Abc Transporter, Periplasmic Substrate-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 Abc Transporter, Periplasmic Substrate-Binding Protein
  Conformer 1
(PDB)
1twy (D)
  Conformer 2
(PDB)
1twy (G)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 129 0.6   104 - 235
2 110 0.44   30 - 103   236 - 273

Sequence


           _______________________________________________________________________103______________________________________________ 
 1twy(D) : SEITISGSTSVARIdVLAEKYNQQHPETYVAVQGVGSTAGISLLKKGVADIAtSRYLTESEAQNTLHTFTLAFDGLAIVVNQANPVTNLTREQLYGIYKGQITNWKQVGGNDQKIAVVTR 
         :                                                                                                                          
 1twy(G) : SEITISGSTSVARIdVLAEKYNQQHPETYVAVQGVGSTAGISLLKKGVADIAtSRYLTESEAQNTLHTFTLAFDGLAIVVNQANPVTNLTREQLYGIYKGQITNWKQVGGNDQKIAVVTR 
           _______________________________________________________________________103______________________________________________ 

           ________________________________________________________________________________235_____________________________________ 
 1twy(D) : EASSGTRYSFESLgLTKTVKDREVSDVAPTALVVNSNSkTLVNHNTQAVGFISIGSVDKSVKAIQFEKADPTSDNIAKHTYQLSRPFLILHYSDNADEQTKEFIAFLKSESAKKLIVEYG 
         :                                                                                                                          
 1twy(G) : EASSGTRYSFESLgLTKTVKDREVSDVAPTALVVNSNSkTLVNHNTQAVGFISIGSVDKSVKAIQFEKADPTSDNIAKHTYQLSRPFLILHYSDNADEQTKEFIAFLKSESAKKLIVEYG 
           ________________________________________________________________________________235_____________________________________ 

           ___                                                                                                                      
 1twy(D) : YIp                                                                                                                      
         :                                                                                                                          
 1twy(G) : YIp                                                                                                                      
           ___                                                                                                                      

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
13.4
Translation
(A)
-0.4
Closure
(%)
82.9
Bending Residues
( green )
  103 - 104
  235 - 236
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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