SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing B158DRAFT_0779 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 15 hits to proteins with known functional sites (download)

7m4v0 A. Baumannii ribosome-eravacycline complex: 50s (see paper)
84% identity, 100% coverage: 1:51/51 of query aligns to 1:51/51 of 7m4v0

query
sites
7m4v0

M

M

R
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R

D

D

K
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K

I

I

R

R

L

L

V

V

S

S

S

S

A

A

G

G

T

T

G

G

H

Y

F
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F

Y

Y

T

T

T

T

D

T

K

K

N
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N

K

K

K

R

N

T

M
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M

P

P

G

E

K

K

M
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M

E

E

I
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I

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K

K

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F

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P

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H

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E

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A

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I

K

K

binding : R2 (= R2), K4 (= K4), F16 (= F16), N22 (= N22), M26 (= M26), M30 (= M30), I32 (= I32), K33 (= K33), F35 (= F35), P37 (= P37), R40 (= R40), H42 (= H42)

7unr5 30S ribosomal protein S6
78% identity, 100% coverage: 1:51/51 of query aligns to 1:51/51 of 7unr5

query
sites
7unr5

M
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M

R
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R

D

E

K

L

I

I

R

R

L

L

V

V

S

S

S

S

A

A

G

G

T

T

G

G

H

H

F
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F

Y

Y

T

T

T

T

D

D

K

K

N

N

K

K

K

R

N

T

M
x
K

P

P

G

E

K

K

M

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E

E

I
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I

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K

K

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F
x
Y

D

D

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H
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H

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V

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I

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Y

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K

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E

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A

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I

K

K

binding : M1 (= M1), R2 (= R2), F16 (= F16), K26 (≠ M26), I32 (= I32), K33 (= K33), Y35 (≠ F35), R40 (= R40), H42 (= H42), I50 (= I50)

5aka1 Em structure of ribosome-srp-ftsy complex in closed state (see paper)
75% identity, 100% coverage: 1:51/51 of query aligns to 4:54/54 of 5aka1

query
sites
5aka1

M

I

R

R

D
x
E

K
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K

I

I

R

K

L

L

V

V

S

S

S

S

A

A

G

G

T

T

G

G

H
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H

F

F

Y
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Y

T

T

T

T

D

T

K
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K

N

N

K
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K

K

R

N

T

M
x
K

P

P

G
x
E

K

K

M
x
L

E
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E

I

L

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K

K
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K

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F

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D

P

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R

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Q

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H

V

V

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I

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Y

K

K

E

E

A

A

K

K

I

I

K

K

binding : E6 (≠ D3), K7 (= K4), H18 (= H15), Y20 (= Y17), K24 (= K21), K26 (= K23), K29 (≠ M26), E31 (≠ G28), L33 (≠ M30), E34 (= E31), K36 (= K33), K37 (= K34), F38 (= F35), D39 (= D36), V42 (≠ I39), R43 (= R40), Q44 (≠ K41), H45 (= H42)

Sites not aligning to the query:

binding : 1, 2

P0A7N9 Large ribosomal subunit protein bL33; 50S ribosomal protein L33 from Escherichia coli (strain K12) (see paper)
75% identity, 100% coverage: 1:51/51 of query aligns to 5:55/55 of P0A7N9

query
sites
P0A7N9

M

I

R

R

D

E

K

K

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I

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K

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L

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V

S

S

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A

G

G

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T

G

G

H

H

F

F

Y

Y

T

T

T

T

D

T

K

K

N

N

K

K

K

R

N

T

M

K

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P

G

E

K

K

M

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E

I

L

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K

K

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F

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D

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H

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I

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Y

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K

E

E

A

A

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K

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I

K

K

Sites not aligning to the query:

1 modified: Initiator methionine, Removed
2 modified: N-methylalanine

8rd8bk Small ribosomal subunit protein uS5 (see paper)
76% identity, 96% coverage: 2:50/51 of query aligns to 1:49/49 of 8rd8bk

query
sites
8rd8bk

R
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R

D

D

K
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K

I

I

R

K

L

L

V

V

S

S

S

T

A

A

G

G

T

T

G
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G

H

Y

F
x
Y

Y
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Y

T

T

T
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T

D
x
T

K
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K

N
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N

K

K

K

R

N

T

M

M

P

P

G

G

K

K

M

M

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E

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x
M

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K

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F

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I

binding : R1 (= R2), K3 (= K4), G13 (= G14), Y15 (≠ F16), Y16 (= Y17), T18 (= T19), T19 (≠ D20), K20 (= K21), N21 (= N22), M31 (≠ I32), K32 (= K33), F34 (= F35), P36 (= P37), R39 (= R40), H41 (= H42)

