SitesBLAST – Find functional sites

 

SitesBLAST

Comparing GFF2619 PGA1_c26600 amino acid ABC transporter, 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)
38% identity, 80% coverage: 50:267/273 of query aligns to 16:215/215 of 4ymtC

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

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
38% identity, 79% coverage: 50:266/273 of query aligns to 16:214/214 of 4ymwC

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

Query Sequence

>GFF2619 PGA1_c26600 amino acid ABC transporter, permease protein
MSAQEPKPRRPDGKKDDFPWWLAAVLLIGGTLIWRVASDDLYLSILSTLMRGVQLTIFVT
LISFFLASLLGLGLALAAGSRWLVIRQGARFYIEVVRGIPIIVLLLYVAFVLAPALVELR
NWLGDHIGLDPIRTRNFPLLWRAIIALMIAYSAFISEVFRAGLQSVDEGQIEAAKSLGLS
RWHRFRFIVFPQAIRTILPPLGNDFVALVKDSSLVSVLGVADVTQLGKLTAVGNFRYFET
YNVVALIYLTLTIGLSLLLRRFEKHLRRREERR

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