SitesBLAST – Find functional sites

 

SitesBLAST

Comparing SM_b21137 SM_b21137 amino acid ABC transporter permease 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)

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
33% identity, 90% coverage: 17:214/219 of query aligns to 16:213/214 of 4ymwC

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

4ymtC Crystal structure of an amino acid abc transporter complex with arginines (see paper)
33% identity, 90% coverage: 17:214/219 of query aligns to 16:213/215 of 4ymtC

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

Query Sequence

>SM_b21137 SM_b21137 amino acid ABC transporter permease
MDFSFLDQLWLARIPLLKGLGVSVSISLLSIVVGTVLGVFVGLALVYGFRPVKWIVRGYT
DFIRGTPVLVLVLASYYVLSTIGIDLGPFQAGVLALAVFCSSHVGELVRGALQSIPKGQT
EAAKAIGLTFAQTFTYVLGPQALRQALPAWVNTAAEMVKASTLLSIIGVSELLLRTQELI
SRTFMSLEFYFFAGFLYFVINYGIERFGRYVERKTAVPS

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