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) 		1nyt (A)
  Conformer 2
(PDB) 		1nyt (D)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 151 0.53   82 - 82   101 - 245   264 - 268
2 113 0.43   5 - 81   83 - 100   246 - 263

Sequence


           ____________________________________________________________________________78___________________100____________________ 
 1nyt(A) : METYAVFGNPIAHSKSPFIHQQFAQQLNIEHPYGRVLAPINDFINTLNAFFSAGGKGANVTVPFKEEAFARADELTERAALAGAVNTLMRLEDGRLLGDNTDGVGLLSDLERLSFIRPGL 
         :                                                                                                                          
 1nyt(D) : METYAVFGNPIAHSKSPFIHQQFAQQLNIEHPYGRVLAPINDFINTLNAFFSAGGKGANVTVPFKEEAFARADELTERAALAGAVNTLMRLEDGRLLGDNTDGVGLLSDLERLSFIRPGL 
           ____________________________________________________________________________78___________________100____________________ 

           ________________________________________________________________________________________________________________________ 
 1nyt(A) : RILLIGAGGASRGVLLPLLSLDCAVTITNRTVSRAEELAKLFAHTGSIQALSMDELEGHEFDLIINATSSGISGDIPAIPSSLIHPGIYCYDMFYQKGKTPFLAWCEQRGSKRNADGLGM 
         :                                                                                                                          
 1nyt(D) : RILLIGAGGASRGVLLPLLSLDCAVTITNRTVSRAEELAKLFAHTGSIQALSMDELEGHEFDLIINATSSGISGDIPAIPSSLIHPGIYCYDMFYQKGKTPFLAWCEQRGSKRNADGLGM 
           ________________________________________________________________________________________________________________________ 

           __245______________262_________                                                                                          
 1nyt(A) : LVAQAAHAFLLWHGVLPDVEPVIKQLQEELS                                                                                          
         :                                                                                                                          
 1nyt(D) : LVAQAAHAFLLWHGVLPDVEPVIKQLQEEL*                                                                                          
           __245______________262_________                                                                                          

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		10.7
Translation
(A) 		-0.2
Closure
(%) 		93.9
Bending Residues
( green ) 		  78 - 83
  100 - 101
  245 - 246
  262 - 267
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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