Alignment of thymidine_kinase with 1nbd-0

Alignment of thymidine_kinase with 1nbd-0

PSSM Score Key
-10																			10

Bad																			Good

thymid_PSS	Predicted Secondary Structure for your Sequence
thymid_Seq	Your Sequence
1nbd-0_Seq	Library Sequence
1nbd-0_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

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

-------

-

S

-

-

+

-

P

+

-

+

-

+

-

+

-

-

R

G

Q

-

+

G

+

-

-

+

G

K

+

+

L

+

+

-

-

+

1nbd-0_Seq

D

D

S

L

F

F

S

N

F

S

L

L

G

T

P

V

L

K

D

I

N

F

K

I

E

R

G

Q

L

L

A

V

A

G

S

T

G

A

G

K

T

S

.

L

L

M

M

I

M

G

1nbd-0_SS

H

H

H

H

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

E

E

E

C

C

C

C

C

H

H

H

H

.

H

H

H

H

H

H

H

CORE

0

0

0

0

0

0

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

2

0

1

0

9

0

0

0

0

0

0

0

0

0

3

0

.

0

0

4

0

0

0

0

thymid_PSS

H

H

H

C

C

C

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

thymid_Seq

F

Q

I

A

Q

Y

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

-------

+

-

-

-

-

-

-

H

-

+

+

-

+

-

-

-

+

-

+

+

-

-

E

-

+

-

1nbd-0_Seq

E

L

E

P

S

E

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

G

K

I

K

H

S

G

R

I

S

F

C

S

Q

F

S

W

I

M

P

G

T

I

K

E

N

I

I

F

1nbd-0_SS

H

H

C

C

C

C

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

C

C

C

C

C

C

C

C

C

C

C

C

E

C

C

C

C

C

H

H

H

H

H

H

H

H

C

C

C

CORE

0

0

0

0

0

0

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

0

0

0

0

0

0

3

0

2

2

2

0

1

0

0

0

0

0

0

0

0

0

3

0

0

0

4

0

0

thymid_PSS

E

E

E

E

E

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

thymid_Seq

A

V

I

G

I

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

-------

V

-

D

E

-

+

-

-

+

-

C

+

+

-

-

-

K

-

-

I

V

+

G

-

-

-

-

G

-

-

-

1nbd-0_Seq

G

V

S

Y

.

D

E

Y

R

.

Y

R

S

V

I

K

A

C

Q

L

E

E

D

I

S

K

F

A

E

K

D

N

I

V

L

G

.

E

G

G

I

.

.

T

L

S

G

G

Q

R

1nbd-0_SS

C

C

C

C

.

C

C

E

C

.

C

C

C

C

C

C

H

H

H

H

H

H

C

C

C

C

C

C

C

C

E

E

C

C

E

E

.

C

C

C

C

.

.

C

C

C

C

C

C

C

CORE

1

0

0

0

.

0

0

2

0

.

1

0

0

0

4

0

0

0

0

0

0

0

1

6

0

0

1

0

0

0

1

1

0

6

0

1

.

2

4

4

0

.

.

1

0

0

3

0

0

0

thymid_PSS

H

H

H

H

H

H

H

H

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

H

H

H

H

H

thymid_Seq

N

L

V

P

L

A

E

S

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

S

V

C

R

L

-------

-

-

+

-

L

A

-

V

K

+

A

-

-

-

-

-

-

-

-

-

+

V

+

-

+

-

+

S

C

1nbd-0_Seq

A

R

I

S

L

A

R

A

V

Y

K

.

.

.

.

.

.

.

.

.

.

D

A

D

L

Y

L

L

D

S

P

F

G

Y

L

D

V

L

T

E

K

E

I

F

E

S

.

C

.

V

1nbd-0_SS

C

H

H

H

H

H

H

H

H

H

H

.

.

.

.

.

.

.

.

.

.

C

C

E

E

C

E

E

E

E

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

.

H

.

C

CORE

0

0

0

0

0

6

0

8

1

0

0

.

.

.

.

.

.

.

.

.

.

0

0

0

1

1

6

8

0

4

0

5

0

0

0

0

0

0

0

1

0

0

0

0

0

0

.

5

.

0

thymid_PSS

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

H

C

C

C

C

thymid_Seq

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

L

Q

C

S

P

-------

C

-

-

-

+

-

-

-

-

-

-

-

-

-

-

E

-

+

-

-

-

+

-

G

+

+

-

+

F

-

-

-

Q

-

L

Q

1nbd-0_Seq

C

K

L

M

A

N

K

T

R

I

L

V

T

S

K

M

E

H

L

K

K

A

D

K

I

L

I

L

H

E

G

S

S

Y

F

Y

G

T

.

F

S

E

L

Q

N

L

Q

.

.

.

1nbd-0_SS

C

C

C

C

C

C

C

C

C

C

E

E

E

E

E

C

C

C

C

C

C

C

E

E

E

E

C

C

C

C

H

H

H

H

H

H

H

H

.

H

H

H

H

H

H

C

C

.

.

.

CORE

0

0

0

0

0

0

0

0

0

2

5

7

1

3

0

4

0

0

0

0

0

6

0

1

0

7

5

0

0

0

0

0

2

0

0

0

0

0

.

0

0

0

0

0

0

0

0

.

.

.

thymid_PSS		C	C
thymid_Seq		A	N
-------			-
1nbd-0_Seq		.	P
1nbd-0_SS		.	C
CORE		.	0