Alignment of thymidine_kinase with 1rcf-0

Alignment of thymidine_kinase with 1rcf-0

PSSM Score Key
-10																			10

Bad																			Good

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

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

-------

-

-

I

-

+

+

G

-

+

+

G

K

T

E

-

+

-

-

R

-

+

+

+

1rcf-0_Seq

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

S

K

K

I

G

L

F

Y

G

T

Q

.

T

G

K

.

T

E

S

V

A

E

I

I

R

D

E

F

G

.

.

.

.

1rcf-0_SS

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

C

C

C

E

E

E

E

E

C

C

C

.

C

C

H

.

H

H

H

H

H

H

H

H

H

H

H

H

C

.

.

.

.

CORE

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

0

0

0

5

2

6

3

1

1

0

0

.

0

0

0

.

2

0

0

3

4

0

1

6

0

0

0

4

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

.

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

.

G

-------

-

-

-

+

H

D

-

+

-

+

E

+

-

-

+

+

-

-

+

-

+

I

G

+

-

-

+

1rcf-0_Seq

.

.

.

.

.

.

.

.

.

.

.

N

D

V

V

T

L

H

D

V

S

Q

A

E

V

.

.

.

.

.

.

.

.

T

D

L

N

D

Y

Q

Y

L

I

I

G

C

P

T

W

N

1rcf-0_SS

.

.

.

.

.

.

.

.

.

.

.

C

C

C

E

E

E

E

E

H

H

H

C

C

H

.

.

.

.

.

.

.

.

H

H

H

H

C

C

C

E

E

E

E

E

E

E

E

E

C

CORE

.

.

.

.

.

.

.

.

.

.

.

0

0

0

3

0

2

0

0

2

0

0

1

0

2

.

.

.

.

.

.

.

.

0

0

5

0

0

0

0

0

4

9

5

2

2

0

0

0

0

thymid_PSS

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

thymid_Seq

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

+

-

+

+

+

G

K

+

V

-

+

-

+

D

+

-

-

-

-

F

+

+

1rcf-0_Seq

I

G

E

L

Q

S

D

W

E

G

L

Y

S

E

L

D

D

V

D

F

N

G

K

L

V

A

Y

F

G

T

G

D

Q

I

G

Y

A

D

N

F

Q

D

A

I

G

.

.

.

.

.

1rcf-0_SS

C

C

E

E

C

H

H

H

H

H

H

H

H

C

H

H

H

C

C

C

C

C

C

E

E

E

E

E

E

E

C

C

C

C

C

C

C

C

C

C

C

H

H

H

H

.

.

.

.

.

CORE

0

0

0

2

0

0

0

2

0

0

2

0

0

0

4

0

0

1

0

4

0

0

0

2

4

7

1

6

1

1

0

0

0

0

0

0

0

0

0

0

0

0

1

2

1

.

.

.

.

.

thymid_PSS		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	H	C	C	C
thymid_Seq		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	C	Y	F	K
-------						+	L	-		-	+		-	+	+												G	-					+		+	+	G					D	-	Y		+								F
1rcf-0_Seq		.	.	.	.	I	L	E	E	K	I		S	Q	R	.	.	.	.	.	.	.		.	.	.	G	G	.	.	.	.	K		T	V	G	Y	W	S	T	D	G	Y		D	.	.	.	.	.	.	.	F	N
1rcf-0_SS		.	.	.	.	H	H	H	H	H	H		H	H	H	.	.	.	.	.	.	.		.	.	.	C	C	.	.	.	.	E		E	C	C	C	E	E	C	C	C	C		C	.	.	.	.	.	.	.	C	C
CORE		.	.	.	.	0	3	0	0	0	4		0	0	0	.	.	.	.	.	.	.		.	.	.	0	2	.	.	.	.	0		0	4	1	0	0	0	0	0	0	0		0	.	.	.	.	.	.	.	0	0

thymid_PSS

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

C

C

thymid_Seq

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

A

N

-------

-

-

-

-

G

-

-

-

-

-

-

-

+

-

+

+

+

+

-

K

-

+

+

Q

+

+

-

-

-

-

1rcf-0_Seq

D

S

K

A

L

R

N

G

K

F

V

G

L

A

L

D

E

D

N

Q

S

D

L

T

D

D

R

I

K

S

W

V

.

A

Q

L

K

S

E

F

G

L

.

1rcf-0_SS

C

C

C

C

E

E

C

C

E

E

C

C

E

E

E

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

.

H

H

H

H

H

H

H

C

C

.

CORE

0

0

0

2

0

0

0

0

0

1

2

1

2

0

3

0

0

0

0

0

0

0

0

1

0

0

0

3

0

0

2

2

.

0

0

5

0

0

0

4

0

2

.