Alignment of thymidine_kinase with 1gpmA1

Alignment of thymidine_kinase with 1gpmA1

PSSM Score Key
-10																			10

Bad																			Good

thymid_PSS	Predicted Secondary Structure for your Sequence
thymid_Seq	Your Sequence
1gpmA1_Seq	Library Sequence
1gpmA1_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

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

-------

-

+

+

-

-

-

+

-

-

-

+

-

R

-

Q

+

V

I

L

G

-

-

-

-

-

-

S

+

-

-

-

-

R

-

-

-

+

1gpmA1_Seq

W

.

.

.

T

P

A

K

I

I

D

D

A

V

A

R

I

R

E

Q

V

G

D

D

K

V

I

L

G

L

S

G

G

V

D

S

S

V

T

A

M

L

L

H

R

A

I

G

K

N

1gpmA1_SS

C

.

.

.

C

H

H

H

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

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

CORE

0

.

.

.

0

0

0

0

1

2

0

0

1

1

0

0

4

0

0

0

3

0

0

0

0

7

1

7

0

6

0

2

0

1

0

2

4

5

3

9

3

4

7

0

0

1

2

0

0

0

thymid_PSS

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

E

E

E

E

E

E

thymid_Seq

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

A

V

I

G

I

D

-------

-

C

+

+

D

-

+

+

-

-

+

A

-

-

D

-

-

+

+

G

-

+

+

-

+

1gpmA1_Seq

L

T

C

V

F

V

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

D

N

G

L

L

R

L

N

E

A

E

Q

V

L

D

M

F

G

D

H

F

G

L

N

I

V

H

V

.

1gpmA1_SS

E

E

E

E

E

E

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

E

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

E

E

E

E

.

CORE

6

0

5

1

2

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

0

0

0

0

0

0

0

0

0

0

0

0

2

1

0

1

5

1

0

0

1

0

5

0

4

0

0

1

.

thymid_PSS

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

H

H

thymid_Seq

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

V

V

-------

P

-

-

-

F

-

A

A

+

-

-

-

-

-

-

R

K

-

-

G

-

+

-

-

-

V

+

-

E

-

-

1gpmA1_Seq

.

.

.

.

.

P

A

E

D

R

F

L

S

A

L

A

G

E

N

D

P

.

.

.

.

.

.

.

.

E

A

K

R

K

I

I

G

R

V

F

V

E

V

.

F

D

E

E

A

L

1gpmA1_SS

.

.

.

.

.

E

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

H

.

H

H

H

H

H

H

CORE

.

.

.

.

.

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

1

.

0

0

0

0

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	H	H	H	H	H	H		H	C	C	C	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	H	S	V	C	R	L		C	Y	F	K	K	A	S	G	Q	P
-------		K	L																								+	-	-	+	+	+	G		-		-	Y	-	-	V	-	-	-
1gpmA1_Seq		K	L	E	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	D	V	K	W	L	A	Q	G		T	.	I	Y	P	D	V	I	E	S		.	.	.	.	.	.	.	.	.	.
1gpmA1_SS		H	C	C	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	C	E	E	E	E	E	C	C		C	.	C	H	H	H	H	H	H	H		.	.	.	.	.	.	.	.	.	.
CORE		0	1	0	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	0	0	0	0	0	8	0	1		0	.	1	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

H

H

H

H

H

H

H

H

.

.

.

.

C

C

C

H

H

H

H

C

C

C

C

C

C

thymid_Seq

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

-------

-

K

-

-

-

P

-

K

-

-

-

-

-

-

-

R

K

+

-

P

+

L

-

-

P

-

-

1gpmA1_Seq

.

.

.

A

A

K

M

G

L

V

E

P

L

K

E

L

F

K

D

E

V

R

K

I

G

L

E

L

G

L

P

Y

D

M

L

Y

R

H

P

F

P

1gpmA1_SS

.

.

.

C

C

C

C

E

E

E

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

H

H

H

H

H

C

C

C

C

C

CORE

.

.

.

0

0

0

0

0

0

6

0

2

4

0

0

1

0

0

0

0

3

0

0

3

2

0

0

2

0

4

0

0

0

2

2

0

0

0

0

0

0