Photosystem II D1 Protease

(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 Photosystem II D1 Protease
  Conformer 1
(PDB) 		1fc9 (A)
  Conformer 2
(PDB) 		1fc6 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 87 0.57   80 - 153   401 - 415
2 92 0.84   155 - 247
3 198 0.35   248 - 400   416 - 461

Sequence


           _________________________________________________________________________153____________________________________________ 
 1fc9(A) : VTSEQLLFLEAWRAVDRAYVDKSFNGQSWFKLRETYLKKEPMDRRAQTYDAIRKLLAVLDDPFTRFLEPSRLAALRRGTAGSVTGVGLEITYDGGSGKDVVVLTPAPGGPAEKAGARAGD 
         :                                                                                                                          
 1fc6(A) : VTSEQLLFLEAWRAVDRAYVDKSFNGQSWFKLRETYLKKEP-dRRAQTYDAIRKl-AVLDDPFTRFLEPSRLAALRRGTAGSVTGVGLEITYDGGSGKDVVVLTPAPGGPAEKAGARAGD 
           _________________________________________________________________________153____________________________________________ 

           _______________________________________________247______________________________________________________________________ 
 1fc9(A) : VIVTVDGTAVKGLSLYDVSDLLQGEADSQVEVVLHAPGAPSNTRTLQLTRQKVTINPVTFTTCSNVAAAALPPGAAKQQLGYVRLATFNSNTTAAAQQAFTELSKQGVAGLVLDIRNNGG 
         :                                                                                                                          
 1fc6(A) : VIVTVDGTAVKG-sLYDVSDLLQGEADSQVEVVLHAPGAPSNTRTLQLTRQKVTINPVTFTTCSNVAAAALPPGAAKQQLGYVRLATFNSNTTAAAQQAFTELSKQGVAGLVLDIRNNGG 
           _______________________________________________247______________________________________________________________________ 

           ________________________________________________________________________________400____________415______________________ 
 1fc9(A) : GLFPAGVNVARMLVDRGDLVLIADSQGIRDIYSADGNSIDSATPLVVLVNRGTASASEVLAGALKDSKRGLIAGERTFGKGLIQTVVDLSDGSGVAVTVARYQTPAGVDINKIGVSPDVQ 
         :                                                                                                                          
 1fc6(A) : GLFPAGVNVAR-lVDRGDLVLIADSQGIRDIYSADGNSIDSATPLVVLVNRGTASASEVLAGALKDSKRGLIAGERTFGKGLIQTVVDLSDGSGVAVTVARYQTPAGVDINKIGVSPDVQ 
           ________________________________________________________________________________400____________415______________________ 

           __________________________                                                                                               
 1fc9(A) : LDPEVLPTDLEGVCRVLGSDAAPRLF                                                                                               
         :                                                                                                                          
 1fc6(A) : LDPEVLPTDLEGVCRVLGSDAAPRLF                                                                                               
           __________________________                                                                                               

Morph
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Status: Initialising

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 13.5 0.3 51.6   153 - 160 Bending Region Analysis
1 3 10.2 -0.1 52.5   400 - 402   415 - 416 Bending Region Analysis
2 3 6.6 -0.4 5.8   247 - 254 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 2 ———› Residue 3

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

Movement classification: Hinge

PyMOL Script

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