Alignment of TRAD_HUMAN_whole with 2bpfA-

Alignment of TRAD_HUMAN_whole with 2bpfA-

PSSM Score Key
-10																			10

Bad																			Good

TRAD_H_PSS	Predicted Secondary Structure for your Sequence
TRAD_H_Seq	Your Sequence
2bpfA-_Seq	Library Sequence
2bpfA-_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

TRAD_H_PSS

C

C

C

C

C

C

.

.

.

.

.

.

.

.

.

C

H

H

H

H

E

E

E

E

E

E

E

E

E

C

H

H

H

H

H

H

H

H

C

C

C

C

C

C

.

.

.

.

.

.

TRAD_H_Seq

M

A

A

G

Q

N

.

.

.

.

.

.

.

.

.

G

H

E

E

W

V

G

S

A

Y

L

F

V

E

S

S

L

D

K

V

V

L

S

D

A

Y

A

H

P

.

.

.

.

.

.

-------

-

-

+

+

-

-

E

+

-

V

+

A

+

-

-

+

-

-

-

-

+

-

-

-

Y

-

H

+

2bpfA-_Seq

E

T

L

N

G

G

I

T

D

M

L

V

E

L

A

N

F

E

K

N

V

S

Q

A

I

H

K

Y

N

A

Y

R

K

A

A

S

V

I

A

K

Y

P

H

K

I

K

S

G

A

E

2bpfA-_SS

C

C

C

H

H

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

H

H

H

H

H

H

H

C

C

C

C

C

C

C

H

H

H

CORE

0

0

0

0

0

0

2

1

0

0

3

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

0

0

4

1

0

1

3

0

0

0

0

0

0

3

0

0

1

0

0

TRAD_H_PSS

H

H

H

H

.

.

.

.

.

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

C

C

C

C

E

E

E

E

E

E

H

H

H

C

C

TRAD_H_Seq

Q

Q

K

V

.

.

.

.

.

A

V

Y

R

A

L

Q

A

A

L

A

E

S

G

G

S

P

D

V

L

Q

M

L

K

I

H

R

S

D

P

Q

L

I

V

Q

L

R

F

C

G

R

-------

-

K

-

+

-

-

+

-

-

L

A

-

G

-

-

L

+

-

+

+

-

-

-

-

-

+

-

-

R

-

-

G

-

2bpfA-_Seq

A

K

K

L

P

G

V

G

T

K

I

A

E

K

I

D

E

F

L

A

.

.

T

G

K

L

R

K

L

E

K

I

R

Q

D

D

T

S

S

S

I

N

F

L

T

R

V

T

G

I

2bpfA-_SS

H

H

H

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

.

.

C

C

C

C

H

H

H

H

H

H

H

H

C

C

H

H

H

H

H

H

H

H

H

H

C

C

C

C

CORE

4

0

0

1

0

2

3

0

0

0

3

3

0

0

2

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

7

2

0

3

0

0

8

TRAD_H_PSS

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

E

E

E

E

E

C

C

C

H

H

H

H

H

H

H

C

C

TRAD_H_Seq

Q

P

C

G

R

F

L

R

A

Y

R

E

G

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

H

S

V

P

L

Q

L

E

L

R

A

G

A

E

R

L

D

A

L

L

A

-------

-

P

-

+

-

-

-

+

-

E

G

H

R

-

G

-

-

+

+

2bpfA-_Seq

G

P

.

S

A

A

R

K

L

V

D

E

G

I

K

T

L

E

D

L

R

K

N

E

D

K

L

N

H

H

Q

.

.

.

.

.

.

.

R

I

G

L

K

Y

F

E

D

F

.

.

2bpfA-_SS

C

H

.

H

H

H

H

H

H

H

H

H

C

C

C

C

H

H

H

H

H

H

H

H

H

H

C

C

H

H

H

.

.

.

.

.

.

.

H

H

H

H

H

H

H

H

H

H

.

.

CORE

0

0

.

0

0

6

0

0

7

2

0

0

0

3

0

0

1

0

0

8

0

0

0

0

0

0

6

0

0

0

0

.

.

.

.

.

.

.

0

1

1

4

0

0

0

0

0

1

.

.

TRAD_H_PSS

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

E

E

E

E

E

E

E

C

C

C

.

.

.

C

C

C

C

.

C

C

.

.

.

.

TRAD_H_Seq

D

E

E

R

C

L

S

C

I

L

A

Q

Q

P

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

N

L

K

C

G

S

.

.

.

G

A

R

G

.

G

D

.

.

.

.

-------

+

+

+

-

-

+

L

-

Q

-

-

-

C

G

S

G

A

-

+

G

D

2bpfA-_Seq

E

K

R

I

P

R

E

E

M

L

Q

M

Q

.

.

