Sarcoplasmic/endoplasmic Reticulum Calcium Atpase 1

(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 Sarcoplasmic/endoplasmic Reticulum Calcium Atpase 1
  Conformer 1
(PDB)
2c9m (B)
  Conformer 2
(PDB)
1vfp (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 582 4.26   49 - 123   245 - 359   601 - 992
2 153 0.74   3 - 41   124 - 237
3 241 1.65   360 - 600

Sequence


           ______________________________________40___________________________________________________________________________118__ 
 2c9m(B) : MEAAHSKSTEECLAYFGVSETTGLTPDQVKRHLEKYGHNELPAEEGKSLWELVIEQFEDLLVRILLLAACISFVLAWFEEGEETITAFVEPFVILLILIANAIVGVWQERNAENAIEALK 
         :                                                                                                                          
 1vfp(B) : MEAAHSKSTEECLAYFGVSETTGLTPDQVKRHLEKYGHNELPAEEGKSLWELVIEQFEDLLVRILLLAACISFVLAWFEEGEETITAFVEPFVILLILIANAIVGVWQERNAENAIEALK 
           ______________________________________40___________________________________________________________________________118__ 

           ________________________________________________________________________________________________________________235_____ 
 2c9m(B) : EYEPEMGKVYRADRKSVQRIKARDIVPGDIVEVAVGDKVPADIRILSIKSTTLRVDQSILTGESVSVIKHTEPVPDPRAVNQDKKNMLFSGTNIAAGKALGIVATTGVSTEIGKIRDQMA 
         :                                                                                                                          
 1vfp(B) : EYEPEMGKVYRADRKSVQRIKARDIVPGDIVEVAVGDKVPADIRILSIKSTTLRVDQSILTGESVSVIKHTEPVPDPRAVNQDKKNMLFSGTNIAAGKALGIVATTGVSTEIGKIRDQMA 
           ________________________________________________________________________________________________________________235_____ 

           ___________________________________________________________________________________________________________________358__ 
 2c9m(B) : ATEQDKTPLQQKLDEFGEQLSKVISLICVAVWLINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTNQ 
         :                                                                                                                          
 1vfp(B) : ATEQDKTPLQQKLDEFGEQLSKVISLICVAVWLINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTNQ 
           ___________________________________________________________________________________________________________________358__ 

           ________________________________________________________________________________________________________________________ 
 2c9m(B) : MSVCKMFIIDKVDGDFCSLNEFSITGSTYAPEGEVLKNDKPIRSGQFDGLVELATICALCNDSSLDFNETKGVYEKVGEATETALTTLVEKMNVFNTEVRNLSKVERANACNSVIRQLMK 
         :                                                                                                                          
 1vfp(B) : MSVCKMFIIDKVDGDFCSLNEFSITGSTYAPEGEVLKNDKPIRSGQFDGLVELATICALCNDSSLDFNETKGVYEKVGEATETALTTLVEKMNVFNTEVRNLSKVERANACNSVIRQLMK 
           ________________________________________________________________________________________________________________________ 

           ____________________________________________________________________________________________________________________599_ 
 2c9m(B) : KEFTLEFSRDRKSMSVYCSPAKSSRAAVGNKMFVKGAPEGVIDRCNYVRVGTTRVPMTGPVKEKILSVIKEWGTGRDTLRCLALATRDTPPKREEMVLDDSSRFMEYETDLTFVGVVGML 
         :                                                                                                                          
 1vfp(B) : KEFTLEFSRDRKSMSVYCSPAKSSRAAVGNKMFVKGAPEGVIDRCNYVRVGTTRVPMTGPVKEKILSVIKEWGTGRDTLRCLALATRDTPPKREEMVLDDSSRFMEYETDLTFVGVVGML 
           ____________________________________________________________________________________________________________________599_ 

           ________________________________________________________________________________________________________________________ 
 2c9m(B) : DPPRKEVMGSIQLCRDAGIRVIMITGDNKGTAIAICRRIGIFGENEEVADRAYTGREFDDLPLAEQREACRRACCFARVEPSHKSKIVEYLQSYDEITAMTGDGVNDAPALKKAEIGIAM 
         :                                                                                                                          
 1vfp(B) : DPPRKEVMGSIQLCRDAGIRVIMITGDNKGTAIAICRRIGIFGENEEVADRAYTGREFDDLPLAEQREACRRACCFARVEPSHKSKIVEYLQSYDEITAMTGDGVNDAPALKKAEIGIAM 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2c9m(B) : GSGTAVAKTASEMVLADDNFSTIVAAVEEGRAIYNNMKQFIRYLISSNVGEVVCIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDRPPRSPKEPLISGWLFFRYMAI 
         :                                                                                                                          
 1vfp(B) : GSGTAVAKTASEMVLADDNFSTIVAAVEEGRAIYNNMKQFIRYLISSNVGEVVCIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDRPPRSPKEPLISGWLFFRYMAI 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2c9m(B) : GGYVGAATVGAAAWWFMYAEDGPGVTYHQLTHFMQCTEDHPHFEGLDCEIFEAPEPMTMALSVLVTIEMCNALNSLSENQSLMRMPPWVNIWLLGSICLSMSLHFLILYVDPLPMIFKLK 
         :                                                                                                                          
 1vfp(B) : GGYVGAATVGAAAWWFMYAEDGPGVTYHQLTHFMQCTEDHPHFEGLDCEIFEAPEPMTMALSVLVTIEMCNALNSLSENQSLMRMPPWVNIWLLGSICLSMSLHFLILYVDPLPMIFKLK 
           ________________________________________________________________________________________________________________________ 

           __________________________________                                                                                       
 2c9m(B) : ALDLTQWLMVLKISLPVIGLDEILKFIARNYLEG                                                                                       
         :                                                                                                                          
 1vfp(B) : ALDLTQWLMVLKISLPVIGLDEILKFIARNYLEG                                                                                       
           __________________________________                                                                                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
65.1
Translation
(A)
-3.2
Closure
(%)
87.4
Bending Residues
( green )
  40 - 60
  118 - 124
  235 - 246
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
86.4
Translation
(A)
7.4
Closure
(%)
95.3
Bending Residues
( green )
  358 - 362
  599 - 603
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

PyMOL Script

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