[1] PDOC00001 PS00001  ASN_GLYCOSYLATION
N-glycosylation site

Number of matches: 2
      1      53-56 NKSG                                                        
      2      61-64 NSSN                                                        
[2] PDOC00005 PS00005  PKC_PHOSPHO_SITE
Protein kinase C phosphorylation site

Number of matches: 3
      1      34-36 SSK                                                         
      2      43-45 SKK                                                         
      3      52-54 SNK                                                         
[3] PDOC00006 PS00006  CK2_PHOSPHO_SITE
Casein kinase II phosphorylation site

Number of matches: 2
      1      34-37 SSKE                                                        
      2      55-58 SGPE                                                        
[4] PDOC00246 PS00273  ENTEROTOXIN_H_STABLE
Heat-stable enterotoxins signature

             66-78 CCELCCNPACTGC     

other analysis

Tool : ProtParam

pI value = 8.66

molecular weight = 8555.96

other analysis