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) 		3ipa (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 233 0.21   3 - 124   132 - 139   221 - 228   239 - 241   243 - 333   346 - 346
2 111 0.39   125 - 131   140 - 220   229 - 238   242 - 242   334 - 345

Sequence


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

           _124____131___137________________________________________________________________________________220_____228__________24 
 3ip5(A) : DDQQGGIAGKYLADHFKDAKVAIIHDKTPYGQGLADETKKAANAAGVTEVMYEGVNVGDKDFSALISKMKEAGVSIIYWGGLHTEAGLIIRQAADQGLKAKLVSGDGIVSNELASIAGDA 
         :                                                                                                                          
 3ipa(A) : DDQQGGIAGKYLADHFKDAKVAIIHDKTPYGQGLADETKKAANAAGVTEVMYEGVNVGDKDFSALISKMKEAGVSIIYWGGLHTEAGLIIRQAADQGLKAKLVSGDGIVSNELASIAGDA 
           _124____131___137________________________________________________________________________________220_____228__________24 

           1_________________________________________________________________________________________333_________345___             
 3ip5(A) : VEGTLNTFGPDPTLRPENKELVEKFKAAGFNPEAYTLYSYAAMQAIAGAAKAAGSVEPEKVAEALKKGSFPTALGEISFDEKGDPKLPGYVMYEWKKGPDGKFTYIQQ             
         :                                                                                                                          
 3ipa(A) : VEGTLNTFGPDPTLRPENKELVEKFKAAGFNPEAYTLYSYAAMQAIAGAAKAAGSVEPEKVAEALKKGSFPTALGEISFDEKGDPKLPGYVMYEWKKGPDGKFTYIQQ             
           1_________________________________________________________________________________________333_________345___             

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		2.4
Translation
(A) 		-0.1
Closure
(%) 		85.2
Bending Residues
( green ) 		  124 - 125
  131 - 132
  137 - 140
  220 - 221
  228 - 239
  241 - 243
  333 - 334
  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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