D

I

V

L

N

E

V

K

K

L

D

P

E

Y

I

A

T

V

C

G

S

F

R

R

G

A

E

S

S

G

D

M

D

V

L

2bpfA-_SS

H

C

C

E

E

H

H

H

H

H

H

H

H

.

.

H

H

H

H

H

H

H

H

H

H

C

C

C

C

E

E

E

E

C

C

C

H

H

H

C

C

C

E

E

C

C

E

E

E

E

CORE

0

0

0

2

0

0

0

0

2

0

0

3

0

.

.

0

1

8

2

0

0

5

0

0

0

0

0

0

1

0

9

0

3

0

0

0

0

0

0

0

0

0

0

1

0

0

4

0

7

1

TRAD_H_PSS

.

.

.

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

E

E

E

E

E

C

C

C

.

.

.

.

.

.

C

C

C

C

C

TRAD_H_Seq

.

.

.

G

E

V

A

S

A

P

L

Q

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

X

A

Q

T

F

L

F

Q

G

Q

P

.

.

.

.

.

.

V

V

N

R

P

-------

-

-

-

S

-

+

-

-

L

-

+

G

-

-

-

-

-

2bpfA-_Seq

L

T

H

P

N

F

T

S

E

S

S

K

Q

P

K

L

L

H

R

V

V

E

Q

L

Q

K

V

R

F

I

T

D

T

L

S

K

G

E

T

K

F

M

G

V

C

Q

L

P

S

E

2bpfA-_SS

E

E

C

C

C

C

C

C

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

E

C

C

C

E

E

E

E

E

E

E

C

C

C

C

CORE

8

0

0

0

0

1

0

0

0

0

0

0

0

0

0

1

5

0

0

3

4

0

0

4

0

0

0

0

5

6

0

0

0

1

0

0

1

0

0

0

5

0

2

1

5

0

2

0

0

0

TRAD_H_PSS

C

C

C

C

H

H

H

H

H

H

H

H

C

C

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

C

C

C

C

C

H

H

H

H

C

C

C

C

C

H

H

H

TRAD_H_Seq

L

S

L

K

D

Q

Q

T

F

A

R

S

V

G

L

K

W

R

K

V

G

R

S

L

Q

R

G

C

R

A

L

R

D

P

A

L

D

S

L

A

Y

E

Y

E

R

E

G

L

Y

E

-------

+

-

+

-

+

-

-

R

-

+

-

-

+

-

-

-

G

-

-

-

-

-

G

-

+

2bpfA-_Seq

N

E

Y

P

H

R

R

I

D

I

R

L

I

P

K

D

Q

Y

Y

C

G

V

L

Y

F

T

G

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

S

D

2bpfA-_SS

C

C

C

C

E

E

E

E

E

E

E

E

C

C

C

C

H

H

H

H

H

H

H

H

H

H

C

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

C

H

CORE

0

0

0

0

0

0

0

9

0

6

0

4

0

0

0

0

0

0

0

3

0

0

2

0

0

0

0

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

0

0

TRAD_H_PSS

H

H

H

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

TRAD_H_Seq

Q

A

F

Q

L

L

R

R

F

V

Q

A

E

G

.

.

.

R

R

A

T

L

Q

R

L

.

.

.

.

.

.

.

.

.

.

.

V

E

A

L

E

E

N

E

L

T

S

L

A

E

-------

-

-

-

+

R

-

+

+

G

-

T

+

+

L

V

+

E

+

+

-

-

-

2bpfA-_Seq

I

F

N

K

N

M

R

A

H

A

L

E

K

G

F

T

I

N

E

Y

T

I

R

P

L

G

V

T

G

V

A

G

E

P

L

P

V

D

S

.

.

E

Q

D

I

F

D

Y

I

.

2bpfA-_SS

H

H

H

H

H

H

H

H

H

H

H

H

H

C

E

E

E

C

C

C

C

E

E

E

E

E

C

C

C

E

E

C

C

C

E

C

C

C

C

.

.

H

H

H

H

H

H

H

H

.

CORE

0

0

0

0

0

3

0

0

0

5

0

0

0

0

4

0

6

0

0

0

0

8

0

1

0

0

0

0

0

0

0

0

0

0

3

0

5

0

0

.

.

0

0

0

6

1

0

1

6

.

TRAD_H_PSS

H

H

H

C

C

C

C

C

C

C

C

C

C

TRAD_H_Seq

D

L

L

G

L

T

D

P

N

G

G

L

A

-------

-

-

-

+

P

-

-

-

2bpfA-_Seq

.

Q

W

R

Y

R

E

P

K

D

R

S

E

2bpfA-_SS

.

C

C

C

C

C

C

H

H

H

C

C

C

CORE

.

0

0

0

0

0

0

0

0

0

0

0

0