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                                               
           __________________________________________________________________________                                               

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 116.7 -8.9 83.3   213 - 242 Bending Region Analysis
1 3 153.5 -5.7 52.0   313 - 316 Bending Region Analysis
4 2 49.4 -0.1 89.8   96 - 103   114 - 115   160 - 161 Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

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

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

Movement classification: Hinge

Conformer 1 Contact:
Residue 4 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 4

Movement classification: Hinge

PyMOL Script

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