DynDom - Protein Domain Motions

Bifunctional Protein Puta

(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	Bifunctional Protein Puta
Conformer 1 (PDB)	5kf6 (A)
Conformer 2 (PDB)	9bbo (B)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	933	0.52	21 - 578 587 - 610 620 - 697 699 - 725 729 - 737 745 - 757 809 - 966 968 - 968 973 - 974 978 - 997 1001 - 1006 1022 - 1040 1080 - 1094 1214 - 1228
2	263	0.46	579 - 586 611 - 619 698 - 698 726 - 728 738 - 744 758 - 808 967 - 967 969 - 972 975 - 977 998 - 1000 1007 - 1021 1041 - 1079 1095 - 1213

Sequence

`________________________________________________________________________________________________________________________` `5kf6(A) : APAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEALRGK----gVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNW---` `:` `9bbo(B) : PAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEALRGKHSGSGVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIAD-nWKSH` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `5kf6(A) :` `----rSLFVNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAG` `:` `9bbo(B) :` `LGGSRSLFVNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAG` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `5kf6(A) : RGIYEGPGISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAY` `:` `9bbo(B) : RGIYEGPGISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAY` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `5kf6(A) : WDAEIKRAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLLAYLVRRLLEN` `:` `9bbo(B) : WDAEIKRAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLLAYLVRRLLEN` `________________________________________________________________________________________________________________________` `__________________________________________________________________________________578_____586_____________________610___` `5kf6(A) : GANSSFVHRINDPKVSIDELIADPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDA` `:` `9bbo(B) : GANSSFVHRINDPKVSIDELIADPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDA` `__________________________________________________________________________________578_____586_____________________610___` `___619___________________________________________________________________________697_________________________725________` `5kf6(A) : RRAVRLAADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAE` `:` `9bbo(B) : RRAVRLAADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAE` `___619___________________________________________________________________________697_________________________725________` `_737____744__________757________________________________________________808_____________________________________________` `5kf6(A) : ETPLIAAEGVRILREAGIPASALQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQ` `:` `9bbo(B) : ETPLIAAEGVRILREAGIPASALQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQ` `_737____744__________757________________________________________________808_____________________________________________` `______________________________________________________________________________________________________________966___972_` `5kf6(A) : EDVADRILTMLKGALHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFG` `:` `9bbo(B) : EDVADRILTMLKGALHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFG` `______________________________________________________________________________________________________________966___972_` `_977_________________997_____1006___________1021_______________1040___________________________________1079___________109` `5kf6(A) : LHTRLDETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNL` `:` `9bbo(B) : LHTRLDETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNL` `_977_________________997_____1006___________1021_______________1040___________________________________1079___________109` `4___________________________________________________________________________________________________________________1213` `5kf6(A) : YTLHARGRILLVPATESGLYHQLAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEE` `:` `9bbo(B) : YTLHARGRILLVPATESGLYHQLAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEE` `4___________________________________________________________________________________________________________________1213` `____________________` `5kf6(A) : VSASINTAAAGGNASLMA*` `:` `9bbo(B) : VSASINTAAAGGNASLMAIG` `____________________`

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)	3.6
Translation (A)	0.0
Closure (%)	95.9
Bending Residues ( green )	578 - 579 586 - 587 610 - 611 619 - 620 697 - 699 725 - 726 728 - 729 737 - 738 744 - 745 757 - 758 808 - 809 966 - 969 972 - 975 977 - 978 997 - 1001 1006 - 1007 1021 - 1022 1040 - 1041 1079 - 1080 1094 - 1095 1213 - 1214
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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