Amyloid Protein-Binding Protein 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 Amyloid Protein-Binding Protein 1
  Conformer 1
(PDB)
1yov (A)
  Conformer 2
(PDB)
2nvu (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 308 0.42   8 - 167   175 - 180   287 - 288   392 - 393   395 - 532
2 217 1.05   168 - 174   181 - 286   289 - 391   394 - 394

Sequence


           ________________________________________________________________________________________________________________________ 
 1yov(A) : *KLLKEQKYDRQLRLWGDHGQEALESAHVCLINATATGTEILKNLVLPGIGSFTIIDGNQVSGEDAGNNFFLQRSSIGKNRAEAAMEFLQELNSDVSGSFVEESPENLLDNDPSFFCRFT 
         :                                                                                                                          
 2nvu(A) : GKLLKEQKYDRQLRLWGDHGQEALESAHVCLINATATGTEILKNLVLPGIGSFTIIDGNQVSGEDAGNNFFLQRSSIGKNRAEAAMEFLQELNSDVSGSFVEESPENLLDNDPSFFCRFT 
           ________________________________________________________________________________________________________________________ 

           ________________________________________167____174___180________________________________________________________________ 
 1yov(A) : VVVATQLPESTSLRLADVLWNSQIPLLICRTYGLVGYMRIIIKEHPVIESHPDNALEDLRLDKPFPELREHFQSYDLDHMEKKDHSHTPWIVIIAKYLAQWYSETNGRIPKTYKEKEDFR 
         :                                                                                                                          
 2nvu(A) : VVVATQLPESTSLRLADVLWNSQIPLLICRTYGLVGYMRIIIKEHPVIESHPDNALEDLRLDKPFPELREHFQSYDLDHMEKKDHSHTPWIVIIAKYLAQWYSETNGRIPKTYKEKEDFR 
           ________________________________________167____174___180________________________________________________________________ 

           _______________________________________286______________________________________________________________________________ 
 1yov(A) : DLIRQGILKNENGAPEDEENFEEAIKNVNTALNTTQIPSSIEDIFNDDRCINITKQTPSFWILARALKEFVAKEGQGNLPVRGTIPDMIADSGKYIKLQNVYREKAKKDAAAVGNHVAKL 
         :                                                                                                                          
 2nvu(A) : DLIRQGILKNENGAPEDEENFEEAIKNVNTALNTTQIPSSIEDIFNDDRCINITKQTPSFWILARALKEFVAKEGQGNLPVRGTIPDMIADSGKYIKLQNVYREKAKKDAAAVGNHVAKL 
           _______________________________________286______________________________________________________________________________ 

           ________________________391_____________________________________________________________________________________________ 
 1yov(A) : LQSIGQAPESISEKELKLLCSNSAFLRVVRCRSLAEEYGLDTINKDEIISSMDNPDNEIVLYLMLRAVDRFHKQQGRYPGVSNYQVEEDIGKLKSCLTGFLQEYGLSVMVKDDYVHEFCR 
         :                                                                                                                          
 2nvu(A) : LQSIGQAPESISEKELKLLCSNSAFLRVVRCRSLAEEYGLDTINKDEIISSMDNPDNEIVLYLMLRAVDRFHKQQGRYPGVSNYQVEEDIGKLKSCLTGFLQEYGLSVMVKDDYVHEFCR 
           ________________________391_____________________________________________________________________________________________ 

           __________________________________________________                                                                       
 1yov(A) : YGAAEPHTIAAFLGGAAAQEVIKIITKQFVIFNNTYIYSGMSQTSATFQL                                                                       
         :                                                                                                                          
 2nvu(A) : YGAAEPHTIAAFLGGAAAQEVIKIITKQFVIFNNTYIYSGMSQTSATFQL                                                                       
           __________________________________________________                                                                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
6.3
Translation
(A)
-0.3
Closure
(%)
71.7
Bending Residues
( green )
  167 - 168
  174 - 175
  180 - 181
  286 - 289
  391 - 395
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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