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 (A)
  Conformer 2
(PDB) 		5dh1 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 143 0.42   191 - 197   216 - 216   219 - 342   349 - 359
2 125 0.41   92 - 190   198 - 215   217 - 218   343 - 348

Sequence


           _______________________________________________________________________________________________________189_____197______ 
 5dh0(A) : HHHHSSiPADPQRIVALEFGTEVVLEAGIEPVGVIEPVATLYTAEEFEQLSTYPVVQSASLEINMEAIAEAQPDLIIGGVRVESHDEYVGIREDLEKIAPTVFFDFDGAGSGLRNMTLEL 
         :                                                                                                                          
 5dh1(A) : *HHHHSiPADPQRIVALEFGTEVVLEAGIEPVGVIEPVATLYTAEEFEQLSTYPVVQSASLEINMEAIAEAQPDLIIGGVRVESHDEYVGIREDLEKIAPTVFFDFDGAGSGLRNMTLEL 
           _______________________________________________________________________________________________________189_____197______ 

           _________215____________________________________________________________________________________________________________ 
 5dh0(A) : SRVVGDGERAEAEQQRFEERVEEISTAYADQLADTTFALVFGVDGEFAVVNTNAWGGEILHTLGAKQSKAQQPAGENFAAFYSYEEIDELSDADVIFYETDAQENPDPFTEALLEQKLWQ 
         :                                                                                                                          
 5dh1(A) : SRVVGDGERAEAEQQRFEERVEEISTAYADQLADTTFALVFGVDGEFAVVNTNAWGGEILHTLGAKQSKAQQPAGENFAAFYSYEEIDELSDADVIFYETDAQENPDPFTEALLEQKLWQ 
           _________215____________________________________________________________________________________________________________ 

           ________________342___348_____________                                                                                   
 5dh0(A) : SLPAVEAGQVHPLRYSAARTYAQANIVLDQIEEVLKGL                                                                                   
         :                                                                                                                          
 5dh1(A) : SLPAVEAGQVHPLRYSAARTYAQANIVLDQIEEVLKGL                                                                                   
           ________________342___348_____________                                                                                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		6.4
Translation
(A) 		-0.2
Closure
(%) 		61.8
Bending Residues
( green ) 		  189 - 193
  197 - 198
  215 - 219
  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: Hinge

PyMOL Script

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