Hiv-1 Rt A-Chain

(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 Hiv-1 Rt A-Chain
  Conformer 1
(PDB) 		1dtt (A)
  Conformer 2
(PDB) 		1dlo (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 225 5.96   3 - 232   235 - 243
2 109 4.66   233 - 234   313 - 419
3 68 1.58   244 - 312

Sequence


           ________________________________________________________________________________________________________________________ 
 1dtt(A) : PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 
         :                                                                                                                          
 1dlo(B) : PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 
           ________________________________________________________________________________________________________________________ 

           _____________________________________________________________________________________________________________232________ 
 1dtt(A) : DEDFRKYTAFTIPSINNET--iRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWT 
         :                                                                                                                          
 1dlo(B) : DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPD------------gYELHPDKWT 
           _____________________________________________________________________________________________________________232________ 

           243_________________________________________________________________311_________________________________________________ 
 1dtt(A) : VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQL-kLLRGTKALTEVIPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 
         :                                                                                                                          
 1dlo(B) : VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 
           243_________________________________________________________________311_________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1dtt(A) : HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTPPLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQ 
         :                                                                                                                          
 1dlo(B) : HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTPPLVKLWY***************************************************** 
           ________________________________________________________________________________________________________________________ 

           _______________________________________________________________                                                          
 1dtt(A) : AIYLALQDSGLEVNIVTDSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIG                                                          
         :                                                                                                                          
 1dlo(B) : ***************************************************************                                                          
           _______________________________________________________________                                                          

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 133.0 -2.3 82.7   232 - 236 Bending Region Analysis
1 3 54.7 -9.5 55.3   243 - 246 Bending Region Analysis
2 3 120.1 -4.8 12.8   311 - 315 Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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

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

Movement classification: Hinge

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

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

Movement classification: Hinge

PyMOL Script

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