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TATAPRO
:
Tracked AuTomated Assignments in Proteins
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H.S. Atreya , S.C.
Sahu, K.V.R. Chary and Girjesh Govil
Department of Chemical Sciences
Tata Institute of Fundamental Research,
Homi Bhabha Road, Colaba, Mumbai 400005,
India
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The algorithm, TATAPRO (Tracked
Automated Assignments in Proteins) utilizes the protein primary sequence
and peak lists from the following set of triple resonance spectra:
-
CBCANH
-
CBCA(CO)NH
-
HN(CA)CO
(or HN(COCA)HA )
-
HNCO (or
HN(CA)HA )
TATAPRO uses BMRB statistical
data for 13Ca
and 13Cb
chemical shifts to group the 20 amino acids into 8 categories. It uses
the above statistical data as a guide to correlate the protein primary
sequence with the peak lists gerated from the above listed triple resonance
experiments, thus correlating 1HN and 15N
chemical shifts with those of 13Ca,
13Cb
and 13C' and of the sequence neighbors.
To obtain a copy of TATAPRO
(ANSI C code, can be compiled on UNIX or Windows workstations), please
contact:
chary@tifr.res.in
| Protein |
BMRB
code |
Mol.
Wt.
(KDa) |
No.
of residues |
No.
of
mismatches |
No.
of Pro residues |
Percentage
of Assignments obtained on random deletion of peaks
0% 15%
30% |
| Calcium binding
protein from Entamoeba histolytica |
4271 |
15 |
134 |
3 |
0 |
96
85
77 |
| Drosophila numb phosphotyrosine binding
domain |
4263 |
17.8 |
160 |
11 |
6 |
100
89 68 |
| Fibroblast collagenase |
4064 |
18.7 |
169 |
0 |
11 |
100
87 68 |
| Borrelia burgdorferi OspA |
4076 |
28 |
257 |
14 |
1 |
100
92 74 |
| Escherichia coli maltose binding
protein |
4354 |
42 |
370 |
9 |
21 |
100
90 65 |
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