TMHMM
OMSSA
?
SignalP
File name
:
File type
:
blank line delimited DTA
XML encapsulated DTA
PKL format
MGF format
Parameter file (optional):
Store for reuse :
Use existing parameter file(optional):
Enzyme
:
Trypsin
Arg-C
CNBr
Chymotrypsin
Formic Acid
Lys-C
Lys-C, no P rule
Pepsin A
Trypsin+CNBr
Trypsin+Chymotrypsin
Trypsin, no P rule
Whole protein
Asp-N
Glu-C
Asp-N+Glu-C
Top-Down
Semi-Tryptic
No Enzyme
Chymotrypsin, no P rule
Asp-N (DE)
Glu-C (DE)
Maximum missed cleavages
:
0
1
2
3
Species to search
(ctrl key for multiple selection):
BACTERIA
- Escherichia coli K12
(np)
- Escherichia coli K12
(npr)
CONTAMINANTS
- Common_contaminants
(np)
EXPASY
- SwissProt
(np)
- SwissProt
(npr)
FUNGI
- Aspergillus_niger_cbs513_88
(np)
- Aspergillus_niger_cbs513_88
(npr)
(np=Native Proteome, tp=Translated Proteome, ??r=Reversed)
Hitlist max length
:
10
25
50
E-value cutoff
:
50
25
10
1
0.1
0.01
0.001
0.0001
Fixed mods
(ctrl key for multiple selection):
2-amino-3-oxo-butanoic acid T
CAMthiopropanoyl K
ICAT heavy
ICAT light
M cleavage from protein n-term
NEM C
NIPCAM
O18 on peptide n-term
PNGasF in O18 water
SeMet
acetylation of K
acetylation of protein n-term
amidation of peptide c-term
arginine to ornithine
beta elimination of S
beta elimination of T
beta methythiolation of D
beta-methylthiolation of D
carbamidomethyl C
carbamylation of K
carbamylation of n-term peptide
carboxyamidomethylation of D
carboxyamidomethylation of E
carboxyamidomethylation of H
carboxyamidomethylation of K
carboxykynurenin of W
carboxymethyl C
citrullination of R
deamidation of N and Q
dehydro of S and T
di-O18 on peptide n-term
di-iodination of Y
di-methylation of K
di-methylation of R
di-methylation of peptide n-term
farnesylation of C
fluorophenylalanine
formylation of K
formylation of peptide n-term
formylation of protein n-term
gamma-carboxylation of D
gamma-carboxylation of E
geranyl-geranyl
glucuronylation of protein n-term
glutathione disulfide
guanidination of K
heavy arginine-13C6
heavy arginine-13C6-15N4
heavy lysine-13C6
homoserine
homoserine lactone
hydroxylation of Y
hydroxylation of D
hydroxylation of F
hydroxylation of K
hydroxylation of N
hydroxylation of P
iodination of Y
lipoyl K
methyl C
methyl H
methyl N
methyl R
methyl ester of D
methyl ester of E
methyl ester of S
methyl ester of Y
methyl ester of peptide c-term
methylation of D
methylation of E
methylation of K
methylation of Q
methylation of peptide c-term
methylation of peptide n-term
methylation of protein n-term
myristoleylation of G
myristoyl-4H of G
myristoylation of K
myristoylation of peptide n-term G
n-acyl diglyceride cysteine
n-formyl met addition
oxidation of C to cysteic acid
oxidation of C to sulfinic acid
oxidation of F to dihydroxyphenylalanine
oxidation of H
oxidation of H to D
oxidation of H to N
oxidation of M
oxidation of P to pyroglutamic acid
oxidation of W
oxidation of W to formylkynurenin
oxidation of W to hydroxykynurenin
oxidation of W to kynurenin
oxidation of W to nitro
oxidation of Y to nitro
palmitoylation of C
palmitoylation of K
palmitoylation of S
palmitoylation of T
phosphopantetheine S
phosphorylation of S
phosphorylation of S with ETD loss
phosphorylation of S with prompt loss
phosphorylation of T
phosphorylation of T with ETD loss
phosphorylation of T with prompt loss
phosphorylation of Y
phosphorylation with neutral loss on C
phosphorylation with neutral loss on D
phosphorylation with neutral loss on H
phosphorylation with neutral loss on S
phosphorylation with neutral loss on T
phosphorylation with prompt loss on Y
propionamide C
propionyl heavy K
propionyl heavy peptide n-term
propionyl light K
propionyl light on peptide n-term
pyridyl K
pyridyl peptide n-term
pyro-cmC
pyro-glu from n-term E
pyro-glu from n-term Q
s-pyridylethylation of C
sulfation of Y
sulphone of M
thioacylation of K
thioacylation of peptide n-term
tri-deuteromethylation of D
tri-deuteromethylation of E
tri-deuteromethylation of peptide c-term
tri-iodination of Y
tri-methylation of K
tri-methylation of R
