SitesBLAST – Find functional sites

 

SitesBLAST

Comparing Pf6N2E2_5662 Arginine/ornithine ABC transporter, permease protein AotM 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)
37% identity, 96% coverage: 1:222/232 of query aligns to 1:213/215 of 4ymtC

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

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
37% identity, 96% coverage: 1:222/232 of query aligns to 1:213/214 of 4ymwC

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

Query Sequence

>Pf6N2E2_5662 Arginine/ornithine ABC transporter, permease protein AotM
MIFDYNVIYEALPLYFSGLLTTLKLLALSLFFGLLAALPLGLMRVSKQPIVNMTAWLYTY
VIRGTPMLVQLFLIYYGLAQFAIVRESFLWPWLSSATFCACLAFAINTSAYTAEIIAGSL
RATSNGEIEAAKAMGMSRYKLYRRILLPSALRRALPQYSNEVIMMLQTTSLASIVTLIDI
TGAARTVNAQYYLPFEAYITAGVFYLCLTFILVRLFKLAERRWLGYLAPRKH

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