DynDom - Protein Domain Motions

Tutd

(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	Tutd
Conformer 1 (PDB)	4pkf (A)
Conformer 2 (PDB)	4pkc (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	645	0.8	20 - 174 197 - 378 383 - 492 496 - 514 569 - 612 698 - 701 704 - 710 713 - 713 726 - 726 729 - 730 739 - 863
2	194	0.9	175 - 196 379 - 382 493 - 495 515 - 568 613 - 697 702 - 703 711 - 712 714 - 725 727 - 728 731 - 738

Sequence

`________________________________________________________________________________________________________________________` `4pkf(A) : KVLEYKGKKLNFTPEDPAEETIPADELHEHLQKPSTARTKRLKERCRWKHASAGEFIEKSVTAGIERMRYLTEAHKASEGKPEAIRRALGLANVLNKSTLVLQEDEFIVGYHAEDPNMFP` `:` `4pkc(A) : *********LNFTPEDPAEETIPADELHEHLQKPSTARTKRLKERCRWKHASAGEFIEKSVTAGIERMRYLTEAHKASEGKPEAIRRALGLANVLNKSTLVLQEDEFIVGYHAEDPNMFP` `________________________________________________________________________________________________________________________` `___________________________________________174___________________196____________________________________________________` `4pkf(A) : LYPELSHMAVQDYLRSDYSPQPADEAAAINEYWKPHSLQSKCQPYFDPADLGRMYQVSSMEAPSFASGYNSIVPPYETVLEDGLLARIKLAEKHIAEAQADMSTFPWNGTKGLDNIAKID` `:` `4pkc(A) : LYPELSHMAVQDYLRSDYSPQPADEAAAINEYWKPHSLQSKCQPYFDPADLGRMYQVSSMEAPSFASGYNSIVPPYETVLEDGLLARIKLAEKHIAEAQADMSTFPWNGTKGLDNIAKID` `___________________________________________174___________________196____________________________________________________` `________________________________________________________________________________________________________________________` `4pkf(A) : NWKAMVIACKAVISWARRQGRLCKIVAENFETDPKRQAELLEIADICQRIPAEPCKGLKDAMQAKFFTFLICHAIERYASGYAQKEDTLLWPYYKASVVDKKFQPMSHMDAVELVEMERL` `:` `4pkc(A) : NWKAMVIACKAVISWARRQGRLCKIVAENFETDPKRQAELLEIADICQRIPAEPCKGLKDAMQAKFFTFLICHAIERYASGYAQKEDTLLWPYYKASVVDKKFQPMSHMDAVELVEMERL` `________________________________________________________________________________________________________________________` `___374__________________________________________________________________________________________________________________` `4pkf(A) : KISEHGAGKSRAYREIFPGSNDLFILTVGGTNAKGEDACNDMTDAILEAAKRIRTAEPSIVFRYSKKNREKTLRWVFECIRDGLGYPSIKHDEIGTEQMKEYAKFSLNGNGATDEEAHNW` `:` `4pkc(A) : KISEHGAGKSRAYREIFPGSNDLFILTVGGTNAKGEDACNDMTDAILEAAKRIRTAEPSIVFRYSKKNREKTLRWVFECIRDGLGYPSIKHDEIGTEQMKEYAKFSLNGNGATDEEAHNW` `___374__________________________________________________________________________________________________________________` `_492___________________514___________________________________________________568________________________________________` `4pkf(A) : VNVLCMSPGIHGRRKTQKTRSEGGGSIFPAKLLEISLNDGYDWSYADMQLGPKTGDLSSLKSFEDVWEAFRKQYQYAINLCISTKDVSRYFEQRFLQMPFVSAIDDGCMELGMDACALSE` `:` `4pkc(A) : VNVLCMSPGIHGRRKTQKTRSEGGGSIFPAKLLEISLNDGYDWSYADMQLGPKTGDLSSLKSFEDVWEAFRKQYQYAINLCISTKDVSRYFEQRFLQMPFVSAIDDGCMELGMDACALSE` `_492___________________514___________________________________________________568________________________________________` `_612__________________________________________________________________________________697_701_____________________725___` `4pkf(A) : QPNGWHNPITTIVAANSLVAIKKLVFEEKKYTLEQLSQALKANWEGFEEMRVDFKRAPKWGNDDDYADGIITRFYEEIIGGEMRKITNYSGGPVMPTGQAVGLYMEVGSRTGPTPDGRFG` `:` `4pkc(A) : QPNGWHNPITTIVAANSLVAIKKLVFEEKKYTLEQLSQALKANWEGFEEMRVDFKRAPKWGNDDDYADGIITRFYEEIIGGEMRKITNYSGGPVMPTGQAVGLYMEVGSRTGPTPDGRFG` `_612__________________________________________________________________________________697_701_____________________725___` `________________________________________________________________________________________________________________________` `4pkf(A) : GEAADDGGISPYMGTDKKGPTAVLRSVSKVQKNQKGNLLNQRLSVPIMRSKHGFEIWNSYIKTWHDLNIDHVQFNVVSTDEMRAAQREPEKHHDLIVRVSGYSARFVDIPTYGQNTIIAR` `:` `4pkc(A) : GEAADDGGISPYMGTDKKGPTAVLRSVSKVQK-----lLNQRLSVPIMRSKHGFEIWNSYIKTWHDLNIDHVQFNVVSTDEMRAAQREPEKHHDLIVRVSGYSARFVDIPTYGQNTIIAR` `________________________________________________________________________________________________________________________` `_________________` `4pkf(A) : QEQDFSASDLEFLNVEI` `:` `4pkc(A) : QEQDFSASDLEFLNVEI` `_________________`

Morph

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Status: Initialising

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	7.1
Translation (A)	0.1
Closure (%)	49.7
Bending Residues ( green )	174 - 175 196 - 197 374 - 389 492 - 493 495 - 496 514 - 515 568 - 569 612 - 613 697 - 698 701 - 714 725 - 749
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

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