tri-methylation of protein n-term
ubiquitinylation residue
Variable mods
(ctrl key for multiple selection):
2-amino-3-oxo-butanoic acid T
CAMthiopropanoyl K
ICAT heavy
ICAT light
M cleavage from protein n-term
NEM C
NIPCAM
O18 on peptide n-term
PNGasF in O18 water
SeMet
acetylation of K
acetylation of protein n-term
amidation of peptide c-term
arginine to ornithine
beta elimination of S
beta elimination of T
beta methythiolation of D
beta-methylthiolation of D
carbamidomethyl C
carbamylation of K
carbamylation of n-term peptide
carboxyamidomethylation of D
carboxyamidomethylation of E
carboxyamidomethylation of H
carboxyamidomethylation of K
carboxykynurenin of W
carboxymethyl C
citrullination of R
deamidation of N and Q
dehydro of S and T
di-O18 on peptide n-term
di-iodination of Y
di-methylation of K
di-methylation of R
di-methylation of peptide n-term
farnesylation of C
fluorophenylalanine
formylation of K
formylation of peptide n-term
formylation of protein n-term
gamma-carboxylation of D
gamma-carboxylation of E
geranyl-geranyl
glucuronylation of protein n-term
glutathione disulfide
guanidination of K
heavy arginine-13C6
heavy arginine-13C6-15N4
heavy lysine-13C6
homoserine
homoserine lactone
hydroxylation of Y
hydroxylation of D
hydroxylation of F
hydroxylation of K
hydroxylation of N
hydroxylation of P
iodination of Y
lipoyl K
methyl C
methyl H
methyl N
methyl R
methyl ester of D
methyl ester of E
methyl ester of S
methyl ester of Y
methyl ester of peptide c-term
methylation of D
methylation of E
methylation of K
methylation of Q
methylation of peptide c-term
methylation of peptide n-term
methylation of protein n-term
myristoleylation of G
myristoyl-4H of G
myristoylation of K
myristoylation of peptide n-term G
n-acyl diglyceride cysteine
n-formyl met addition
oxidation of C to cysteic acid
oxidation of C to sulfinic acid
oxidation of F to dihydroxyphenylalanine
oxidation of H
oxidation of H to D
oxidation of H to N
oxidation of M
oxidation of P to pyroglutamic acid
oxidation of W
oxidation of W to formylkynurenin
oxidation of W to hydroxykynurenin
oxidation of W to kynurenin
oxidation of W to nitro
oxidation of Y to nitro
palmitoylation of C
palmitoylation of K
palmitoylation of S
palmitoylation of T
phosphopantetheine S
phosphorylation of S
phosphorylation of S with ETD loss
phosphorylation of S with prompt loss
phosphorylation of T
phosphorylation of T with ETD loss
phosphorylation of T with prompt loss
phosphorylation of Y
phosphorylation with neutral loss on C
phosphorylation with neutral loss on D
phosphorylation with neutral loss on H
phosphorylation with neutral loss on S
phosphorylation with neutral loss on T
phosphorylation with prompt loss on Y
propionamide C
propionyl heavy K
propionyl heavy peptide n-term
propionyl light K
propionyl light on peptide n-term
pyridyl K
pyridyl peptide n-term
pyro-cmC
pyro-glu from n-term E
pyro-glu from n-term Q
s-pyridylethylation of C
sulfation of Y
sulphone of M
thioacylation of K
thioacylation of peptide n-term
tri-deuteromethylation of D
tri-deuteromethylation of E
tri-deuteromethylation of peptide c-term
tri-iodination of Y
tri-methylation of K
tri-methylation of R
tri-methylation of protein n-term
ubiquitinylation residue
Maximum variable mod combinations searched per peptide
:
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
Precursor mass tolerance
(Da):
Product mass tolerance
(Da):
Precursor mass search type
:
monoisotopic
average
monoisotopic N15
exact
Product mass search type
:
monoisotopic
average
monoisotopic N15
exact
Lower bound of precursor charge
:
1
2
3
4
5
6
7
8
9
Upper bound of precursor charge
:
1
2
3
4
5
6
7
8
9
Minimum charge to start using multiply charged products
:
1
2
3
4
5
6
7
8
9
Fraction of product peaks below precursor to determine +1 precursor
:
Peak intensity cutoff
:
(fraction of most intense)
Number of top intensity peaks in first pass
:
3
6
20
Ions to search 1
:
a
b
c
x
y
z
p
n
i
u
Ions to search 2
:
a
b
c
x
y
z
p
n
i
u
Search for common contaminants:
