Abc Transporter, Substrate Binding Protein (Agrocinopines A And B)

(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, Substrate Binding Protein (Agrocinopines A And B)
  Conformer 1
(PDB)
4ra1 (A)
  Conformer 2
(PDB)
4ze8 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 219 0.34   34 - 90   104 - 130   144 - 144   146 - 146   153 - 160   177 - 277   496 - 519
2 49 0.3   91 - 103   131 - 143   145 - 145   147 - 152   161 - 176
3 211 0.37   282 - 492

Sequence


           __________________________________________________________90__________103________________________130________141________1 
 4ra1(A) : *RRALRLGVNGLPNSLEPVNAISNVGPRIVNQIFDTLIARDFFAKGAPGNAIDLVPALAESWERIDEKSVRFKLRQKVMFHDGVELTADDVAYTFSSERLWGPEAIKKIPLGKSYSLDFD 
         :                                                                                                                          
 4ze8(A) : ERRALRLGVNGLPNSLEPVNAISNVGPRIVNQIFDTLIARDFFAKGAPGNAIDLVPALAESWERIDEKSVRFKLRQKVMFHDGVELTADDVAYTFSSERLWGPEAIKKIPLGKSYSLDFD 
           __________________________________________________________90__________103________________________130________141________1 

           52_____160___________174________________________________________________________________________________________________ 
 4ra1(A) : EPVVEDKYTVTLRTKTPSYLIETFVASWMSRIVPKEYYKKLGAVDFGNKPVGTGPYKFVEFVAGDRVVLEANDAYWGPKPTASKITYQIVAEPATRVAGLISGEYDIITTLTPDDIQLIN 
         :                                                                                                                          
 4ze8(A) : EPVVEDKYTVTLRTKTPSYLIETFVASWMSRIVPKEYYKKLGAVDFGNKPVGTGPYKFVEFVAGDRVVLEANDAYWGPKPTASKITYQIVAEPATRVAGLISGEYDIITTLTPDDIQLIN 
           52_____160___________174________________________________________________________________________________________________ 

           ____277_________________________________________________________________________________________________________________ 
 4ra1(A) : SYPDLETRGTLIENFHMFTFNMNQEVFKDKKLRRALALAVNRPIMVEALWKKQASIPAGFNFPNYGETFDPKRKAMEYNVEEAKRLVKESGYDGTPITYHTMGNYYANAMPALMMMIEMW 
         :                                                                                                                          
 4ze8(A) : SYPDLETRGTLIENFHMFTFNMNQEVFKDKKLRRALALAVNRPIMVEALWKKQASIPAGFNFPNYGETFDPKRKAMEYNVEEAKRLVKESGYDGTPITYHTMGNYYANAMPALMMMIEMW 
           ____277_________________________________________________________________________________________________________________ 

           ___________________________________________________________________________________________________492__________________ 
 4ra1(A) : KQIGVNVVMKTYAPGSFPPDNQTWMRNWSNGQWMTDAYATIVPEFGPNGQVQKRWGWKAPAEFNELCQKVTVLPNGKERFDAYNRMRDIFEEEAPAVILYQPYDVYAARKDVHWKPVSFE 
         :                                                                                                                          
 4ze8(A) : KQIGVNVVMKTYAPGSFPPDNQTWMRNWSNGQWMTDAYATIVPEFGPNGQVQKRWGWKAPAEFNELCQKVTVLPNGKERFDAYNRMRDIFEEEAPAVILYQPYDVYAARKDVHWKPVSFE 
           ___________________________________________________________________________________________________492__________________ 

           ___________                                                                                                              
 4ra1(A) : MMEFRNNLSFG                                                                                                              
         :                                                                                                                          
 4ze8(A) : MMEFRNNLSFG                                                                                                              
           ___________                                                                                                              

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.3
Translation
(A)
0.0
Closure
(%)
10.3
Bending Residues
( green )
  90 - 91
  103 - 104
  130 - 131
  141 - 147
  152 - 153
  160 - 161
  174 - 177
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
12.5
Translation
(A)
-0.6
Closure
(%)
97.5
Bending Residues
( green )
  277 - 283
  492 - 496
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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