D-Lactate 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 D-Lactate Dehydrogenase
  Conformer 1
(PDB)
1j4a (A)
  Conformer 2
(PDB)
1j4a (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 220 0.3   10 - 14   16 - 18   100 - 308   328 - 330
2 107 0.21   4 - 9   15 - 15   19 - 99   309 - 327

Sequence


           _______9___14__18_______________________________________________________________________________99______________________ 
 1j4a(A) : TKIFAYAIREDEKPFLKEWEDAHKDVEVEYTDKLLTPETVALAKGADGVVVYQQLDYIAETLQALADNGITKMSLRNVGVDNIDMAKAKELGFQITNVPVYSPNAIAEHAAIQAARILRQ 
         :                                                                                                                          
 1j4a(B) : TKIFAYAIREDEKPFLKEWEDAHKDVEVEYTDKLLTPETVALAKGADGVVVYQQLDYIAETLQALADNGITKMSLRNVGVDNIDMAKAKELGFQITNVPVYSPNAIAEHAAIQAARILRQ 
           _______9___14__18_______________________________________________________________________________99______________________ 

           ________________________________________________________________________________________________________________________ 
 1j4a(A) : DKAMDEKVARHDLRWAPTIGREVRDQVVGVVGTGHIGQVFMQIMEGFGAKVITYDIFRNPELEKKGYYVDSLDDLYKQADVISLHVPDVPANVHMINDESIAKMKQDVVIVNVSRGPLVD 
         :                                                                                                                          
 1j4a(B) : DKAMDEKVARHDLRWAPTIGREVRDQVVGVVGTGHIGQVFMQIMEGFGAKVITYDIFRNPELEKKGYYVDSLDDLYKQADVISLHVPDVPANVHMINDESIAKMKQDVVIVNVSRGPLVD 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________308________________327_____                              
 1j4a(A) : TDAVIRGLDSGKIFGYAMDVYEGEVGIFNEDWEGKEFPDARLADLIARPNVLVTPKTAFYTTHAVRNMVVKAFDNNLELVEGKEAETPVKV                              
         :                                                                                                                          
 1j4a(B) : TDAVIRGLDSGKIFGYAMDVYEGEVGIFNEDWEGKEFPDARLADLIARPNVLVTPKTAFYTTHAVRNMVVKAFDNNLELVEGKEAETPVKV                              
           ________________________________________________________________308________________327_____                              

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.8
Translation
(A)
0.1
Closure
(%)
67.1
Bending Residues
( green )
  9 - 10
  14 - 16
  18 - 19
  99 - 100
  308 - 309
  327 - 328
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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