DynDom - Protein Domain Motions

Glutamate Transporter Homolog

(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	Glutamate Transporter Homolog
Conformer 1 (PDB)	7ugd (A)
Conformer 2 (PDB)	7ugv (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	218	1.0	12 - 18 74 - 103 108 - 111 114 - 121 224 - 319 334 - 356 364 - 414
2	191	0.82	5 - 11 19 - 73 104 - 107 112 - 113 122 - 223 320 - 333 357 - 363

Sequence

`________11_____18_____________________________________________________73___________________________103_107_111_______121` `7ugd(A) : LYRKYIEYPVLQKILIGLILGAIVGLILGHYGYAHAVHTYVKPFGDLFVRLLKMLVMPIVFASLVVGAASISPARLGRVGVKIVVYYLLTSAFAVTLGIIMARLFNPGAGIHLAVGGQQ` `:` `7ugv(A) : GLYRKYIEYPVLQKILIGLILGAIVGLILGHYGYAHAVHTYVKPFGDLFVRLLKMLVMPIVFASLVVGAASISPARLGRVGVKIVVYYLLTSAFAVTLGIIMARLFNPGAGIHLAVGGQQ` `________11_____18_____________________________________________________73___________________________103_107_111_______121` `______________________________________________________________________________________________218_______________________` `7ugd(A) : FQPHQAPPLVHILLDIVPTNPFGALANGQVLPTIFFAIILGIAITYLMNSENEKVRKSAETLLDAINGLAEAMYKIVNGVMQYAPIGVFALIAHVMAHQGVHVVGELAKVTAAVYVGLTL` `:` `7ugv(A) : FQPHQAPPLVHILLDIVPTNPFGALANGQVLPTIFFAIILGIAITYLMNSENEKVRKSAETLLDAINGLAEAMYKIVNGVMQYAPIGVFALIAHVMAHQGVHVVGELAKVTAAVYVGLTL` `______________________________________________________________________________________________218_______________________` `___________________________________________________________________________319_________331______________________356____3` `7ugd(A) : QILLVYFVLLKIYGIDPISFIKHAKDAMLTAFVTSSSSGTLPVTMRVAKEMGISEGIYSFTLPLGATINMDGTALYQGVATFFIANALGSHLTVGQQLTIVLTAVLASIGTAGVPGAGAI` `:` `7ugv(A) : QILLVYFVLLKIYGIDPISFIKHAKDAMLTAFVTSSSSGTLPVTMRVAKEMGISEGIYSFTLPLGATINMDGTALYQGVATFFIANALGSHLTVGQQLTIVLTAVLASIGTAGVPGAGAI` `___________________________________________________________________________319_________331______________________356____3` `63______________________________________________________` `7ugd(A) : MLAMVLHSVGLPLTDPNVAAAYAiLGIDAILDRGRTMVNVTGDLTGTAIVAKTE*` `:` `7ugv(A) : MLAMVLHSVGLPLTDPNVAAAYAiLGIDAILDRGRTMVNVTGDLTGTAIVAKTEGT` `63______________________________________________________`

Morph

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	5.3
Translation (A)	-1.2
Closure (%)	46.1
Bending Residues ( green )	11 - 12 18 - 19 73 - 78 103 - 104 107 - 108 111 - 114 121 - 126 218 - 227 319 - 320 331 - 334 356 - 357 363 - 364
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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