Shikimate 5-Dehydrogenase

(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 Shikimate 5-Dehydrogenase
  Conformer 1
(PDB) 		2d5c (A)
  Conformer 2
(PDB) 		1wxd (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 132 0.41   3 - 106   231 - 258
2 124 0.49   107 - 230

Sequence


           ___________________________________________________________________________________________________102__________________ 
 2d5c(A) : MLRFAVLGHPVAHSLSPAMHAFALESLGLEGSYEAWDTPLEALPGRLKEVRRAFRGVNLTLPLKEAALAHLDWVSPEAQRIGAVNTVLQVEGRLFGFNTDAPGFLEALKAGGIPLKGPAL 
         :                                                                                                                          
 1wxd(B) : MLRFAVLGHPVAHSLSPAMHAFALESLGLEGSYEAWDTPLEALPGRLKEVRRAFRGVNLTLPLKEAALAHLDWVSPEAQRIGAVNTVLQVEGRLFGFNTDAPGFLEALKAGGIPLKGPAL 
           ___________________________________________________________________________________________________102__________________ 

           ___________________________________________________________________________________________________________230__________ 
 2d5c(A) : VLGAGGAGRAVAFALREAGLEVWVWNRTPQRALALAEEFGLRAVPLEKAREARLLVNATRVGLEDPSASPLPAELFPEEGAAVDLVYRPLWTRFLREAKAKGLKVQTGLPMLAWQGALAF 
         :                                                                                                                          
 1wxd(B) : VLGAGGAGRAVAFALREAGLEVWVWNRTPQRALALAEEFGLRAVPLEKAREARLLVNATRVGLEDPSASPLPAELFPEEGAAVDLVYRPLWTRFLREAKAKGLKVQTGLPMLAWQGALAF 
           ___________________________________________________________________________________________________________230__________ 

           _______________________                                                                                                  
 2d5c(A) : RLWTGLLPDPSGMEEAARRAL**                                                                                                  
         :                                                                                                                          
 1wxd(B) : RLWTGLLPDPSGMEEAARRALGV                                                                                                  
           _______________________                                                                                                  

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		12.9
Translation
(A) 		-0.3
Closure
(%) 		84.7
Bending Residues
( green ) 		  102 - 111
  230 - 231
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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