DynDom - Protein Domain Motions

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)	1fcf (A)
Conformer 2 (PDB)	1fc9 (A)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	294	1.06	151 - 399 416 - 460
2	86	0.42	81 - 150 400 - 415

Sequence

`___________________________________________________________________146__________________________________________________` `1fcf(A) : MVTSEQLLFLEAWRAVDRAYVDKSFNGQSWFKLRETYLKKEPMDRRAQTYDAIRKLLAVLDDPFTRFLEPSRLAALRRGTAGSVTGVGLEITYDGGSGKDVVVLTPAPGGPAEKAGARAG` `:` `1fc9(A) : *VTSEQLLFLEAWRAVDRAYVDKSFNGQSWFKLRETYLKKEPMDRRAQTYDAIRKLLAVLDDPFTRFLEPSRLAALRRGTAGSVTGVGLEITYDGGSGKDVVVLTPAPGGPAEKAGARAG` `___________________________________________________________________146__________________________________________________` `________________________________________________________________________________________________________________________` `1fcf(A) : DVIVTVDGTAVKGLSLYDVSDLLQGEADSQVEVVLHAPGAPSNTRTLQLTRQKVTINPVTFTTCSNVAAAALPPGAAKQQLGYVRLATFNSNTTAAAQQAFTELSKQGVAGLVLDIRNNG` `:` `1fc9(A) : DVIVTVDGTAVKGLSLYDVSDLLQGEADSQVEVVLHAPGAPSNTRTLQLTRQKVTINPVTFTTCSNVAAAALPPGAAKQQLGYVRLATFNSNTTAAAQQAFTELSKQGVAGLVLDIRNNG` `________________________________________________________________________________________________________________________` `________________________________________________________________________________399_____________415_____________________` `1fcf(A) : GGLFPAGVNVARMLVDRGDLVLIADSQGIRDIYSADGNSIDSATPLVVLVNRGTASASEVLAGALKDSKRGLIAGERTFGKGLIQTVVDLSDGSGVAVTVARYQTPAGVDINKIGVSPDV` `:` `1fc9(A) : GGLFPAGVNVARMLVDRGDLVLIADSQGIRDIYSADGNSIDSATPLVVLVNRGTASASEVLAGALKDSKRGLIAGERTFGKGLIQTVVDLSDGSGVAVTVARYQTPAGVDINKIGVSPDV` `________________________________________________________________________________399_____________415_____________________` `___________________________` `1fcf(A) : QLDPEVLPTDLEGVCRVLGSDAAPRLF` `:` `1fc9(A) : QLDPEVLPTDLEGVCRVLGSDAAPRLF` `___________________________`

Morph

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

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	11.0
Translation (A)	-0.2
Closure (%)	96.2
Bending Residues ( green )	146 - 152 399 - 401 415 - 416
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Mixed

PyMOL Script

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