D-3-Phosphoglycerate Dehydrogenase (Phosphoglycerate 3 Dehydrogenase) (E.C.1.1.1.95)

(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-3-Phosphoglycerate Dehydrogenase (Phosphoglycerate 3 Dehydrogenase) (E.C.1.1.1.95)
  Conformer 1
(PDB)
1psd (A)
  Conformer 2
(PDB)
1yba (D)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 204 0.52   11 - 107   299 - 408
2 186 0.44   108 - 298

Sequence


           __________________________________________________________________________________________________105___________________ 
 1psd(A) : **EKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLL 
         :                                                                                                                          
 1yba(D) : SLEKDKIKFLLVEGVHQKALESLRAAGYTNIEFHKGALDDEQLKESIRDAHFIGLRSRTHLTEDVINAAEKLVAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGELLLLL 
           __________________________________________________________________________________________________105___________________ 

           ________________________________________________________________________________________________________________________ 
 1psd(A) : RGVPEANAKAHRGVWNKLAAGSFEARGKKLGIIGYGHIGTQLGILAESLGMYVYFYDIENKLPLGNATQVQHLSDLLNMSDVVSLHVPENPSTKNMMGAKEISLMKPGSLLINASRGTVV 
         :                                                                                                                          
 1yba(D) : RGVPEANAKAHRGVWNKLAAGSFEARGKKLGIIGYGHIGTQLGILAESLG-yVYFYDIENKLPLGNATQVQHLSDLLN-sDVVSLHVPENPSTKN--gAKEISL-kPGSLLINASRGTVV 
           ________________________________________________________________________________________________________________________ 

           ___________________________________________________298__________________________________________________________________ 
 1psd(A) : DIPALCDALASKHLAGAAIDVFPTEPATNSDPFTSPLCEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRLMHIHENRPGVLTALNKIFAEQGVN 
         :                                                                                                                          
 1yba(D) : DIPALCDALASKHLAGAAIDVFPTEPATNSDPFTSPLCEFDNVLLTPHIGGSTQEAQENIGLEVAGKLIKYSDNGSTLSAVNFPEVSLPLHGGRRL-hIHENRPGVLTALNKIFAEQGVN 
           ___________________________________________________298__________________________________________________________________ 

           ______________________________________________                                                                           
 1psd(A) : IAAQYLQTSAQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARLLY                                                                           
         :                                                                                                                          
 1yba(D) : IAAQYLQTSAQ-gYVVIDIEADEDVAEKALQA-kAIPGTIRARLLY                                                                           
           ______________________________________________                                                                           

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
12.5
Translation
(A)
-0.6
Closure
(%)
21.6
Bending Residues
( green )
  105 - 109
  298 - 299
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Mixed

PyMOL Script

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