SitesBLAST – Find functional sites

 

SitesBLAST

Comparing GFF3909 PGA1_65p00120 putative 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)
32% identity, 95% coverage: 4:215/224 of query aligns to 3:215/215 of 4ymtC

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

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
33% identity, 94% coverage: 4:214/224 of query aligns to 3:214/214 of 4ymwC

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

Query Sequence

>GFF3909 PGA1_65p00120 putative amino-acid ABC transporter, permease protein
MQGLDIAYMLGLVPVLLSYVPLTLFMAVVAMVLALVLASLLAVERVLRIPVLDQLVVLFI
SFFRGTPLLVQLFLFYYGLPQVLSVLTQINGVSAAIMGLTLHFAAYMAESIRAAILGVDR
SQWEAAQSIGMTRGQMMRRIVLPQAARIAAPTLVNYFIDMIKGTSLAFTLGVTEMMGATQ
KEAAGSFLYFEAFLVVAVIYWILVEALSLVQRRLETHLNKAYAR

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