Abc Transporter, Substrate Binding Protein (Amino Acid)

(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 Abc Transporter, Substrate Binding Protein (Amino Acid)
  Conformer 1
(PDB)
3ip5 (A)
  Conformer 2
(PDB)
3ip9 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 248 0.27   3 - 125   127 - 137   165 - 167   198 - 199   201 - 203   224 - 233   240 - 334   346 - 346
2 96 0.36   126 - 126   138 - 164   168 - 197   200 - 200   204 - 223   234 - 239   335 - 345

Sequence


           ________________________________________________________________________________________________________________________ 
 3ip5(A) : MDVVIAVGAPLTGPNAAFGAQIQKGAEQAAKDINAAGGINGEQIKIVLGDDVSDPKQGISVANKFVADGVKFVVGHFNSGVSIPASEVYAENGILEITPAATNPVFTERGLWNTFRTCGR 
         :                                                                                                                          
 3ip9(A) : MDVVIAVGAPLTGPNAAFGAQIQKGAEQAAKDINAAGGINGEQIKIVLGDDVSDPKQGISVANKFVADGVKFVVGHFNSGVSIPASEVYAENGILEITPAATNPVFTERGLWNTFRTCGR 
           ________________________________________________________________________________________________________________________ 

           __125_________137________________________164______________________________197___203_________________223_227_________239_ 
 3ip5(A) : DDQQGGIAGKYLADHFKDAKVAIIHDKTPYGQGLADETKKAANAAGVTEVMYEGVNVGDKDFSALISKMKEAGVSIIYWGGLHTEAGLIIRQAADQGLKAKLVSGDGIVSNELASIAGDA 
         :                                                                                                                          
 3ip9(A) : DDQQGGIAGKYLADHFKDAKVAIIHDKTPYGQGLADETKKAANAAGVTEVMYEGVNVGDKDFSALISKMKEAGVSIIYWGGLHTEAGLIIRQAADQGLKAKLVSGDGIVSNELASIAGDA 
           __125_________137________________________164______________________________197___203_________________223_227_________239_ 

           ___________________________________________________________________________________________334________345___             
 3ip5(A) : VEGTLNTFGPDPTLRPENKELVEKFKAAGFNPEAYTLYSYAAMQAIAGAAKAAGSVEPEKVAEALKKGSFPTALGEISFDEKGDPKLPGYVMYEWKKGPDGKFTYIQQ             
         :                                                                                                                          
 3ip9(A) : VEGTLNTFGPDPTLRPENKELVEKFKAAGFNPEAYTLYSYAAMQAIAGAAKAAGSVEPEKVAEALKKGSFPTALGEISFDEKGDPKLPGYVMYEWKKGPDGKFTYIQQ             
           ___________________________________________________________________________________________334________345___             

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.0
Translation
(A)
-0.2
Closure
(%)
91.0
Bending Residues
( green )
  125 - 127
  137 - 138
  164 - 165
  167 - 168
  197 - 201
  203 - 204
  223 - 224
  227 - 236
  239 - 240
  334 - 335
  345 - 346
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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