DynDom - Protein Domain Motions

Poly(a) Polymerase Alpha

(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 Alpha
Conformer 1 (PDB)	1q78 (A)
Conformer 2 (PDB)	1q79 (A)
Window Length	11
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	342	0.39	24 - 70 92 - 92 94 - 98 101 - 101 114 - 116 157 - 158 161 - 166 206 - 493
2	115	0.3	71 - 91 93 - 93 99 - 100 102 - 113 117 - 156 159 - 159 167 - 205

Sequence

`_________________________________________________70___________________91_____98____________113__________________________` `1q78(A) : HYGITSPISLAAPKETDlLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKL` `:` `1q79(A) : HYGITSPISLAAPKETDlLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKL` `_________________________________________________70___________________91_____98____________113__________________________` `______________156_______166___________________________________205_______________________________________________________` `1q78(A) : QEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRiRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY` `:` `1q79(A) : QEEVKDLRAVEEAFVPVIKL-fDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRiRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLY` `______________156_______166___________________________________205_______________________________________________________` `________________________________________________________________________________________________________________________` `1q78(A) : PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLAS` `:` `1q79(A) : PNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLAS` `________________________________________________________________________________________________________________________` `____________________________________________________________________________________________________________` `1q78(A) : APTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLVFKdLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLLP` `:` `1q79(A) : APTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLVFKdLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQLHQLLP` `____________________________________________________________________________________________________________`

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)	2.3
Translation (A)	0.0
Closure (%)	81.2
Bending Residues ( green )	70 - 71 91 - 94 98 - 102 113 - 117 156 - 161 166 - 167 205 - 206
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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