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)	6x9b (A)
Conformer 2 (PDB)	6x9b (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	651	0.4	20 - 159 163 - 538 549 - 566 572 - 576 603 - 604 654 - 657 659 - 661 664 - 668 815 - 815 822 - 836 853 - 858 869 - 872 876 - 885 913 - 920 923 - 925 952 - 957 972 - 974 984 - 1000 1007 - 1009 1083 - 1092 1214 - 1231
2	559	0.46	16 - 19 160 - 162 539 - 548 567 - 571 577 - 602 605 - 653 658 - 658 662 - 663 669 - 814 816 - 821 837 - 852 859 - 868 873 - 875 886 - 912 921 - 922 926 - 951 958 - 971 975 - 983 1001 - 1006 1010 - 1082 1093 - 1213

Sequence

`____19__________________________________________________________________________________________________________________` `6x9b(A) : APAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEALRGKsGVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNWKSHLrS` `:` `6x9b(B) : APAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEALRGKsGVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNWKSHLrS` `____19__________________________________________________________________________________________________________________` `_________________159____________________________________________________________________________________________________` `6x9b(A) : LFVNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEG` `:` `6x9b(B) : LFVNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEG` `_________________159____________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6x9b(A) : PGISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIK` `:` `6x9b(B) : PGISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIK` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6x9b(A) : RAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLLAYLVRRLLENGANSSF` `:` `6x9b(B) : RAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLLAYLVRRLLENGANSSF` `________________________________________________________________________________________________________________________` `____________________________________538_______548_______________566__571____________________________602_________________` `6x9b(A) : VHRINDPKVSIDELIADPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAVRL` `:` `6x9b(B) : VHRINDPKVSIDELIADPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAVRL` `____________________________________538_______548_______________566__571____________________________602_________________` `_______________________________653_657_661____668_______________________________________________________________________` `6x9b(A) : AADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAEETPLIA` `:` `6x9b(B) : AADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAEETPLIA` `_______________________________653_657_661____668_______________________________________________________________________` `________________________________________________________________________814____821___________835______________852___858_` `6x9b(A) : AEGVRILREAGIPASALQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADR` `:` `6x9b(B) : AEGVRILREAGIPASALQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADR` `________________________________________________________________________814____821___________835______________852___858_` `______868____875_______885____________________908_________920__925_______________________951___957___________971________` `6x9b(A) : ILTMLKGALHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFGLHTRLD` `:` `6x9b(B) : ILTMLKGALHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFGLHTRLD` `______868____875_______885____________________908_________920__925_______________________951___957___________971________` `_983_____________1000__1006________________________________________________________________________1082______1092_______` `6x9b(A) : ETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNLYTLHAR` `:` `6x9b(B) : ETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNLYTLHAR` `_983_____________1000__1006________________________________________________________________________1082______1092_______` `______________________________________________________________________________________________________________1213______` `6x9b(A) : GRILLVPATESGLYHQLAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSASIN` `:` `6x9b(B) : GRILLVPATESGLYHQLAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSASIN` `______________________________________________________________________________________________________________1213______` `______________` `6x9b(A) : TAAAGGNASLMAIG` `:` `6x9b(B) : TAAAGGNASLMAIG` `______________`

Morph

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	3.3
Translation (A)	0.2
Closure (%)	76.9
Bending Residues ( green )	19 - 20 159 - 160 162 - 163 538 - 539 548 - 549 566 - 567 571 - 577 602 - 605 653 - 654 657 - 659 661 - 664 668 - 669 814 - 816 821 - 822 835 - 837 852 - 853 858 - 859 868 - 873 875 - 876 885 - 886 908 - 913 920 - 923 925 - 930 951 - 952 957 - 958 971 - 972 974 - 975 983 - 984 1000 - 1001 1006 - 1007 1009 - 1010 1082 - 1083 1092 - 1093 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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