4io91 Crystal structure of compound 4d bound to large ribosomal subunit (50s) from deinococcus radiodurans (see paper)
51% identity, 88% coverage: 5:49/51 of query aligns to 9:53/53 of 4io91

query
sites
4io91

I

V

R

K

L

M

V

E

S

S

S

S

A

A

G

G

T

T

G

G

H

F

F

Y

Y

Y

T

T

T

T

D

T

K

K

N

N

K

R

K

R

N

N

M

T

P

Q

G

A

K

K

M

L

E

E

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K
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K

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Y

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D

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K

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H

V

V

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F

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E

A

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K

K

binding : K38 (= K34)

Sites not aligning to the query:

binding : 1, 2

8a22AA uS3m-2 (fragment) (see paper)
46% identity, 98% coverage: 2:51/51 of query aligns to 1:50/50 of 8a22AA

query
sites
8a22AA

R
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R

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L

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A

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G
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G

H

Y

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F

Y

Y

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V

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T

D

T

K

K

N
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N

K

P

K

R

N
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N

M
x
T

P

P

G

W

K

K

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E

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binding : R1 (= R2), G13 (= G14), N21 (= N22), N24 (= N25), T25 (≠ M26), L29 (≠ M30), M32 (≠ K33), F34 (= F35), R40 (≠ K41), H41 (= H42)

7pktz mL119 (see paper)
49% identity, 96% coverage: 1:49/51 of query aligns to 5:53/53 of 7pktz

query
sites
7pktz

M

V

R
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R

D

L

K

L

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L

L

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S

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A

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T

G
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G

H

F

F
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F

Y
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Y

T

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T
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T

D
x
E

K

K

N
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N

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K

R

N
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N

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P

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W

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K

M

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N

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H

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E

E

A

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K

K

binding : R6 (= R2), T17 (= T13), G18 (= G14), F20 (= F16), Y21 (= Y17), T23 (= T19), E24 (≠ D20), N26 (= N22), N29 (= N25), L36 (≠ I32), M37 (≠ K33), K38 (= K34), F39 (= F35), P41 (= P37), H46 (= H42)

6xywAC At4g35490 (see paper)
49% identity, 92% coverage: 5:51/51 of query aligns to 5:51/51 of 6xywAC

query
sites
6xywAC

I

I

R

R

L

L

V

V

S

S

S

A

A

A

G

G

T

T

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G

H

F

F
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F

Y
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Y

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N
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K

binding : G14 (= G14), F16 (= F16), Y17 (= Y17), K19 (≠ T19), R20 (≠ D20), S22 (≠ N22), L30 (≠ M30), F32 (≠ I32), R33 (≠ K33), K34 (= K34), Y35 (≠ F35), P37 (= P37), N40 (≠ R40), R41 (≠ K41), H42 (= H42), K51 (= K51)

6z1pAE mS93 (see paper)
47% identity, 90% coverage: 5:50/51 of query aligns to 6:52/57 of 6z1pAE

query
sites
6z1pAE

I

F

R

K

L

L

V

V

S

S

S

S

A

A

G

G

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T

G
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G

H

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F

Y
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Y

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x
K

K

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N

N

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-

A

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V

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N

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A

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K

I

L

binding : T14 (= T13), G15 (= G14), F17 (= F16), Y18 (= Y17), K21 (≠ D20), L34 (≠ I32), R35 (≠ K33), K36 (= K34), F37 (= F35), P39 (= P37), I40 (≠ T38), N42 (≠ R40), Y44 (≠ H42)

Sites not aligning to the query:

binding : 1

9b0016 50S ribosomal protein L13 (see paper)
40% identity, 98% coverage: 1:50/51 of query aligns to 4:53/53 of 9b0016

query
sites
9b0016

M

V

R
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R

D

I

K

K

I

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R

L

L

L

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C

S

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H

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K

I
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I

binding magnesium ion: E50 (= E47), V51 (≠ A48), K52 (= K49)
binding zinc ion: C12 (≠ S9), C15 (≠ G12), C39 (≠ D36), C42 (≠ I39)
binding : R5 (= R2), R17 (≠ G14), R18 (≠ H15), Y20 (= Y17), T22 (= T19), E23 (≠ D20), N25 (= N22), N28 (= N25), T29 (≠ M26), L35 (≠ I32), R36 (≠ K33), K37 (= K34), Y38 (≠ F35), P40 (= P37), R43 (= R40), H45 (= H42), I53 (= I50)

Sites not aligning to the query:

binding : 1, 2

5dm61 Crystal structure of the 50s ribosomal subunit from deinococcus radiodurans (see paper)
55% identity, 65% coverage: 5:37/51 of query aligns to 11:43/54 of 5dm61

query
sites
5dm61

I

V

R

K

L

M

V

E

S

S

S

S

A

A

G

G

T

T

G
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G

H

F

F
x
Y

Y

Y

T

T

T

T

D

T

K

K

N
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N

K

R

K

R

N
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N

M

T

P

Q

G

A

K

K

M

L

E

E

I
x
L

K
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K

K
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K

F
x
Y

D

D

P

P

binding : G20 (= G14), Y22 (≠ F16), N28 (= N22), N31 (= N25), L38 (≠ I32), K39 (= K33), K40 (= K34), Y41 (≠ F35)

Sites not aligning to the query:

binding : 1, 7, 8, 46, 47

4v8eA6 structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). (see paper)
48% identity, 65% coverage: 17:49/51 of query aligns to 13:45/45 of 4v8eA6

query
sites
4v8eA6

Y

Y

T

A

T
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T

D
x
E

K
|
K

N

N

K
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K

K
x
R

N

N

M

T

P
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P

G

N

K

K

M

L

E

E

I

L

K
x
R

K
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K

F
x
Y

D
x
C

P

P

T
x
W

I

C

R

R

K
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K

H
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H

V

T

I

V

Y

H

K

R

E

E

A

V

K

K

binding osmium (III) hexammine: T15 (= T19), E16 (≠ D20)
binding : T15 (= T19), E16 (≠ D20), K17 (= K21), K19 (= K23), R20 (≠ K24), P23 (= P27), R29 (≠ K33), K30 (= K34), Y31 (≠ F35), C32 (≠ D36), W34 (≠ T38), K37 (= K41), H38 (= H42)

6yweX structure of the mitoribosome from Neurospora crassa in the P/E tRNA bound state (see paper)
40% identity, 88% coverage: 5:49/51 of query aligns to 6:48/48 of 6yweX

query
sites
6yweX

I

V

R
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R

L

L

V

I

S

S

S

M

A

A

G

M

T

T

G
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G

H
x
Y

F
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F

Y
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Y

T
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T

T
x
F

D

T

K

R

N

P

K

R

K

T

N

S

M

L

P

P

G

-

K

-

M
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M

E

S

I
x
M

K

L

K
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K

F
x
Y

D

D

P

P

T
x
I

I

V

R
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R

K
x
R

H
x
K

V

V

I

L

Y

F

K

L

E

E

A

Q

K

K

binding : R7 (= R6), G15 (= G14), Y16 (≠ H15), F17 (= F16), Y18 (= Y17), T19 (= T18), F20 (≠ T19), M29 (= M30), M31 (≠ I32), K33 (= K34), Y34 (≠ F35), I37 (≠ T38), R39 (= R40), R40 (≠ K41), K41 (≠ H42)

Sites not aligning to the query:

binding : 2, 5

9c4g0 Cutibacterium acnes 50s ribosomal subunit with clindamycin bound (see paper)
39% identity, 96% coverage: 1:49/51 of query aligns to 2:50/50 of 9c4g0

query
sites
9c4g0

M

V

R
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R

D

P

K
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K

I

I

R

T

L

L

V

A

S
x
C

S

T

A

E

G

C

T

K

G
x
E

H
x
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F

N

Y
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Y

T
x
I

T

T

D
x
K

K

K

N
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N

K

R

K

R

N
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N

M
x
N

P

P

G

D

K

R

M
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M

E

E

I

M

K

A

K
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K

F
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F

D
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C

P

P

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C

R

R

K
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K

H
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H

V

T

I

A

Y

H

K

R

E

E

A

T

K

R

binding zinc ion: C10 (≠ S9), C37 (≠ D36)
binding : R3 (= R2), K5 (= K4), E15 (≠ G14), R16 (≠ H15), Y18 (= Y17), I19 (≠ T18), K21 (≠ D20), N23 (= N22), N26 (= N25), N27 (≠ M26), M31 (= M30), K35 (= K34), F36 (= F35), R39 (≠ T38), K42 (= K41), H43 (= H42)

Query Sequence

>B158DRAFT_0779
MRDKIRLVSSAGTGHFYTTDKNKKNMPGKMEIKKFDPTIRKHVIYKEAKIK

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