MS-Seq Instructions

A database searching tool from the that can be used to fit the peptide sequence tag data contained in a user's tandem mass spectrum to a peptide sequence in an existing database. This program works essentially as Wilm and Mann's program. We believe users will find to be a more comprehensive program and maintain this one primarily for our ongoing evaluation of homology tolerant search strategies.
MS-Fit MS-Edman
MS-Digest MS-Product MS-Comp DB-Stat MS-Isotope
Database: Instrument:
DNA Frame translation:
Digest:
      Max. # missed cleavages:
Cys modified by:
Protein MW: (from to Da) All
Species: 		N terminus:
C terminus:
Maximum Reported Hits:
Search type:
AA Composition (based on immonium and related ions)
60
S		 70
R,P		 72
V		 74
T		 86
L,I		 87
N,R		 88
D		 84,101,129
K,Q		 102
E
104
M		 110
H		 120
F		 126
P		 136
Y		 117,130,159,170
W 		70,73,87,100,112,185
R
AA Composition (based on loss from parent ion)
-SRH,-R
C (select modified Cys)		 -80,-98
PO4 - S,T (homology)		 -64
Mso (homology)		 -17
R
Note: For ions with multiple residues (i.e. 86: means I or L).
Note: Requires presence of at least one AA for each composition ion selected.
Composition Exclude
Regular Expression
Sample ID (comment):

Masses are:
Parent mass (m/z):
 Charge (z):
Fragment-Ions:
Fragment ion series:
Enter the measured masses. These must all be from the selected ion series but consecutive series members can be missing.
Mass (m/z) Charge (z)
Similar Programs (database searching):
Similar Programs (de novo interpretation):