D-Xylose-Proton Symporter

(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 D-Xylose-Proton Symporter
  Conformer 1
(PDB) 		4gby (A)
  Conformer 2
(PDB) 		4ja4 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 268 2.14   11 - 274   299 - 319   422 - 423   427 - 430
2 164 1.42   275 - 298   320 - 421   424 - 426   443 - 477

Sequence


           ________________________________________________________________________________________________________________________ 
 4gby(A) : YNSSYIFSITLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCVASALIGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYLAG 
         :                                                                                                                          
 4ja4(A) : ****YIFSITLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCVASALIGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYLAG 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4gby(A) : YVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIM 
         :                                                                                                                          
 4ja4(A) : YVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLM----qEQAEGILRKIM 
           ________________________________________________________________________________________________________________________ 

           ________________263________________________________298_________________318______________________________________________ 
 4gby(A) : GNTLATQAVQEIKHSLDHGRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFY 
         :                                                                                                                          
 4ja4(A) : GNTLATQAVQEIKHSLDHG--------mFGVGVIVIGVMLSIFQQFVGINVVLYYAPEV-----------lLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFY 
           ________________263________________________________298_________________318______________________________________________ 

           ______________________________________________________421__________________________________________________________      
 4gby(A) : TQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELEALWE      
         :                                                                                                                          
 4ja4(A) : TQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSW------nGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELEALWE      
           ______________________________________________________421__________________________________________________________      

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		25.6
Translation
(A) 		1.2
Closure
(%) 		91.6
Bending Residues
( green ) 		  263 - 276
  298 - 299
  318 - 320
  421 - 443
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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