Skip to main content

Table 4 Evolutionary trace residues in ISDR and V3 region of NS5A from genotype 1b, 3a and 2a

From: Structural and molecular basis of interaction of HCV non-structural protein 5A with human casein kinase 1α and PKR

Genotype 1b Vs 3a

Genotype 1b Vs 2a

Genotype 1b Vs 3a and 2a

Trace residues (NS5A -1b)

Trace residues (NS5A -3A)

Blosum-62 substitution score

Trace residues (NS5A -1b)

Trace residues (NS5A -2A)

BLOSUM-62 substitution score

Trace residues (NS5A-1b)

Trace residues in (NS5A -3a and 2a)

BLOSUM-62 Substitution score

T244

Q244

0

K240

R240

2

I255

V255

V255

1

H247

R247

0

H247

G247

−2

E256

D256

D256

2

D248

P248

−1

P250

Y250

−3

N276

T276

S272

0,1

S249

H249

−1

A252

V252

−2

E293

D293

D289

2

D253

E253

2

L254

M254

2

-

K384

P380

 

I255

V255

1

I255

V255

1

-

P385

P381

 

E256

D256

2

E256

D256

2

-

Q386

S382

 

G267

S267

0

L260

F260

0

-

E387

G383

 

N276

T276

0

W261

-

 

-

E388

D384

 

E293

D293

2

R262

-

 

A387

G394

G390

0

I302

C302

−1

Q263

-

 

T292

S399

D395

1,1

G381

P381

−2

E264

-

 

A293

S400

S396

1

-

K384

 

I269

V265

1

-

V405

T400

 

-

P385

 

V272

I268

3

S401

-

-

 

-

Q386

 

N276

S272

1

D402

-

-

 

-

E387

 

I280

V276

1

G404

-

-

 

-

E388

 

F284

L280

0

D405

-

-

 

A387

G394

0

L287

M283

2

    

S390

T397

1

A289

E285

−1

    

G391

Q398

−2

D292

S288

0

    

T392

S399

1

E293

D289

2

    

A393

S400

1

R294

L290

−2

    

P396

S403

−1

V298

I294

3

    

P397

K404

−1

A300

S296

1

    

D398

V405

−3

I302

Y298

−1

    

Q399

P406

−1

-

Q378

     

D402

P409

−1

-

P379

     

D405

E412

2

-

P380

     

G407

-

 

-

P381

     
   

-

S382

     
   

-

G383

     
   

-

D384

     
   

-

S385

     
   

-

G386

     
   

-

L387

     
    

T389

1

    
    

A391

1

    
    

D392

0

    
    

-

     
    

E404

2

    
    

-

     
    

-

     
    

-

     
    

-

     
    

L407

−4

    
  1. Trace residues are picked up if complete/ high conservation (mostly >90% and very few residues showing >80%) or conservative substitution of two different residues or a residue and a gap from both multiple sequence alignment are being compared. The extent of amino acid substitution across genotypes in NS5A has been shown using BLOSUM – 62 substitution score. The trace residues from NS5A genotype1b are predicted to be PKR interacting residues.
Back to article page

BMC Structural Biology

ISSN: 1472-6807

Contact us