SitesBLAST – Find functional sites

 

SitesBLAST

Comparing mRNA_3724 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 20 (the maximum) hits to proteins with known functional sites (download)

P02293 Histone H2B.1; Suppressor of Ty protein 12 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 16 papers)
84% identity, 98% coverage: 1:51/52 of query aligns to 78:128/131 of P02293

query
sites
P02293
A
 
A
T
 
T
E
 
E
A
 
A
S
 
S
K
 
K
L
 
L
A
 
A
S
 
A
Y
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Y
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N
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K
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K
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I
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I
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A
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H
A
 
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E
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G
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T
N
 
R
A
 
A
V
 
V
T
 
T
K
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K
F
 
Y
S
 
S
S
 
S
T
 
S

Sites not aligning to the query:

P02294 Histone H2B.2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 12 papers)
84% identity, 98% coverage: 1:51/52 of query aligns to 78:128/131 of P02294

query
sites
P02294
A
 
A
T
 
T
E
 
E
A
 
A
S
 
S
K
 
K
L
 
L
A
 
A
S
 
A
Y
 
Y
N
 
N
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K
K
 
K
S
 
S
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T
I
 
I
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S
S
 
A
R
 
R
E
 
E
I
 
I
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Q
T
 
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A
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V
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R
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L
I
 
I
L
 
L
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P
G
 
G
E
 
E
L
 
L
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A
K
 
K
H
 
H
A
 
A
I
 
V
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S
E
 
E
G
 
G
T
 
T
N
 
R
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
S
S
 
S
T
 
S

Sites not aligning to the query:

1id3D Crystal structure of the yeast nucleosome core particle reveals fundamental differences in inter-nucleosome interactions (see paper)
84% identity, 98% coverage: 1:51/52 of query aligns to 42:92/93 of 1id3D

query
sites
1id3D
A
 
A
T
 
T
E
 
E
A
 
A
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S
K
 
K
L
 
L
A
 
A
S
 
A
Y
 
Y
N
 
N
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K
K
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K
S
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S
T
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T
I
 
I
S
 
S
S
 
A
R
 
R
E
 
E
I
 
I
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Q
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A
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R
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I
L
 
L
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P
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E
L
 
L
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A
K
 
K
H
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H
A
 
A
I
 
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E
 
E
G
 
G
T
 
T
N
 
R
A
 
A
V
 
V
T
 
T
K
 
K
F
 
Y
S
 
S
S
 
S
T
 
S

Sites not aligning to the query:

P04913 Histone H2B-alpha; H2B.1 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
82% identity, 98% coverage: 1:51/52 of query aligns to 74:124/126 of P04913

query
sites
P04913
A
 
A
T
 
T
E
 
E
A
 
A
S
 
S
K
 
K
L
 
L
A
 
A
S
 
A
Y
 
Y
N
 
N
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K
K
 
K
S
 
S
T
 
T
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I
S
 
S
S
 
S
R
 
R
E
 
E
I
 
I
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Q
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A
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V
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R
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L
I
 
I
L
 
L
P
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P
G
 
G
E
 
E
L
 
L
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A
K
 
K
H
 
H
A
 
A
I
 
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E
 
E
G
 
G
T
 
T
N
 
K
A
 
S
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
S
S
 
S
T
 
S

Sites not aligning to the query:

4m6bD Crystal structure of yeast swr1-z domain in complex with h2a.Z-h2b dimer (see paper)
85% identity, 92% coverage: 1:48/52 of query aligns to 42:89/187 of 4m6bD

query
sites
4m6bD
A
 
A
T
 
T
E
 
E
A
 
A
S
 
S
K
 
K
L
 
L
A
 
A
S
 
A
Y
 
Y
N
 
N
K
 
K
K
 
K
S
 
S
T
 
T
I
 
I
S
 
S
S
 
A
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
S
 
A
V
 
V
R
 
R
L
 
L
I
 
I
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
 
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
 
R
A
 
A
V
 
V
T
 
T
K
 
K
F
 
Y

Sites not aligning to the query:

