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)	6x9a (A)
Conformer 2 (PDB)	5kf6 (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	599	0.6	16 - 96 101 - 124 146 - 154 178 - 384 388 - 538 549 - 559 564 - 575 591 - 592 594 - 594 600 - 603 647 - 648 654 - 655 666 - 670 740 - 740 817 - 818 822 - 835 844 - 844 853 - 861 877 - 886 912 - 926 951 - 957 969 - 974 985 - 988 990 - 993 997 - 1003 1006 - 1009 1015 - 1017 1084 - 1085 1090 - 1092 1223 - 1229
2	597	0.55	97 - 100 125 - 145 155 - 177 385 - 387 539 - 548 560 - 563 576 - 590 593 - 593 595 - 599 604 - 646 649 - 653 656 - 665 671 - 739 741 - 816 819 - 821 836 - 843 845 - 852 862 - 876 887 - 911 927 - 950 958 - 968 975 - 984 989 - 989 994 - 996 1004 - 1005 1010 - 1014 1018 - 1083 1086 - 1089 1093 - 1222

Sequence

`_____________________________________________________________________________96_100_____________________124_____________` `6x9a(A) : APAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEALRGKgVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNWKSHLsRS` `:` `5kf6(B) : APAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEALRGKgVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNW-----rS` `_____________________________________________________________________________96_100_____________________124_____________` `___145______154____________________177__________________________________________________________________________________` `6x9a(A) : LFVNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEG` `:` `5kf6(B) : LFVNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEG` `___145______154____________________177__________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6x9a(A) : PGISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIK` `:` `5kf6(B) : PGISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIK` `________________________________________________________________________________________________________________________` `__384___________________________________________________________________________________________________________________` `6x9a(A) : RAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLLAYLVRRLLENGANSSF` `:` `5kf6(B) : RAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYH-------vGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLLAYLVRRLLENGANSSF` `__384___________________________________________________________________________________________________________________` `____________________________________538_______548________559_563_________575____________590______599_603________________` `6x9a(A) : VHRINDPKVSIDELIADPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAVRL` `:` `5kf6(B) : VHRINDPKVSIDELIADPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAVRL` `____________________________________538_______548________559_563_________575____________590______599_603________________` `________________________646____653_________665__670__________________________________________________________________739` `6x9a(A) : AADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAEETPLIA` `:` `5kf6(B) : AADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAEETPLIA` `________________________646____653_________665__670__________________________________________________________________739` `__________________________________________________________________________816__821___________835_____843______852______8` `6x9a(A) : AEGVRILREAGIPASALQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADR` `:` `5kf6(B) : AEGVRILREAGIPASALQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADR` `__________________________________________________________________________816__821___________835_____843______852______8` `61____________876_______886______895____________________________926__________________947_______957________968___974_____` `6x9a(A) : ILTMLKGALHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFGLHTRLD` `:` `5kf6(B) : ILTMLKGALHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFGLHTRLD` `61____________876_______886______895____________________________926__________________947_______957________968___974_____` `__984_988__993___1000_____1009_1014_________________________________________________________________1083__1089__________` `6x9a(A) : ETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNLYTLHAR` `:` `5kf6(B) : ETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNLYTLHAR` `__984_988__993___1000_____1009_1014_________________________________________________________________1083__1089__________` `_______________________________________________________________________________________________________________________1` `6x9a(A) : GRILLVPATESGLYHQLAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSASIN` `:` `5kf6(B) : GRILLVPATESGLYHQLAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSASIN` `_______________________________________________________________________________________________________________________1` `222___________` `6x9a(A) : TAAAGGNASLMAIG` `:` `5kf6(B) : TAAAGGNASLMA**` `222___________`

Morph

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	3.4
Translation (A)	0.1
Closure (%)	75.5
Bending Residues ( green )	96 - 97 100 - 101 124 - 128 145 - 146 154 - 155 177 - 178 384 - 385 387 - 388 538 - 539 548 - 549 559 - 560 563 - 564 575 - 576 590 - 595 599 - 600 603 - 604 646 - 649 653 - 656 665 - 666 670 - 671 739 - 741 816 - 819 821 - 822 835 - 836 843 - 845 852 - 853 861 - 864 876 - 877 886 - 887 895 - 912 926 - 930 947 - 951 957 - 958 968 - 969 974 - 975 984 - 985 988 - 990 993 - 994 996 - 997 1000 - 1006 1009 - 1010 1014 - 1015 1017 - 1018 1083 - 1086 1089 - 1090 1092 - 1093 1222 - 1223
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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