Polyphosphate Kinase

(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 Polyphosphate Kinase
  Conformer 1
(PDB) 		1xdo (B)
  Conformer 2
(PDB) 		1xdp (B)
  Window Length 7
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 353 0.71   6 - 108   188 - 196   227 - 232   261 - 262   298 - 317   344 - 347   375 - 382   401 - 412   435 - 435   456 - 460   462 - 463   468 - 470   497 - 590   595 - 677   681 - 681
2 150 0.37   109 - 187   197 - 226   255 - 260   263 - 297
3 22 0.95   233 - 254
4 148 0.65   318 - 343   348 - 374   383 - 400   420 - 434   436 - 455   461 - 461   464 - 467   471 - 496   591 - 594   678 - 680   682 - 685

Sequence


           ________________________________________________________________________________________________________108_____________ 
 1xdo(B) : GQEKLYIEKELSWLSFNERVLQEAADKSNPLIERMRFLGIYSNNLDEFYKVRFAELKRRIIISEEQGSNSHSRHLLGKIQSRVLKADQEFDGLYNELLLEMARNQIFLINERQLSVNQQN 
         :                                                                                                                          
 1xdp(B) : GQEKLYIEKELSWLSFNERVLQEAADKSNPLIERMRFLGIYSNNLDEFYKVRFAELKRRIIISEEQGSNSHSRHLLGKIQSRVLKADQEFDGLYNELLLEMARNQIFLINERQLSVNQQN 
           ________________________________________________________________________________________________________108_____________ 

           _______________________________________________________________187______196___________________________226___232_________ 
 1xdo(B) : WLRHYFKQYLRQHITPILINPDTDLVQFLKDDYTYLAVEIIRGDTIRYALLEIPSDKVPRFVNLPPEAPRRRKPMILLDNILRYCLDDIFKGFFDYDALNAYSMKMTRDAEYDLVHEMEA 
         :                                                                                                                          
 1xdp(B) : WLRHYFKQYLRQHITPILINPDTDLVQFLKDDYTYLAVEIIRGDTIRYALLEIPSDKVPRFVNLPPEAPRRRKPMILLDNILRYCLDDIFKGFFDYDALNAYSMKMTRDAEYDLVHEMEA 
           _______________________________________________________________187______196___________________________226___232_________ 

           __________254___260__________________________________297_______________315_________________________343_347______________ 
 1xdo(B) : SLMELMSSSLKQRLTAEPVRFVYQRDMPNALVEVLREKLTISRYDSIVPGGRYHNFKDFINFPNVGKANLVNKPLPRLRHIWFDKAQFRNGFDAIRERDVLLYYPYHTFEHVLELLRQAS 
         :                                                                                                                          
 1xdp(B) : SLMELMSSSLKQRLTAEPVRFVYQRDMPNALVEVLREKLTISRYDSIVPGGRYHNFKDFINFPNVGKANLVNKPLPRLRHIWFDKAQFRNGFDAIRERDVLLYYPYHTFEHVLELLRQAS 
           __________254___260__________________________________297_______________315_________________________343_347______________ 

           ________372____379__________________400_________412___________________434__________________455__460_______470___________ 
 1xdo(B) : FDPSVLAIKINIYRVAKDSRIIDSMIHAAHNGKKVTVVVELQARFDEEANIHWAKRLTEAGVHVIFSAPGLKIHAKLFLISRKENGEVVRYAHIGTGNFNEKTARLYTDYSLLTADARIT 
         :                                                                                                                          
 1xdp(B) : FDPSVLAIKINIYRVAKDSRIIDSMIHAAHNGKKVTVVVELQARFDEEANIHWAKRLTEAGVHVIFSAPGLKIHAKLFLISRKENGEVVRYAHIGTGNFNEKTARLYTDYSLLTADARIT 
           ________372____379__________________400_________412___________________434__________________455__460_______470___________ 

           ____________496___________________________________________________________________________________________590_594_______ 
 1xdo(B) : NEVRRVFNFIENPYRPVTFDYLMVSPQNSRRLLYEMVDREIANAQQGLPSGITLKLNNLVDKGLVDRLYAASSSGVPVNLLVRGMCSLIPNLEGISDNIRAISIVDRYLEHDRVYIFENG 
         :                                                                                                                          
 1xdp(B) : NEVRRVFNFIENPYRPVTFDYLMVSPQNSRRLLYEMVDREIANAQQGLPSGITLKLNNLVDKGLVDRLYAASSSGVPVNLLVRGMCSLIPNLEGISDNIRAISIVDRYLEHDRVYIFENG 
           ____________496___________________________________________________________________________________________590_594_______ 

           _________________________________________________________________________677___________                                  
 1xdo(B) : GDKKVYLSSADWMTRNIDYRIEVATPLLDPRLKQRVLDIIDILFSDTVKARYIDKELSNRYVPRGNRRKVRAQLAIYDYIKSLEQPE                                  
         :                                                                                                                          
 1xdp(B) : GDKKVYLSSADWMTRNIDYRIEVATPLLDPRLKQRVLDIIDILFSDTVKARYIDKELSNRYVPRGNRRKVRAQLAIYDYIKSLEQPE                                  
           _________________________________________________________________________677___________                                  

Morph
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Status: Initialising

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 6.5 0.3 97.7   108 - 109   187 - 188   196 - 197   226 - 229   260 - 264   297 - 298 Bending Region Analysis
1 3 21.1 -0.8 95.8   232 - 234 Bending Region Analysis
1 4 5.2 -0.1 88.2   315 - 318   343 - 344   347 - 348   372 - 375   379 - 383   400 - 401   412 - 420   434 - 439   455 - 456   460 - 468   470 - 471   496 - 497   590 - 591   594 - 596   677 - 678   680 - 682 Bending Region Analysis
3 2 21.7 -0.6 64.7   254 - 258 Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 4

Conformer 2 Contact:
Residue 4 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 3 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 3

Movement classification:

No Contacts

PyMOL Script

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