DynDom - Protein Domain Motions

Maltodextrin-Binding Protein

(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	Maltodextrin-Binding Protein
Conformer 1 (PDB)	3mbp (A)
Conformer 2 (PDB)	1jw4 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	167	0.47	111 - 167 184 - 259 315 - 329 331 - 332 334 - 336 343 - 356
2	161	0.45	4 - 110 260 - 312 330 - 330
3	34	0.67	168 - 183 333 - 333 337 - 342 357 - 367

Sequence

`_________________________________________________________________________________________________________108____________` `3mbp(A) : KIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKD` `:` `1jw4(A) : KIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKD` `_________________________________________________________________________________________________________108____________` `____________________________________________167_____________183_________________________________________________________` `3mbp(A) : LLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKV` `:` `1jw4(A) : LLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKV` `____________________________________________167_____________183_________________________________________________________` `______________257___________________________________________________311____________326__331__336___342___________356____` `3mbp(A) : NYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEA` `:` `1jw4(A) : NYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEA` `______________257___________________________________________________311____________326__331__336___342___________356____` `__________` `3mbp(A) : LKDAQTRITK` `:` `1jw4(A) : LKDAQTRITK` `__________`

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)	35.5
Translation (A)	-0.6
Closure (%)	93.3
Bending Residues ( green )	108 - 113 257 - 262 311 - 319 326 - 332
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	8.7
Translation (A)	-0.3
Closure (%)	91.7
Bending Residues ( green )	167 - 168 183 - 184 331 - 334 336 - 338 342 - 343 356 - 357
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Shear

PyMOL Script

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