DynDom - Protein Domain Motions

Protein (S-Adenosylhomocysteine Hydrolase)

(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	Protein (S-Adenosylhomocysteine Hydrolase)
Conformer 1 (PDB)	1b3r (B)
Conformer 2 (PDB)	1k0u (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	214	0.56	6 - 186 356 - 384 391 - 393 400 - 400
2	210	0.58	187 - 355 385 - 390 394 - 399 401 - 429

Sequence

`________________________________________________________________________________________________________________________` `1b3r(B) : **LPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKD` `:` `1k0u(B) : DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKD` `________________________________________________________________________________________________________________________` `_____________________________________________________________185________________________________________________________` `1b3r(B) : GPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIIT` `:` `1k0u(B) : GPLNMILDDGGDLTNLIHTKHPQLLSGIRGISEETTTGVHNLYKMMANGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIIT` `_____________________________________________________________185________________________________________________________` `______________________________________________________________________________________________________________354_______` `1b3r(B) : EIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSF` `:` `1k0u(B) : EIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYLLKNGHRIILLAEGRLVNLGCAMGHPSFVMSNSF` `______________________________________________________________________________________________________________354_______` `____________________384__389_______399________________________________` `1b3r(B) : TNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY` `:` `1k0u(B) : TNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY` `____________________384__389_______399________________________________`

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)	15.1
Translation (A)	-0.1
Closure (%)	99.2
Bending Residues ( green )	185 - 191 354 - 356 384 - 385 389 - 394 399 - 403
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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