Capsid Protein

(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 Capsid Protein
  Conformer 1
(PDB)
1ihm (A)
  Conformer 2
(PDB)
1ihm (C)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 80 0.83   1043 - 1061   1086 - 1109   1168 - 1182   1208 - 1229
2 47 0.6   1031 - 1033   1079 - 1084   1110 - 1110   1125 - 1150   1159 - 1167   1183 - 1184
3 62 0.66   1062 - 1078   1111 - 1124   1151 - 1158   1185 - 1207
4 277 0.39   1230 - 1506

Sequence


           _____________________________1061_____________1078__1084_____________________1109___________1124______________________11 
 1ihm(A) : DPLAMDPVAGSSTAVATAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNGWVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQATLFPHV 
         :                                                                                                                          
 1ihm(C) : DPLAMDPVAGSSTAVATAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNGWVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQATLFPHV 
           _____________________________3061_____________3078__3084_____________________3109___________3124______________________31 

           50____1158____1166____________1182_____________________1207__________________1229_______________________________________ 
 1ihm(A) : IADVRTLDPIEVPLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLFLVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNG 
         :                                                                                                                          
 1ihm(C) : IADVRTLDPIEVPLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLFLVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNG 
           50____3158____3166____________3182_____________________3207__________________3229_______________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ihm(A) : RCTLDGRLVGTTPVSLSHVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQFGHSSQTQYDVDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVD 
         :                                                                                                                          
 1ihm(C) : RCTLDGRLVGTTPVSLSHVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQFGHSSQTQYDVDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVD 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ihm(A) : LWKIPNYGSSITEATHLAPSVYPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHLASEQAPTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS 
         :                                                                                                                          
 1ihm(C) : LWKIPNYGSSITEATHLAPSVYPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHLASEQAPTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS 
           ________________________________________________________________________________________________________________________ 

           ____________                                                                                                             
 1ihm(A) : RFYQLKPVGTAS                                                                                                             
         :                                                                                                                          
 1ihm(C) : RFYQLKPVGTAS                                                                                                             
           ____________                                                                                                             

Morph

Morph animation in progress.
Status: Initialising

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 10.4 -0.4 6.3   1031 - 1044   1084 - 1086   1109 - 1110   1166 - 1168   1182 - 1183 Bending Region Analysis
1 3 16.2 -1.0 79.7   1061 - 1062   1109 - 1111   1207 - 1208 Bending Region Analysis
1 4 10.0 -0.8 10.6   1229 - 1230 Bending Region Analysis
3 2 9.0 -0.1 46.2   1078 - 1079   1110 - 1111   1124 - 1125   1150 - 1151   1158 - 1159   1184 - 1185 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 1 ———› Residue 4

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

Movement classification: Hinge

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

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

Movement classification: Hinge

PyMOL Script

Download and extract PyMOL PML script file Download