Alignment of thymidine_kinase with 1ybvA0

Alignment of thymidine_kinase with 1ybvA0

PSSM Score Key
-10																			10

Bad																			Good

thymid_PSS	Predicted Secondary Structure for your Sequence
thymid_Seq	Your Sequence
1ybvA0_Seq	Library Sequence
1ybvA0_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

-------

-

-

P

-

-

L

+

+

-

-

+

G

+

-

+

+

-

G

G

-

+

-

R

-

-

-

-

+

+

+

-

-

C

1ybvA0_Seq

.

.

.

D

A

I

P

G

P

L

G

P

Q

S

A

S

L

E

G

K

V

A

L

V

T

G

.

.

.

A

G

R

G

.

.

.

I

G

R

E

M

A

M

E

L

G

R

R

G

C

1ybvA0_SS

.

.

.

C

C

C

C

C

C

C

C

H

H

H

H

C

C

C

C

E

E

E

E

E

E

C

.

.

.

C

C

C

H

.

.

.

H

H

H

H

H

H

H

H

H

H

H

H

C

E

CORE

.

.

.

0

0

0

0

0

0

0

0

0

0

0

0

0

5

0

0

0

1

5

4

7

2

0

.

.

.

4

0

0

0

.

.

.

2

2

0

0

4

8

1

0

9

2

0

0

0

4

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

.

.

.

.

.

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

.

.

.

.

.

-------

+

+

+

-

Y

A

T

-

-

-

-

-

-

-

A

-

-

-

-

-

-

D

+

+

+

-

1ybvA0_Seq

K

V

I

V

N

Y

A

N

S

T

E

S

A

E

E

V

V

A

A

I

K

K

N

G

S

D

A

A

C

V

K

A

N

V

G

V

V

E

D

I

V

R

M

F

E

E

A

V

K

I

1ybvA0_SS

E

E

E

E

E

E

C

C

C

H

H

H

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

H

H

H

H

H

H

H

H

H

H

H

CORE

0

7

3

5

0

0

0

0

0

0

0

0

2

0

0

3

2

0

0

5

0

0

0

0

1

0

3

0

1

1

0

1

0

3

0

0

0

0

0

1

0

0

2

3

0

0

3

0

0

1

thymid_PSS		.	.	C	E	E	E	E	E	E	E		C	C	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	C	C	C		C	H	H	H	H	H	H	H	H	H
thymid_Seq		.	.	G	V	A	V	I	G	I	D		E	G	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	Q	F	F		P	D	I	M	E	F	C	E	A	M
-------				+	+	-	+	+	-	+	-		-	G																												Q	F	F						-	+		E	A
1ybvA0_Seq		F	G	K	L	D	I	V	C	S	N		S	G	V	V	S	F	G	H	V	K		D	V	T	P	E	E	F	D	R	V		F	T	I	N	T	R	G	Q	F	F		.	.	.	.	V	A	R	E	A	Y
1ybvA0_SS		H	C	C	C	C	E	E	E	E	C		C	C	C	C	C	C	C	C	H	H		H	C	C	H	H	H	H	H	H	H		H	H	H	H	H	H	H	H	H	H		.	.	.	.	H	H	H	H	H	H
CORE		0	0	0	4	0	6	5	5	2	1		1	0	0	0	0	0	0	0	0	0		0	0	0	0	0	0	0	0	0	0		0	0	1	0	0	0	0	0	0	0		.	.	.	.	4	3	0	0	3	0

thymid_PSS

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

H

C

C

H

H

H

H

H

H

.

C

C

thymid_Seq

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

K

L

T

A

V

C

M

E

C

.

F

R

-------

-

+

+

I

+

+

-

+

-

-

-

-

+

-

-

V

-

-

+

-

-

A

C

M

+

+

1ybvA0_Seq

K

H

L

E

I

G

G

R

L

I

L

M

G

.

.

.

S

I

T

G

Q

A

K

A

V

P

K

H

A

V

Y

S

G

S

K

G

A

I

E

T

F

A

R

C

M

A

I

D

M

A

1ybvA0_SS

H

H

C

C

C

C

C

E

E

E

E

E

C

.

.

.

C

H

H

H

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

CORE

0

0

3

0

0

0

0

0

5

6

4

3

2

.

.

.

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

2

0

0

0

3

0

0

2

1

0

0

2

0

thymid_PSS

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

C

C

C

C

C

C

C

C

C

.

.

.

.

thymid_Seq

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

K

A

S

G

Q

P

A

G

P

.

.

.

.

-------

-

-

-

T

-

-

-

+

-

G

G

-

D

-

Y

H

V

C

R

-

-

-

-

+

-

S

-

+

-

1ybvA0_Seq

D

K

K

I

T

V

N

V

.

.

.

.

.

.

V

A

P

G

G

I

K

T

D

M

Y

H

A

V

C

R

E

Y

I

P

N

G

E

N

L

S

N

E

E

V

D

E

Y

A

A

V

1ybvA0_SS

H

H

C

C

E

E

E

E

.

.

.

.

.

.

E

E

E

C

C

E

C

C

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

CORE

0

0

0

2

0

4

0

3

.

.

.

.

.

.

6

1

1

0

0

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

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

H

H

H

H

H

H

H

H

.

.

.

.

.

.

C

C

C

H

H

H

H

.

.

C

C

C

C

C

C

thymid_Seq

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

-------

+

+

-

-

-

-

-

V

-

-

-

-

+

-

A

-

+

+

-

-

L

+

-

+

+

+

-

-

-

-

1ybvA0_Seq

Q

W

S

P

L

R

R

V

G

L

P

I

D

I

A

R

V

V

C

F

L

A

S

N

D

G

G

W

V

T

G

K

V

I

G

I

D

G

G

A

C

M

1ybvA0_SS

H

H

C

C

C

C

C

C

E

C

H

H

H

H

H

H

H

H

H

H

H

H

C

H

H

H

C

C

C

C

C

E

E

E

E

E

C

C

C

C

C

C

CORE

0

0

0

0

0

0

0

0

0

0

0

0

0

4

1

0

2

6

2

0

3

7

1

0

0

0

0

0

1

1

1

0

0

2

0

2

0

0

0

0

0

0