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

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	692	0.43	16 - 158 163 - 373 377 - 533 537 - 538 549 - 569 572 - 577 593 - 601 652 - 658 664 - 673 810 - 813 815 - 815 817 - 819 821 - 836 840 - 851 856 - 856 861 - 864 870 - 887 912 - 920 923 - 926 939 - 946 951 - 975 984 - 1001 1005 - 1009 1015 - 1015 1083 - 1085 1087 - 1091 1217 - 1229
2	497	0.45	159 - 162 374 - 376 534 - 536 539 - 548 570 - 571 578 - 592 602 - 651 659 - 663 674 - 809 814 - 814 816 - 816 820 - 820 837 - 839 852 - 855 857 - 860 865 - 869 888 - 911 921 - 922 927 - 938 947 - 950 976 - 983 1002 - 1004 1010 - 1014 1016 - 1082 1086 - 1086 1092 - 1216

Sequence

`________________________________________________________________________________________________________________________` `6ufp(A) : APAPFADFAPPVRPQSTLRRAITAAYRRPETElPPLVEAATQSKEIRDAAASTARKLIEALRGKgVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNWKSH-rSLF` `:` `6ufp(B) : APAPFADFAPPVRPQSTLRRAITAAYRRPETElPPLVEAATQSKEIRDAAASTARKLIEALRGKgVEGLVQEYSLSSQEGVALMCLAEALLRIPDTATRDALIRDKIADGNWKSHLrSLF` `________________________________________________________________________________________________________________________` `______________158_162___________________________________________________________________________________________________` `6ufp(A) : VNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEGPG` `:` `6ufp(B) : VNAATWGLVVTGKLTSTVNDRSLAAALTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEGPG` `______________158_162___________________________________________________________________________________________________` `_____________________________________________________________________________________________________________373________` `6ufp(A) : ISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIKRA` `:` `6ufp(B) : ISIKLSALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIKRA` `_____________________________________________________________________________________________________________373________` `________________________________________________________________________________________________________________________` `6ufp(A) : QLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMlDRPrIYAPVGTHETLLAYLVRRLLENGANSSFVHRINDPKVSIDELIA` `:` `6ufp(B) : QLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGM-dRPrIYAPVGTHETLLAYLVRRLLENGANSSFVHRINDPKVSIDELIA` `________________________________________________________________________________________________________________________` `_______________533____________548__________________569_____577____________592______601__________________________________` `6ufp(A) : DPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAVRLAADAAPDWAAVPPSER` `:` `6ufp(B) : DPVEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALRESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAVRLAADAAPDWAAVPPSER` `_______________533____________548__________________569_____577____________592______601__________________________________` `_____________651____658__663_______673__________________________________________________________________________________` `6ufp(A) : AACLDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAEETPLIAAEGVRILREAGIPASA` `:` `6ufp(B) : AA-lDRAAELMQARMPTLLGLIIREAGKSALNAIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQIAAALVAGNPVLAKPAEETPLIAAEGVRILREAGIPASA` `_____________651____658__663_______673__________________________________________________________________________________` `___________________________________________________809_______819______________836____________851_855__860_864__869______` `6ufp(A) : LQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADRILTMLKGALHELHIGR` `:` `6ufp(B) : LQLLPGDGRVGAALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAMIVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADRILTMLKGALHELHIGR` `___________________________________________________809_______819______________836____________851_855__860_864__869______` `_________887_____________________911______920___926_____934_________946_950______________________975_____983____________` `6ufp(A) : TDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFGLHTRLDETIAHVTSRIKAGNLY` `:` `6ufp(B) : TDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASETGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATGYGLTFGLHTRLDETIAHVTSRIKAGNLY` `_________887_____________________911______920___926_____934_________946_950______________________975_____983____________` `__1001____1009_1014________________________________________________________________1082_____1091________________________` `6ufp(A) : INRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNLYTLHARGRILLVPATESGLYHQ` `:` `6ufp(B) : INRNIIGAVVGVQPFGGRGLSGTGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAEAARNAGSSSALGLDLELPGPVGERNLYTLHARGRILLVPATESGLYHQ` `__1001____1009_1014________________________________________________________________1082_____1091________________________` `_________________________________________________________________________________________________1216_______________` `6ufp(A) : LAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSASINTAAAGGNASLMA` `:` `6ufp(B) : LAAALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVEGDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSASINTAAAGGNASLMA` `_________________________________________________________________________________________________1216_______________`

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)	2.7
Translation (A)	0.0
Closure (%)	72.9
Bending Residues ( green )	158 - 159 162 - 163 373 - 374 376 - 377 533 - 534 536 - 539 548 - 549 569 - 574 577 - 578 592 - 593 601 - 602 651 - 652 658 - 659 663 - 664 673 - 674 809 - 817 819 - 821 836 - 837 839 - 840 851 - 852 855 - 857 860 - 861 864 - 865 869 - 870 887 - 888 911 - 912 920 - 923 926 - 927 934 - 941 946 - 947 950 - 951 975 - 976 983 - 984 1001 - 1002 1004 - 1005 1009 - 1010 1014 - 1016 1082 - 1083 1085 - 1087 1091 - 1092 1216 - 1217
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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