DynDom - Protein Domain Motions

Beta-Xylosidase

(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	Beta-Xylosidase
Conformer 1 (PDB)	2bfg (H)
Conformer 2 (PDB)	1w91 (A)
Window Length	15
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	170	0.47	11 - 19 228 - 252 277 - 315 334 - 396 416 - 426 429 - 444 470 - 476
2	250	0.55	22 - 227 253 - 276 316 - 333 427 - 428
3	30	0.59	402 - 414 453 - 469

Sequence

`________11______________________________________________________________________________________________________________` `2bfg(H) : GVVNVPSNGREKFKKNWKFCVGTGRLGLALQKEYLDHLKLVQEKIGFRYIRGHGLLSDDVGIYREVEIDGEMKPFYNFTYIDRIVDSYLALNIRPFIEFGFMPKALASGDQTVFYWKGNV` `:` `1w91(A) : **VNVPSNGREKFKKNWKFCVGTGRLGLALQKEYLDHLKLVQEKIGFRYIRGHGLLSDDVGIYREVEIDGEMKPFYNFTYIDRIVDSYLALNIRPFIEFGFMPKALASGDQTVFYWKGNV` `________11______________________________________________________________________________________________________________` `_______________________________________________________________________________________________________227______________` `2bfg(H) : TPPKDYNKWRDLIVAVVSHFIERYGIEEVRTWLFEVWNAPNLVNFWKDANKQEYFKLYEVTARAVKSVDPHLQVGGPAICGGSDEWITDFLHFCAERRVPVDFVSRHAYTSKAPHKKTFE` `:` `1w91(A) : TPPKDYNKWRDLIVAVVSHFIERYGIEEVRTWLFEVWNEPNLVNFWKDANKQEYFKLYEVTARAVKSVDPHLQVGGPAICGGSDEWITDFLHFCAERRVPVDFVSRHAYTSKAPHKKTFE` `_______________________________________________________________________________________________________227______________` `________252_____________________276____________________________________315_______________333____________________________` `2bfg(H) : YYYQELEPPEDMLEQFKTVRALIRQSPFPHLPLHITEYNTSYSPINPVHDTALNAAYIARILSEGGDYVDSFSYWTFSDVFEEMDVPKALFHGGFGLVALHSIPKPTFHAFTFFNALGDE` `:` `1w91(A) : YYYQELEPPEDMLEQFKTVRALIRQSPFPHLPLHITEYNTSYSPINPVHDTALNAAYIARILSEGGDYVDSFSYWTFSDVFEEMDVPKALFHGGFGLVALHSIPKPTFHAFTFFNALGDE` `________252_____________________276____________________________________315_______________333____________________________` `__________________________390_____________________414_________426_______________444______________________469____________` `2bfg(H) : LLYRDGEMIVTRRKDGSIAAVLWNLVMEKGEGLTKEVQLVIPVSESAVFIKRQIVNEQYGNAWRVWKQMGRPRFPSRQAVETLRQVAQPHVMTEQRRATDGVIHLSIVLSKNEVTLIEIE` `:` `1w91(A) : LLYRDGEMIVTRRKDGSIAAVLWNLVMEKGEGLTKEVQLVIPVSFSAVFIKRQIVNEQYGNAWRVWKQMGRPRFPSRQAVETLRQVAQPHVMTEQRRATDGVIHLSIVLSKNEVTLIEIE` `__________________________390_____________________414_________426_______________444______________________469____________` `_____________________` `2bfg(H) : QVRDETSTYVGLDDGEITSYS` `:` `1w91(A) : QVRDETSTYVGLDDGEITSYS` `_____________________`

Morph

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	11.2
Translation (A)	0.0
Closure (%)	97.7
Bending Residues ( green )	71 - 72
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	7.4
Translation (A)	-0.3
Closure (%)	25.9
Bending Residues ( green )	163 - 164 202 - 203 210 - 212 259 - 268 272 - 273
Bending Region Analysis