DynDom - Protein Domain Motions

Clpb 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	Clpb Protein
Conformer 1 (PDB)	1qvr (A)
Conformer 2 (PDB)	1qvr (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	666	1.58	7 - 348 355 - 385 389 - 398 522 - 848
2	76	1.11	349 - 354 386 - 388 451 - 453 458 - 521
3	53	2.1	402 - 450 454 - 457

Sequence

`________________________________________________________________________________________________________________________` `1qvr(A) : ERWTQAAREALAQAQVLAQRMKHQAIDLPHLWAVLLKDERSLAWRLLEKAGADPKALKELQERELARLPKVEGAEVGQYLTSRLSGALNRAEGLMEELKDRYVAVDTLVLALAEATPGLP` `:` `1qvr(B) : ERWTQAAREALAQAQVLAQRMKHQAIDLPHLWAVLLKDERSLAWRLLEKAGADPKALKELQERELARLPKVEGAEVGQYLTSRLSGALNRAEGLMEELKDRYVAVDTLVLALAEATPGLP` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1qvr(A) : GLEALKGALKELRGGRTVQTEHAESTYNALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMeFEERLKAV` `:` `1qvr(B) : GLEALKGALKELRGGRTVQTEHAESTYNALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMeFEERLKAV` `________________________________________________________________________________________________________________________` `________________________________________________________________________348___354____________________________385__390___` `1qvr(A) : IQEVVQSQGEVILFIDElKPALARGELRLIGATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLR` `:` `1qvr(B) : IQEVVQSQGEVILFIDElKPALARGELRLIGATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLR` `________________________________________________________________________348___354____________________________385__390___` `______________________________________________________450____457________________________________________________________` `1qvr(A) : MALESAPEEIDALERKKLQLEIEREALKKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEAEVEALSEKLRG` `:` `1qvr(B) : MALESAPEEIDALERKKLQLEIEREALKKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEAEVEALSEKLRG` `______________________________________________________450____457________________________________________________________` `_____521________________________________________________________________________________________________________________` `1qvr(A) : ARFVRLEVTEEDIAEIVSRWTGIPVSKLLEGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV` `:` `1qvr(B) : ARFVRLEVTEEDIAEIVSRWTGIPVSKLLEGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV` `_____521________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1qvr(A) : SRLqLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVE` `:` `1qvr(B) : SRLqLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVE` `________________________________________________________________________________________________________________________` `___________________________________________________________________________________` `1qvr(A) : IQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPA` `:` `1qvr(B) : IQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPA` `___________________________________________________________________________________`

Morph

Morph animation in progress.
Status: Initialising

This morph was created using the MorphIt_Pro protein morphing technique.
For more advanced options, right click on the model.

play backwards

pause

play forwards

Domain Pairs

Fixed Domain	Moving Domain	Rotation Angle	Translation (A)	Closure	Bending Residues
1	2	13.2	-0.9	20.3	348 - 349 354 - 355 385 - 386 388 - 389 521 - 522	Bending Region Analysis
1	3	30.6	-2.0	36.7	390 - 402	Bending Region Analysis
3	2	34.4	-0.1	22.0	450 - 451 453 - 454 457 - 458	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:

No Contacts

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

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

Movement classification:

No Contacts

PyMOL Script

Download and extract PyMOL PML script file

Download