Siderophore Periplasmic Binding Protein

(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 Siderophore Periplasmic Binding Protein
  Conformer 1
(PDB) 		5dh0 (B)
  Conformer 2
(PDB) 		5dh2 (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 147 0.38   108 - 109   121 - 121   123 - 123   190 - 197   201 - 213   232 - 342   349 - 359
2 117 0.39   96 - 107   110 - 120   122 - 122   124 - 189   198 - 200   214 - 231   343 - 348

Sequence


           ______________________107__________120__________________________________________________________________189_____197_____ 
 5dh0(B) : HHHHHSeIPADPQRIVALEFGTEVVLEAGIEPVGVIEPVATLYTAEEFEQLSTYPVVQSASLEINMEAIAEAQPDLIIGGVRVESHDEYVGIREDLEKIAPTVFFDFDGAGSGLRNMTLE 
         :                                                                                                                          
 5dh2(B) : HHHHHS-----pQRIVALEFGTEVVLEAGIEPVGVIEPVATLYTAEEFEQLSTYPVVQSASLEINMEAIAEAQPDLIIGGVRVESHDEYVGIREDLEKIAPTVFFDFDGAGSGLRNMTLE 
           ______________________107__________120__________________________________________________________________189_____197_____ 

           ________213_______________231___________________________________________________________________________________________ 
 5dh0(B) : LSRVVGDGERAEAEQQRFEERVEEISTAYADQLADTTFALVFGVDGEFAVVNTNAWGGEILHTLGAKQSKAQQPAGENFAAFYSYEEIDELSDADVIFYETDAQENPDPFTEALLEQKLW 
         :                                                                                                                          
 5dh2(B) : LSRVVGDGERAEAEQQRFEERVEEISTAYADQLADTTFALVFGVDGEFAVVNTNAWGGEILHTLGAKQSKAQQPAGENFAAFYSYEEIDELSDADVIFYETDAQENPDPFTEALLEQKLW 
           ________213_______________231___________________________________________________________________________________________ 

           _________________342___348_____________                                                                                  
 5dh0(B) : QSLPAVEAGQVHPLRYSAARTYAQANIVLDQIEEVLKGL                                                                                  
         :                                                                                                                          
 5dh2(B) : QSLPAVEAGQVHPLRYSAARTYAQANIVLDQIEEVLKGL                                                                                  
           _________________342___348_____________                                                                                  

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		3.0
Translation
(A) 		0.0
Closure
(%) 		41.3
Bending Residues
( green ) 		  107 - 110
  120 - 124
  189 - 192
  197 - 198
  200 - 201
  213 - 214
  231 - 232
  342 - 343
  348 - 349
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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