DynDom - Protein Domain Motions

D-3-Phosphoglycerate Dehydrogenase

(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	D-3-Phosphoglycerate Dehydrogenase
Conformer 1 (PDB)	1ygy (B)
Conformer 2 (PDB)	1ygy (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	316	2.43	5 - 320
2	207	1.68	321 - 527

Sequence

`________________________________________________________________________________________________________________________` `1ygy(B) : SLPVVLIADKLAPSTVAALGDQVEVRWVDGPDRDKLLAAVPEADALLVRSATTVDAEVLAAAPKLKIVARAGVGLDNVDVDAATARGVLVVNAPTSNIHSAAEHALALLLAASRQIPAAD` `:` `1ygy(A) : SLPVVLIADKLAPSTVAALGDQVEVRWVDGPDRDKLLAAVPEADALLVRSATTVDAEVLAAAPKLKIVARAGVGLDNVDVDAATARGVLVVNAPTSNIHSAAEHALALLLAASRQIPAAD` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1ygy(B) : ASLREHTWKRSSFSGTEIFGKTVGVVGLGRIGQLVAQRIAAFGAYVVAYDPYVSPARAAQLGIELLSLDDLLARADFISVHLPKTPETAGLIDKEALAKTKPGVIIVNAARGGLVDEAAL` `:` `1ygy(A) : ASLREHTWKRSSFSGTEIFGKTVGVVGLGRIGQLVAQRIAAFGAYVVAYDPYVSPARAAQLGIELLSLDDLLARADFISVHLPKTPETAGLIDKEALAKTKPGVIIVNAARGGLVDEAAL` `________________________________________________________________________________________________________________________` `_____________________________________________________________________314________________________________________________` `1ygy(B) : ADAITGGHVRAAGLDVFATEPCTDSPLFELAQVVVTPHLGASTAEAQDRAGTDVAESVRLALAGEFVPDAVNVGGGVVNEEVAPWLDLVRKLGVLAGVLSDELPVSLSVQVRGELAAEEV` `:` `1ygy(A) : ADAITGGHVRAAGLDVFATEPCTDSPLFELAQVVVTPHLGASTAEAQDRAGTDVAESVRLALAGEFVPDAVNVGGGVVNEEVAPWLDLVRKLGVLAGVLSDELPVSLSVQVRGELAAEEV` `_____________________________________________________________________314________________________________________________` `________________________________________________________________________________________________________________________` `1ygy(B) : EVLRLSALRGLFSAVIEDAVTFVNAPALAAERGVTAEICKASESPNHRSVVDVRAVGADGSVVTVSGTLYGPQLSQKIVQINGRHFDLRAQGINLIIHYVDRPGALGKIGTLLGTAGVNI` `:` `1ygy(A) : EVLRLSALRGLFSAVIEDAVTFVNAPALAAERGVTAEICKASESPNHRSVVDVRAVGADGSVVTVSGTLYGPQLSQKIVQINGRHFDLRAQGINLIIHYVDRPGALGKIGTLLGTAGVNI` `________________________________________________________________________________________________________________________` `_______________________________________________` `1ygy(B) : QAAQLSEDAEGPGATILLRLDQDVPDDVRTAIAAAVDAYKLEVVDLS` `:` `1ygy(A) : QAAQLSEDAEGPGATILLRLDQDVPDDVRTAIAAAVDAYKLEVVDLS` `_______________________________________________`

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)	159.4
Translation (A)	-2.8
Closure (%)	65.1
Bending Residues ( green )	314 - 321
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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