Hiv-1 Reverse Transcriptase

(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 Reverse Transcriptase
  Conformer 1
(PDB)
1ep4 (B)
  Conformer 2
(PDB)
1hvu (G)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 74 1.52   242 - 315
2 70 2.09   98 - 114   161 - 213
3 98 2.79   316 - 418
4 130 2.14   7 - 97   115 - 160

Sequence


           _______________________________________________________________________________________96______________________114______ 
 1ep4(B) : ****IETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFW-------hPAGLKKKKSVTVLDVGDAYFSVPL 
         :                                                                                                                          
 1hvu(G) : PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 
           _______________________________________________________________________________________96______________________114______ 

           _____________________________________160__________________________________________________213___________________________ 
 1ep4(B) : DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLT----------------yELHPDKWT 
         :                                                                                                                          
 1hvu(G) : DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWT 
           _____________________________________160__________________________________________________213___________________________ 

           ______________________________________________________________________313_______________________________________________ 
 1ep4(B) : VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYAR---- 
         :                                                                                                                          
 1hvu(G) : VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 
           ______________________________________________________________________313_______________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ep4(B) : -tNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTPPLVKLWY***************************************************** 
         :                                                                                                                          
 1hvu(G) : HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTPPLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQ 
           ________________________________________________________________________________________________________________________ 

           __________________________________________________________________________                                               
 1ep4(B) : **************************************************************************                                               
         :                                                                                                                          
 1hvu(G) : AIYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA                                               
           __________________________________________________________________________                                               

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
9.9
Translation
(A)
0.1
Closure
(%)
88.5
Bending Residues
( green )
  74 - 76
  96 - 97
  99 - 100
  167 - 182
  246 - 247
  254 - 255
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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