Q64524 Histone H2B type 2-E; H2B-clustered histone 21; H2b 613 from Mus musculus (Mouse) (see 9 papers)
77% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q64524

query
sites
Q64524
A
 
A
T
 
N
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
|
K
K
 
R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
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S
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V
R
 
R
L
 
L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
|
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
A
K
 
K

Sites not aligning to the query:

P40283 Histone H2B.11; HTB4 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
78% identity, 98% coverage: 1:51/52 of query aligns to 100:150/150 of P40283

query
sites
P40283
A
 
A
T
 
Q
E
 
E
A
 
A
S
 
S
K
 
K
L
 
L
A
 
A
S
 
R
Y
 
Y
N
 
N
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K
K
 
K
S
 
P
T
 
T
I
 
I
S
 
T
S
 
S
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R
E
 
E
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I
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Q
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T
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R
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E
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H
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E
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T
N
 
K
A
 
A
V
 
V
T
 
T
K
 
K
F
 
F
S
 
T
S
 
S
T
 
S

Sites not aligning to the query:

Q99880 Histone H2B type 1-L; Histone H2B.c; H2B/c from Homo sapiens (Human) (see 16 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q99880

query
sites
Q99880
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
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R
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S
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I
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T
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S
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E
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I
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A
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R
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L
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L
L
 
L
P
 
P
G
 
G
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E
L
 
L
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A
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H
 
H
A
 
A
I
 
V
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E
G
 
G
T
 
T
N
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K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

P10853 Histone H2B type 1-F/J/L; H2B 291A from Mus musculus (Mouse) (see 9 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of P10853

query
sites
P10853
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
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R
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I
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T
S
 
S
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R
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E
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I
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Q
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L
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P
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E
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L
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A
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H
 
H
A
 
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V
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E
G
 
G
T
 
T
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x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

Q8CGP2 Histone H2B type 1-P from Mus musculus (Mouse) (see 9 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q8CGP2

query
sites
Q8CGP2
A
 
A
T
 
S
E
 
E
A
 
A
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S
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R
L
 
L
A
 
A
S
 
H
Y
 
Y
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N
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R
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S
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T
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I
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T
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S
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R
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E
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I
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Q
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A
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R
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L
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L
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P
G
 
G
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E
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L
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A
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H
A
 
A
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S
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E
G
 
G
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T
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x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

Q64475 Histone H2B type 1-B; H2B-clustered histone 3; h2B-143 from Mus musculus (Mouse) (see 9 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q64475

query
sites
Q64475
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
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|
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K
 
R
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S
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T
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I
S
 
T
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S
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R
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E
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I
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Q
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A
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R
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L
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L
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L
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P
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G
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E
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L
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A
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|
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H
 
H
A
 
A
I
 
V
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S
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E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

P70696 Histone H2B type 1-A; Histone H2B, testis; Testis-specific histone H2B from Mus musculus (Mouse) (see 2 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 76:127/127 of P70696

query
sites
P70696
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
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|
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R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
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T
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A
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V
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R
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L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
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A
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|
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
 
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

3x1tD Crystal structure of nucleosome core particle consisting of mouse testis specific histone variants h2aa and h2ba (see paper)
75% identity, 100% coverage: 1:52/52 of query aligns to 42:93/93 of 3x1tD

query
sites
3x1tD
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
 
K
K
x
R
S
|
S
T
|
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
S
 
A
V
 
V
R
 
R
L
 
L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
 
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
 
K
A
 
A
V
 
V
T
 
T
K
 
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

Q8CGP1 Histone H2B type 1-K from Mus musculus (Mouse) (see 9 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q8CGP1

query
sites
Q8CGP1
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
|
K
K
 
R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
S
 
A
V
 
V
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R
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L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
|
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
A
K
 
K

Sites not aligning to the query:

