SitesBLAST – Find functional sites

 

SitesBLAST

Comparing GFF1141 PGA1_c11560 putative arginine transport system permease protein to proteins with known functional sites using BLASTp with E ≤ 0.001.

Or try Sites on a Tree, PaperBLAST, Conserved Domains, or compare to all protein structures

Found 2 hits to proteins with known functional sites (download)

4ymtC Crystal structure of an amino acid abc transporter complex with arginines (see paper)
29% identity, 60% coverage: 78:219/238 of query aligns to 80:215/215 of 4ymtC

query
sites
4ymtC
Q
 
Q
W
 
F
I
 
G
H
 
M
E
 
N
V
 
I
Y
 
P
G
 
A
F
 
F
S
 
T
L
 
A
A
 
G
V
 
V
V
 
S
T
 
A
F
 
L
A
 
A
I
 
I
V
x
N
F
 
S
G
 
S
A
 
A
F
x
Y
A
 
V
A
 
A
N
 
E
V
 
I
L
 
I
F
 
R
G
 
A
A
 
G
M
 
I
R
 
Q
A
 
A
V
 
V
P
 
D
R
 
P
A
 
G
Q
 
Q
I
 
N
E
 
E
T
 
A
A
 
A
E
 
R
A
 
S
Y
 
L
G
 
G
M
 
M
T
 
T
H
 
H
R
 
A
Q
 
M
A
 
A
F
 
M
W
 
R
R
 
Y
I
 
V
L
 
I
V
 
I
P
 
P
Q
 
Q
M
 
A
W
 
I
T
 
K
Y
 
N
A
 
I
L
 
L
P
 
P
G
 
A
L
 
L
S
 
G
N
 
N
L
x
E
W
 
F
M
 
I
V
 
V
L
x
M
I
 
L
K
|
K
A
x
E
T
 
S
P
 
A
L
 
I
L
 
V
F
 
S
L
 
V
L
 
I
G
 
G
V
 
F
E
 
A
D
 
D
I
 
L
V
 
T
Y
 
R
W
 
Q
A
 
A
R
 
-
E
 
D
L
 
I
G
 
I
G
 
Q
S
 
S
K
 
V
T
 
T
A
 
Y
R
 
R
F
 
Y
T
 
F
D
 
E
Y
 
-
P
 
P
H
 
Y
G
 
I
D
 
I
W
 
I
R
 
A
M
 
A
W
 
I
Y
 
Y
F
 
F
L
 
-
G
 
-
L
 
-
L
 
-
V
 
V
F
 
M
Y
 
T
L
 
L
A
 
T
F
 
F
T
 
S
K
 
K
L
 
L
S
 
L
E
 
S
V
 
L
V
 
F
L
 
E
E
 
R
R
 
R
I
 
L
R
 
R

Sites not aligning to the query:

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
29% identity, 56% coverage: 78:210/238 of query aligns to 80:206/214 of 4ymwC

query
sites
4ymwC
Q
 
Q
W
 
F
I
 
G
H
 
M
E
 
N
V
 
I
Y
 
P
G
 
A
F
 
F
S
 
T
L
 
A
A
 
G
V
 
V
V
 
S
T
 
A
F
 
L
A
 
A
I
 
I
V
x
N
F
 
S
G
 
S
A
 
A
F
x
Y
A
 
V
A
 
A
N
 
E
V
 
I
L
 
I
F
 
R
G
 
A
A
 
G
M
 
I
R
 
Q
A
 
A
V
 
V
P
 
D
R
 
P
A
 
G
Q
 
Q
I
 
N
E
 
E
T
 
A
A
 
A
E
 
R
A
 
S
Y
 
L
G
 
G
M
 
M
T
 
T
H
 
H
R
 
A
Q
 
M
A
 
A
F
 
M
W
 
R
R
 
Y
I
 
V
L
 
I
V
 
I
P
 
P
Q
 
Q
M
 
A
W
 
I
T
 
K
Y
 
N
A
 
I
L
 
L
P
 
P
G
 
A
L
 
L
S
 
G
N
 
N
L
x
E
W
 
F
M
 
I
V
 
V
L
 
M
I
 
L
K
 
K
A
x
E
T
 
S
P
 
A
L
 
I
L
 
V
F
 
S
L
 
V
L
 
I
G
 
G
V
 
F
E
 
A
D
 
D
I
 
L
V
 
T
Y
 
R
W
 
Q
A
 
A
R
 
-
E
 
D
L
 
I
G
 
I
G
 
Q
S
 
S
K
 
V
T
 
T
A
 
Y
R
 
R
F
 
Y
T
 
F
D
 
E
Y
 
-
P
 
P
H
 
Y
G
 
I
D
 
I
W
 
I
R
 
A
M
 
A
W
 
I
Y
 
Y
F
 
F
L
 
-
G
 
-
L
 
-
L
 
-
V
 
V
F
 
M
Y
 
T
L
 
L
A
 
T
F
 
F
T
 
S
K
 
K
L
 
L

Query Sequence

>GFF1141 PGA1_c11560 putative arginine transport system permease protein
MAARAQFAPLSWLGKAYIAVVRGVPDIAFFLFFVIALDQGIEYLRHQVKCPDWDAPVRQG
NDFVVCDIAKMPLSSSDQWIHEVYGFSLAVVTFAIVFGAFAANVLFGAMRAVPRAQIETA
EAYGMTHRQAFWRILVPQMWTYALPGLSNLWMVLIKATPLLFLLGVEDIVYWARELGGSK
TARFTDYPHGDWRMWYFLGLLVFYLAFTKLSEVVLERIRTRLSHGQATLAGEAQRKAS

Or try a new SitesBLAST search

SitesBLAST's Database

SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory