Alignment of thymidine_kinase with 1bdfA0

Alignment of thymidine_kinase with 1bdfA0

PSSM Score Key
-10																			10

Bad																			Good

thymid_PSS	Predicted Secondary Structure for your Sequence
thymid_Seq	Your Sequence
1bdfA0_Seq	Library Sequence
1bdfA0_SS	Known Secondary Structure of the Library Sequence (Assigned by STRIDE)
CORE	A measure of the burial and number of contacts made by a residue. (9 very buried/making many contacts, 0 not buried/making few contacts

thymid_PSS

C

C

C

C

C

.

.

C

C

C

C

C

C

C

C

C

C

C

C

C

E

E

E

E

E

E

E

E

E

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

thymid_Seq

M

S

C

I

N

.

.

L

P

T

V

L

P

G

S

P

S

K

T

R

G

Q

I

Q

V

I

L

G

P

M

F

S

G

K

S

T

E

L

M

R

R

V

R

R

F

Q

I

A

Q

Y

-------

-

-

L

+

-

L

-

-

-

-

+

+

+

-

+

V

+

L

P

-

G

-

-

+

-

L

-

-

-

R

+

-

-

-

1bdfA0_Seq

Q

G

S

V

T

E

F

L

K

P

R

L

V

D

I

E

Q

V

S

S

T

H

A

K

V

T

L

E

P

L

E

R

G

F

G

H

T

L

G

N

A

L

R

A

I

L

L

S

S

M

1bdfA0_SS

C

C

C

C

C

C

C

C

C

C

C

E

E

E

E

E

E

C

C

C

C

E

E

E

E

E

E

E

E

E

E

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

CORE

0

0

0

0

0

0

0

0

0

0

0

2

0

0

1

0

0

0

0

0

0

0

1

0

3

0

3

0

0

1

0

0

0

0

0

0

0

1

0

0

0

3

0

0

1

5

1

0

0

2

thymid_PSS

.

E

E

E

E

E

E

E

C

C

C

C

C

C

C

C

C

E

E

E

E

C

C

C

C

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

.

C

C

E

E

E

E

E

E

thymid_Seq

.

K

C

L

V

I

K

Y

A

K

D

T

R

Y

S

S

S

F

C

T

H

D

R

N

T

M

E

A

L

P

A

C

L

L

R

D

V

A

Q

E

A

.

L

G

V

A

V

I

G

I

-------

-

C

-

V

-

-

-

-

D

-

-

H

-

T

E

-

-

-

-

L

-

-

+

-

-

-

L

-

V

-

V

-

G

-

1bdfA0_Seq

P

G

C

A

V

T

E

V

E

I

D

.

.

.

.

.

G

V

L

.

H

E

Y

S

T

K

E

G

V

Q

E

D

I

L

E

I

L

L

N

L

K

G

L

A

V

R

V

Q

G

K

1bdfA0_SS

C

C

E

E

E

E

E

E

E

E

C

.

.

.

.

.

C

C

C

.

C

C

C

C

E

C

C

C

E

C

C

E

H

H

H

H

H

H

H

H

H

H

C

C

E

E

E

C

C

C

CORE

0

0

2

0

6

0

0

5

0

3

0

.

.

.

.

.

0

0

0

.

0

0

0

0

0

0

0

0

2

0

0

0

1

0

0

4

2

0

0

6

0

0

8

0

4

0

2

0

0

0

thymid_PSS

E

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

.

E

E

E

E

E

C

C

C

C

C

H

H

H

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

thymid_Seq

D

E

G

Q

F

F

P

D

I

M

E

F

C

E

A

M

A

N

A

G

K

.

T

V

I

V

A

A

L

D

G

T

F

Q

R

K

P

F

G

A

I

L

N

L

V

P

L

A

E

S

-------

D

E

-

-

-

-

-

G

V

-

-

A

-

+

-

-

+

-

-

E

-

1bdfA0_Seq

D

E

.

.

.

.

.

.

.

V

I

L

.

.

T

L

N

K

S

G

I

G

P

V

T

A

A

D

I

T

H

D

.

.

.

.

.

.

.

.

.

.

.

.

.

G

D

V

E

I

1bdfA0_SS

C

E

.

.

.

.

.

.

.

E

E

E

.

.

E

E

E

E

E

C

C

E

E

E

E

H

H

H

E

C

C

C

.

.

.

.

.

.

.

.

.

.

.

.

.

C

C

E

E

E

CORE

0

0

.

.

.

.

.

.

.

2

0

7

.

.

0

7

0

0

0

0

0

0

0

5

0

5

0

0

7

0

0

0

.

.

.

.

.

.

.

.

.

.

.

.

.

0

0

3

0

4

thymid_PSS

H

H

H

C

C

H

H

H

H

H

H

C

C

C

C

C

E

E

E

E

.

.

.

.

E

C

C

C

.

.

.

.

.

.

C

E

E

E

E

E

C

C

.

.

C

C

C

.

C

H

thymid_Seq

V

V

K

L

T

A

V

C

M

E

C

F

R

E

A

A

Y

T

K

R

.

.

.

.

L

G

T

E

.

.

.

.

.

.

K

E

V

E

V

I

G

G

.

.

A

D

K

.

Y

H

-------

V

-

+

-

-

-

+

C

-

-

+

-

-

A

-

-

-

R

-

G

-

+

-

+

-

I

G

-

-

D

-

Y

-

1bdfA0_Seq

V

K

P

Q

H

V

I

C

H

L

T

D

E

N

A

S

I

S

M

R

I

K

V

Q

R

G

R

G

Y

V

P

A

S

T

R

I

E

R

P

I

G

R

L

L

V

D

A

C

Y

S

1bdfA0_SS

C

C

C

C

C

E

E

E

E

E

C

C

C

C

C

E

E

E

E

E

E

E

E

E

E

C

C

C

E

E

C

H

H

H

C

C

C

C

C

C

C

C

C

E

C

C

E

E

C

C

CORE

0

0

0

0

0

0

9

3

0

2

0

0

0

0

1

0

4

0

5

0

9

0

6

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

2

0

3

0

0

0

0

0

thymid_PSS

H

H

H

H

H

H

C

C

C

C

C

C

C

C

C

C

C

C

C

.

.

.

.

.

C

C

C

C

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

C

C

C

H

H

H

thymid_Seq

S

V

C

R

L

C

Y

F

K

K

A

S

G

Q

P

A

G

P

D

.

.

.

.

.

N

K

E

N

C

P

V

P

G

K

P

G

E

A

V

A

A

R

K

L

F

A

P

Q

Q

I

-------

-

V

-

R

-

Y

-

A

-

+

-

-

-

-

D

-

-

-

-

-

-

-

-

P

-

E

A

+

+

-

-

-

-

-

-

-

Q

1bdfA0_Seq

P

V

E

R

I

A

Y

N

V

E

A

A

R

V

E

Q

R

T

D

L

D

K

L

V

I

E

M

E

T

N

G

T

I

D

P

E

E

A

I

R

R

A

A

T

I

L

A

E

Q

.

1bdfA0_SS

C

E

E

E

E

E

E

E

C

C

E

C

C

C

C

C

C

C

C

E

E

E

E

E

E

E

E

E

E

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

.

CORE

0

4

0

0

2

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

2

0

4

0

4

0

0

0

0

0

2

0

1

0

0

5

4

0

0

3

1

0

0

1

0

0

0

.

thymid_PSS		H	C	C	C	C	C	C
thymid_Seq		L	Q	C	S	P	A	N
-------		L				+	-	-
1bdfA0_Seq		L	E	.	.	A	F	V
1bdfA0_SS		H	C	.	.	C	C	C
CORE		0	0	.	.	0	0	0