O23629 Histone H2B.6; H2BAt; HTB9 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
76% identity, 98% coverage: 1:51/52 of query aligns to 100:150/150 of O23629

query
sites
O23629
A
 
A
T
 
S
E
 
E
A
 
S
S
 
S
K
 
K
L
 
L
A
 
A
S
 
R
Y
 
Y
N
 
N
K
 
K
K
 
K
S
 
P
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
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A
V
 
V
R
 
R
L
 
L
I
 
V
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
 
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
 
K
A
 
A
V
 
V
T
 
T
K
 
K
F
 
F
S
 
T
S
 
S
T
 
S

Sites not aligning to the query:

7ybfA Crystal structure of inner membrane protein sad1 in complex with histone h2a-h2b (see paper)
83% identity, 92% coverage: 1:48/52 of query aligns to 41:88/177 of 7ybfA

query
sites
7ybfA
A
 
A
T
 
T
E
 
E
A
 
A
S
 
S
K
 
K
L
 
L
A
 
A
S
 
A
Y
 
Y
N
 
N
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K
K
 
K
S
 
S
T
 
T
I
 
I
S
 
S
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
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A
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V
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R
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L
I
 
I
L
 
L
P
 
P
G
 
G
E
 
E
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L
S
 
A
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K
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H
A
 
A
I
 
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T
E
 
E
G
 
G
T
 
T
N
 
K
A
 
S
V
 
V
T
 
T
K
 
K
F
 
Y

Sites not aligning to the query:

P83863 Histone H2B from Penaeus vannamei (Whiteleg shrimp) (Litopenaeus vannamei) (see paper)
75% identity, 100% coverage: 1:52/52 of query aligns to 65:116/116 of P83863

query
sites
P83863
A
 
A
T
 
A
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
 
K
K
 
R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
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S
 
A
V
 
V
R
 
R
L
 
L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
 
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
 
K
A
 
A
V
 
V
T
 
T
K
 
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

P02283 Histone H2B from Drosophila melanogaster (Fruit fly) (see 2 papers)
75% identity, 100% coverage: 1:52/52 of query aligns to 72:123/123 of P02283

query
sites
P02283
A
 
A
T
 
A
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
 
K
K
 
R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
I
Q
 
Q
T
 
T
S
 
A
V
 
V
R
 
R
L
 
L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
 
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

Q8CGP0 Histone H2B type 3-B; H2B-clustered histone 26; H2B.U histone 1 from Mus musculus (Mouse) (see 9 papers)
73% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q8CGP0

query
sites
Q8CGP0
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
|
K
K
 
R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
V
Q
 
Q
T
 
T
S
 
A
V
 
V
R
 
R
L
 
L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
|
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

Q8N257 Histone H2B type 3-B; H2B type 12; H2B-clustered histone 26; H2B.U histone 1 from Homo sapiens (Human) (see 14 papers)
73% identity, 100% coverage: 1:52/52 of query aligns to 75:126/126 of Q8N257

query
sites
Q8N257
A
 
A
T
 
S
E
 
E
A
 
A
S
 
S
K
 
R
L
 
L
A
 
A
S
 
H
Y
 
Y
N
 
N
K
|
K
K
 
R
S
 
S
T
 
T
I
 
I
S
 
T
S
 
S
R
 
R
E
 
E
I
 
V
Q
 
Q
T
 
T
S
 
A
V
 
V
R
 
R
L
 
L
I
 
L
L
 
L
P
 
P
G
 
G
E
 
E
L
 
L
S
 
A
K
|
K
H
 
H
A
 
A
I
 
V
S
 
S
E
 
E
G
 
G
T
 
T
N
x
K
A
 
A
V
 
V
T
 
T
K
|
K
F
 
Y
S
 
T
S
 
S
T
 
S
K
 
K

Sites not aligning to the query:

Query Sequence

>mRNA_3724
ATEASKLASYNKKSTISSREIQTSVRLILPGELSKHAISEGTNAVTKFSSTK

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