Alignment of thymidine_kinase with 1dar-2

Alignment of thymidine_kinase with 1dar-2

PSSM Score Key
-10																			10

Bad																			Good

thymid_PSS	Predicted Secondary Structure for your Sequence
thymid_Seq	Your Sequence
1dar-2_Seq	Library Sequence
1dar-2_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

E

E

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

K

C

-------

M

+

-

-

-

R

+

+

-

-

+

I

+

+

-

G

K

+

T

-

+

+

R

-

-

-

-

-

1dar-2_Seq

M

A

.

.

.

.

.

.

.

V

K

V

E

Y

D

L

K

R

L

R

N

I

G

I

A

A

H

I

D

A

G

K

T

T

T

T

E

R

I

L

Y

.

.

.

Y

T

G

R

A

A

1dar-2_SS

C

C

.

.

.

.

.

.

.

C

C

C

C

C

C

H

H

H

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

C

C

C

C

CORE

0

0

.

.

.

.

.

.

.

0

0

0

0

0

0

0

0

0

0

0

0

6

3

5

0

1

0

0

0

1

0

0

0

0

3

1

0

0

6

1

0

.

.

.

0

1

0

0

0

0

thymid_PSS

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

E

C

thymid_Seq

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

D

E

-------

+

-

+

-

K

D

-

R

-

-

-

+

-

+

+

-

-

-

-

V

+

-

-

L

-

A

+

+

-

D

1dar-2_Seq

V

T

T

C

F

W

K

D

H

R

.

.

.

.

.

.

.

.

I

N

I

I

D

T

P

G

H

V

D

F

T

I

E

V

E

R

S

M

R

V

L

D

G

A

I

V

V

F

D

S

1dar-2_SS

E

E

E

E

E

E

C

C

E

E

.

.

.

.

.

.

.

.

E

E

E

E

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

C

C

E

E

E

E

E

E

E

C

CORE

0

1

0

3

0

0

0

0

0

0

.

.

.

.

.

.

.

.

4

0

5

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

3

1

9

1

3

2

0

2

thymid_PSS

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

H

H

thymid_Seq

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

V

V

-------

Q

-

-

P

-

+

+

-

+

+

+

+

I

+

-

A

-

+

-

-

+

G

A

-

L

L

V

-

1dar-2_Seq

S

Q

G

V

E

P

Q

S

E

T

V

W

R

Q

A

E

K

Y

K

V

P

R

I

A

F

A

N

K

M

D

.

.

.

.

K

T

G

A

D

L

W

L

V

.

I

R

T

M

Q

E

1dar-2_SS

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

E

E

E

E

E

E

C

C

C

.

.

.

.

C

C

C

C

C

H

H

H

H

.

H

H

H

H

H

H

CORE

0

0

1

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

1

1

0

8

4

4

4

0

0

3

0

.

.

.

.

0

0

0

1

0

3

0

0

3

.

1

0

0

3

0

0

thymid_PSS

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

thymid_Seq

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

-------

+

L

A

V

-

M

+

+

-

R

E

-

+

-

-

G

-

+

-

+

+

+

+

I

-

-

-

+

-

Y

1dar-2_Seq

R

L

G

A

R

P

V

V

M

Q

L

P

I

G

R

E

D

T

F

S

G

I

I

D

V

L

R

M

K

A

Y

T

Y

G

N

D

L

G

T

D

I

R

E

I

P

I

P

E

E

Y

1dar-2_SS

H

C

C

C

C

E

E

E

C

E

E

E

E

C

C

H

H

H

C

C

E

E

E

E

C

C

C

C

E

E

E

E

E

C

C

C

C

C

C

C

E

E

E

E

C

C

C

H

H

H

CORE

0

1

0

1

0

1

4

1

4

0

2

1

2

0

0

0

0

0

1

0

1

2

3

0

2

4

0

1

0

3

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

2

1

0

0

0

thymid_PSS

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

C

C

C

C

C

H

H

H

H

H

H

H

.

.

.

.

.

.

thymid_Seq

H

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

.

.

.

.

.

.

-------

-

-

+

R

-

Y

K

-

-

+

-

A

-

D

-

+

-

-

-

-

-

P

-

-

-

-

-

-

A

-

R

K

1dar-2_Seq

L

D

Q

A

R

E

.

Y

H

E

K

L

V

E

V

A

A

D

F

D

E

N

I

M

L

K

Y

L

E

G

E

E

P

T

E

E

E

L

V

A

A

I

R

K

G

T

I

D

L

K

1dar-2_SS

H

H

H

H

H

H

.

H

H

H

H

H

H

H

H

H

H

C

C

C

H

H

H

H

H

H

H

H

H

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

CORE

0

0

0

3

0

0

.

0

0

0

0

5

2

0

3

5

1

0

1

0

0

0

3

0

0

0

0

0

0

0

0

0

1

0

0

0

0

4

1

0

3

6

0

0

0

2

0

0

0

0

thymid_PSS		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	H	C	C	C	H		H	H	H	C	C	C	C	C	C
thymid_Seq		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	L	F	A	P	Q		Q	I	L	Q	C	S	P	A	N
-------																		-	-	+	-	+		+	+	+	+	-	-	P
1dar-2_Seq		I	T	P	V	F	L	G	S	A	L		K	N	K	G	V	Q	L	L	L	D		A	V	V	D	Y	L	P	S	.
1dar-2_SS		C	E	E	E	E	E	C	E	H	H		H	C	E	C	H	H	H	H	H	H		H	H	H	H	H	C	C	C	.
CORE		3	1	3	5	4	3	2	0	2	0		0	0	0	1	1	0	0	7	2	0		3	5	1	0	2	5	0	0	.