DynDom - Protein Domain Motions

Poly(a) Polymerase

(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	Poly(a) Polymerase
Conformer 1 (PDB)	2hhp (A)
Conformer 2 (PDB)	2o1p (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	330	1.03	6 - 33 197 - 203 207 - 209 212 - 277 279 - 279 284 - 527
2	173	0.53	34 - 196 204 - 206 210 - 211 278 - 278 280 - 283

Sequence

`_____________________________33_________________________________________________________________________________________` `2hhp(A) : QKVFGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQRFVYEVSKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTREDFFTVFDS` `:` `2o1p(B) : SQKVFGITGPVSTVGATAAENKLNDSLIQELKKEGSFETEQETANRVQVLKILQELAQRFVYEVSKKKNMSDGMARDAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVTREDFFTVFDS` `_____________________________33_________________________________________________________________________________________` `_______________________________________________________________________196____203___209_________________________________` `2hhp(A) : LLRERKELDEIAPVPDAFVPIIKIKFSGISIDLICARLDQPQVPLSLTLSDKNLLRNLDEKDLRALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLVAR` `:` `2o1p(B) : LLRERKELDEIAPVPDAFVPIIKIKFSGISIDLICARLDQPQVPLSLTLSDKNLLRNLDEKDLRALNGTRVTDEILELVPKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLVAR` `_______________________________________________________________________196____203___209_________________________________` `________________________________277_____________________________________________________________________________________` `2hhp(A) : ICQLYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKKSWANLFEKNDFFFRYKFYL` `:` `2o1p(B) : ICQLYPNACSAVILNRFFIILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTKKVILQEFVRGVQITNDIFSNKKSWANLFEKNDFFFRYKFYL` `________________________________277_____________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2hhp(A) : EITAYTRGSDEQHLKWSGLVESKVRLLVMKLEVLAGIKIAHPFTKPFESSYCCPTEDDYEMIQDKYGSHKTETALNALK----------pKAYLSTMYIGLDFN----kEKVDIHIPCTE` `:` `2o1p(B) : EITAYTRGSDEQHLKWSGLVESKVRLLVMKLEVLAGIKIAHPFTKPFESSYCCPTEDDYEMIQDKYGSHKTETALNALKLVTDENKEdAPKAYLSTMYIGLDFNIENKKEKVDIHIPCTE` `________________________________________________________________________________________________________________________` `___________________________________________` `2hhp(A) : FVNLCRSFNEDYGDHKVFNLALRFVKGYDLPDEVFDENEKRPS` `:` `2o1p(B) : FVNLCRSFNEDYGDHKVFNLALRFVKGYDLPDEVFDENEKRP` `___________________________________________`

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)	9.2
Translation (A)	-0.2
Closure (%)	76.3
Bending Residues ( green )	33 - 34 196 - 197 203 - 204 206 - 207 209 - 212 277 - 284
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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