Putrescine-Binding Periplasmic 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 Putrescine-Binding Periplasmic Protein
  Conformer 1
(PDB) 		8y5i (E)
  Conformer 2
(PDB) 		8y5h (E)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 168 1.27   131 - 255   303 - 345
2 149 1.11   29 - 130   256 - 302

Sequence


           ______________________________________________________________________________________________________130_______________ 
 8y5i(E) : *NTLYFYNWTEYVPPGLLEQFTKETGIKVIYSTYESNETMYAKLKTYKDGAYDLVVPSTYYVDKMRKEGMIQKIDKSKLTNFSNLDPDMLNKPFDPNNDYSIPYIWGATAIGVNGDAVDP 
         :                                                                                                                          
 8y5h(E) : NNTLYFYNWTEYVPPGLLEQFTKETGIKVIYSTYESNETMYAKLKTYKDGAYDLVVPSTYYVDKMRKEGMIQKIDKSKLTNFSNLDPDMLNKPFDPNNDYSIPYIWGATAIGVNGDAVDP 
           ______________________________________________________________________________________________________130_______________ 

           ___________________________________________________________________________________________________________255__________ 
 8y5i(E) : KSVTSWADLWKPEYKGSLLLTDDAREVFQMALRKLGYSGNTTDPKEIEAAYNELKKLMPNVAAFNSDNPANPYMEGEVNLGMIWNGSAFVARQAGTPIDVVWPKEGGIFWMDSLAIPANA 
         :                                                                                                                          
 8y5h(E) : KSVTSWADLWKPEYKGSLLLTDDAREVFQMALRKLGYSGNTTDPKEIEAAYNELKKLMPNVAAFNSDNPANPYMEGEVNLGMIWNGSAFVARQAGTPIDVVWPKEGGIFWMDSLAIPANA 
           ___________________________________________________________________________________________________________255__________ 

           __________________________________302_____________________________________________                                       
 8y5i(E) : KNKEGALKLINFLLRPDVAKQVAETIGYPTPNLAARKLLSPEVANDKTLYPDAETIKNGEWQNDVGAASSIYEEYYQKLKAG                                       
         :                                                                                                                          
 8y5h(E) : KNKEGALKLINFLLRPDVAKQVAETIGYPTPNLAARKLLSPEVANDKTLYPDAETIKNGEWQNDVGAASSIYEEYYQKLKAG                                       
           __________________________________302_____________________________________________                                       

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		23.5
Translation
(A) 		-1.2
Closure
(%) 		98.4
Bending Residues
( green ) 		  130 - 131
  255 - 256
  302 - 303
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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