SitesBLAST – Find functional sites

 

SitesBLAST

Comparing SMc03865 SMc03865 amino-acid transport system permease ABC transporter 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)
40% identity, 81% coverage: 47:268/273 of query aligns to 16:215/215 of 4ymtC

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

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
40% identity, 81% coverage: 47:267/273 of query aligns to 16:214/214 of 4ymwC

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

Query Sequence

>SMc03865 SMc03865 amino-acid transport system permease ABC transporter protein
MTPVQSSDTSGKDDYPWWLIALLVIAAALAAVIAANDIFTQVFTVVLKGLGVTVFVTLVG
FVLATVLGLGVALMALSEHVVLRQIARFYTEVIRGVPILVLLFYIAFVGAPALVTVANFV
AAPLISAGWIEPFVVRDVSLMWRAIMALMIGYSAFIAEVFRAGIQSVDKGQVEAAKALGL
SRYQRFRLVVFPQAIRVILPPLGNDFVAMVKDSSLVSVLGVADITQMGKVYASGSFRFFE
TYSIVAYVYLVLTIGLSLALRAVERRLRRSQVR

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