Programmed Cell Death 1 Ligand 1

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

  Property   Value
  Name Programmed Cell Death 1 Ligand 1
  Conformer 1
(PDB) 		5jdr (A)
  Conformer 2
(PDB) 		3bik (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 109 0.72   24 - 132
2 95 0.72   133 - 227

Sequence


           ________________________________________________________________________________________________________________132_____ 
 5jdr(A) : ****TVPKDLYVVEYGSNMTIECKFPVEKQLDLAALIVYWEMEDKNIIQFVHGEEDLKVQHSSYRQRARLLKDQLSLGNAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNKI 
         :                                                                                                                          
 3bik(A) : AFTVTVPKDLYVVEYGSNMTIECKFPVEKQLDLAALIVYWEMEDKNIIQFVHGEEDLKVQHSSYRQRARLLKDQLSLGNAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNKI 
           ________________________________________________________________________________________________________________132_____ 

           _____________________________________________________________________________________________                            
 5jdr(A) : NQRILVVDPVTSEHELTCQAEGYPKAEVIWTSSDHQVLSGKTTTTNSKREEKLFNVTSTLRINTTTNEIFYCTFRRLDPEENHTAELVIPELP                            
         :                                                                                                                          
 3bik(A) : NQRILVVDPVTSEHELTCQAEGYPKAEVIWTSSDHQVLSGKTTTTNSKREEKLFNVTSTLRINTTTNEIFYCTFRRLDPEENHTAELVIPEL*                            
           _____________________________________________________________________________________________                            

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		38.1
Translation
(A) 		0.1
Closure
(%) 		84.5
Bending Residues
( green ) 		  132 - 134
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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