Glucose-1-Phosphate Adenylyltransferase Small Subunit

(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 Glucose-1-Phosphate Adenylyltransferase Small Subunit
  Conformer 1
(PDB)
1yp4 (D)
  Conformer 2
(PDB)
1yp2 (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 133 0.63   17 - 24   66 - 71   106 - 106   118 - 142   149 - 170   183 - 194   228 - 274   292 - 303
2 236 0.52   25 - 65   72 - 105   107 - 112   143 - 148   275 - 291   304 - 449
3 44 0.63   172 - 182   195 - 227

Sequence


           ____________24_______________________________________65____71_________________________105______________________________1 
 1yp4(D) : *CLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAY---eGFVEVLAAQQSPE-qGTADAVRQYLWLFEEHTVLEYL 
         :                                                                                                                          
 1yp2(B) : TCLDPDASRSVLGIIL-----tRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNeGFVEVLAAQQSPEfQGTADAVRQYLWLFEEHTVLEYL 
           ____________24_______________________________________65____71_________________________105______________________________1 

           42___148___________________170_________182__________________________________________227_________________________________ 
 1yp4(D) : ILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIP 
         :                                                                                                                          
 1yp2(B) : ILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIP 
           42___148___________________170_________182__________________________________________227_________________________________ 

           ___________274______________291____298__________________________________________________________________________________ 
 1yp4(D) : GATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKL 
         :                                                                                                                          
 1yp2(B) : GATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKL 
           ___________274______________291____298__________________________________________________________________________________ 

           _______________________________________________________________________                                                  
 1yp4(D) : LAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII                                                  
         :                                                                                                                          
 1yp2(B) : LAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII                                                  
           _______________________________________________________________________                                                  

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
5.0
Translation
(A)
0.5
Closure
(%)
41.2
Bending Residues
( green )
  24 - 25
  65 - 66
  71 - 72
  105 - 118
  142 - 143
  148 - 149
  274 - 275
  291 - 292
  298 - 304
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
20.1
Translation
(A)
-0.3
Closure
(%)
98.9
Bending Residues
( green )
  170 - 172
  182 - 195
  227 - 228
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Shear

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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