SitesBLAST – Find functional sites

 

SitesBLAST

Comparing GFF3834 PGA1_262p02380 putative histidine transport system permease protein HisM 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)
30% identity, 84% coverage: 38:254/258 of query aligns to 11:214/215 of 4ymtC

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

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
30% identity, 84% coverage: 38:253/258 of query aligns to 11:213/214 of 4ymwC

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

Query Sequence

>GFF3834 PGA1_262p02380 putative histidine transport system permease protein HisM
MTSFKSLTQPHRLVLIALFAALVVWCAVSLRWDWIPTYAPLALEGLWTTIWILVVTSILG
FALAVPLGLAQAVGPWYLSTPARIFCTVIRGTPLLLQIWLLYYGLGSLFPQFPWIRSSEL
WPYLRQAWPYAVLALTLSYAGYEGEVMRGAFSGVAKGQLEAAKAYGMPRLTMFRRIWLPQ
AVRNVLPTLGGETILQLKATPLVATITVLDIYAVSSRVRSDTFIVYEPLLLLALVYMAIA
GVITLAFKRFEDRVPQRR

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