Hiv-2 Rt

(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-2 Rt
  Conformer 1
(PDB) 		1mu2 (A)
  Conformer 2
(PDB) 		1mu2 (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 64 1.83   97 - 114   161 - 182   186 - 209
2 122 2.79   8 - 96   115 - 160   183 - 185
3 76 2.59   243 - 318
4 98 2.73   319 - 418

Sequence


           ______________________________________________________________________________86_________________________114____________ 
 1mu2(A) : AKVEPIKIMLKPGKDGPKLRQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDrMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPLHEDFRP 
         :                                                                                                                          
 1mu2(B) : ***EPIKIMLKPGKDGPKLRQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKnKWRMLIDFRELNKVTQDFTEIQ---pHPAGLAKKRRITVLDVGDAYFSIPLHEDFRP 
           ______________________________________________________________________________86_________________________114____________ 

           _______________________________160___________________182________________________209_____________________________________ 
 1mu2(A) : YTAFTL---------kRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKFQKDPPYHWMGYELWPTKWKLQKIQL 
         :                                                                                                                          
 1mu2(B) : YTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNG-----------------wMGYELWPTKWKLQKIQL 
           _______________________________160___________________182________________________209_____________________________________ 

           _____________________________________________________________________318________________________________________________ 
 1mu2(A) : PQKEIWTVNDIQKLVGVLNWAAQLYPGIKTKHLCRLISGKMTLTEEVQWTELAEAELEENRIILSQEQEGHYYQEEKELEATVQKDQDNQWTYKIHQEEKILKVGKYAKV--tHTNGIRL 
         :                                                                                                                          
 1mu2(B) : PQKEIWTVNDIQKLVGVLNWAAQLYPGIKTKHLCRLISGKMTLTEEVQWTELAEAELEENRIILSQEQEGHYYQEEKELEATVQKDQDNQWTYKIHQEEKILKVGKYAKVKNTHTNGIRL 
           _____________________________________________________________________318________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1mu2(A) : LAQVVQKIGKEALVIWGRIPKFHLPVEREIWEQWWDNYWQVTWIPDWDFVSTPPLVRLAFNLVGDPIPGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALT 
         :                                                                                                                          
 1mu2(B) : LAQVVQKIGKEALVIWGRIPKFHLPVEREIWEQWWDNYWQVTWIPDWDFVSTPPLVRLAFNLVGD******************************************************* 
           ________________________________________________________________________________________________________________________ 

           _____________________________________________________________________                                                    
 1mu2(A) : DSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI                                                    
         :                                                                                                                          
 1mu2(B) : *********************************************************************                                                    
           _____________________________________________________________________                                                    

Morph
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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 49.9 -1.6 81.3   86 - 101   114 - 115   160 - 161   182 - 183   185 - 186 Bending Region Analysis
1 3 112.3 -6.2 84.4   209 - 244 Bending Region Analysis
4 3 153.0 -7.9 33.7   318 - 319 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:

No Contacts

Conformer 1 Contact:
Residue 4 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 4

Movement classification:

No Contacts

PyMOL Script

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