DynDom - Protein Domain Motions

Phosphoenolpyruvate Carboxykinase

(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	Phosphoenolpyruvate Carboxykinase
Conformer 1 (PDB)	1oen (A)
Conformer 2 (PDB)	1ayl (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	351	0.98	8 - 236 253 - 255 265 - 356 408 - 434
2	169	1.67	237 - 252 256 - 264 357 - 407 435 - 538

Sequence

`________________________________________________________________________________________________________________________` `1oen(A) : *****GLTPQELEAYGISDVHDIVYNPSYDLLYQEELDPSLTGYERGVLTNLGAVAVDTGIFTGRSPKDKYIVRDDTTRDTFWWADKGKGKNDNKPLSPETWQHLKGLVTRQLSGKRLFV` `:` `1ayl(A) : MRVNNGLTPQELEAYGISDVHDIVYNPSYDLLYQEELDPSLTGYERGVLTNLGAVAVDTGIFTGRSPKDKYIVRDDTTRDTFWWADKGKGKNDNKPLSPETWQHLKGLVTRQLSGKRLFV` `________________________________________________________________________________________________________________________` `_________________________________________________________________________________________________________________236____` `1oen(A) : VDAFCGANPDTRLSVRFITEVAWQAHFVKNMFIRPSDEELAGFKPDFIVMNGAKCTNPQWKEQGLNSENFVAFNLTERMQLIGGTWYGGEMKKGMFSMMNYLLPLKGIASMHCSANVGEA` `:` `1ayl(A) : VDAFCGANPDTRLSVRFITEVAWQAHFVKNMFIRPSDEELAGFKPDFIVMNGAKCTNPQWKEQGLNSENFVAFNLTERMQLIGGTWYGGEMKKGMFSMMNYLLPLKGIASMHCSANVGEK` `_________________________________________________________________________________________________________________236____` `_________252_________264_________________________________________________________________________________________356____` `1oen(A) : GDVAVFFGLSGSGKTTLSTDPARRLIGDDEHGWDDDGVFNFEGGSYAKTIKLSKEAEPEIYAAIRRDALLENVTVRAGGTIDFDDGSKTENTRVSYPIYHIDNIVKPVSKAGHATKVIFL` `:` `1ayl(A) : GDVAVFFGLSGTGKTTLSTDPKRRLIGDDEHGWDDDGVFNFEGGCYAKTIKLSKEAEPEIYNAIRRDALLENVTVREDGTIDFDDGSKTENTRVSYPIYHIDNIVKPVSKAGHATKVIFL` `_________252_________264_________________________________________________________________________________________356____` `____________________________________407________________________434______________________________________________________` `1oen(A) : TADAFGVLPPVSRLTADQTQYHFLSGFTAAAApTPTFSACFGAAFLSLHPTQYAEVLVKRMQAAGAQAYLVNTGWNGTGKRISAADTRAIIDAILNGSLDNAETFTLPMFNLAIPTELPG` `:` `1ayl(A) : TADAFGVLPPVSRLTADQTQYHFLSGFTAKLApTPTFSACFGAAFLSLHPTQYAEVLVKRMQAAGAQAYLVNTGWNGTGKRISIKDTRAIIDAILNGSLDNAETFTLPMFNLAIPTELPG` `____________________________________407________________________434______________________________________________________` `____________________________________________________` `1oen(A) : VDTGILDPRNTYaG---WQEKAETLAKLFIDNFDKYTDTPAGAALVAAGPAL` `:` `1ayl(A) : VDTKILDPRNTYASPEQWQEKAETLAKLFIDNFDKYTDTPAGAALVAAGPKL` `____________________________________________________`

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)	19.0
Translation (A)	0.2
Closure (%)	99.9
Bending Residues ( green )	236 - 237 252 - 253 255 - 256 264 - 265 356 - 357 407 - 408 434 - 435
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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