Excinuclease Abc, Subunit A.

(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 Excinuclease Abc, Subunit A.
  Conformer 1
(PDB)
2vf7 (A)
  Conformer 2
(PDB)
3pih (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 632 4.66   16 - 130   285 - 839
2 24 10.16   139 - 163
3 26 6.68   259 - 284

Sequence


           ____________________________________________________________________________________________________________________129_ 
 2vf7(A) : PDGGFVQVRGARQHNLKDISVKVPRDALVVFTGVSGSGKSSLAFGTLYAEAQRRYLESVSPYARRLFNQAGVPDVDAIDGLPPAVALQQARGTPTARSSVGSVTTLSNLLRMLYSRAGD- 
         :                                                                                                                          
 3pih(A) : ***NEIVVKGARVHNLKNITVRIPKNRLVVITGVSGSGKSSLAMDTIYAEGQRRYLESLSTYkK--------PDVDEIEGLSPAIAIDQ-KTsHNPRSTVGTVTEIYDYLRVLYARIGKA 
           ____________________________________________________________________________________________________________________117_ 

           ___________________________________________161__________________________________________________________________________ 
 2vf7(A) : YPP--GQGI-------VYAEGFSPNTPEGA-----CPECHGLGRVYTVTEDSMVPDPSLTIRE-------RAVAAWPQAWGGQNQRDILVTLGI--------DVDVPWRELPEETRHWIL 
         :                                                                                                                          
 3pih(A) : HCPECGRPLEKKSIDEILQDLFN-SFKEGSRIYILAPlVVDRLILETRNEHRILDSLELAMREGKGFVEIRNVDTGESKIFSENLMCPVCGIGFPEITPKLFSFNSPYGACPNC--HGLG 
           ___________________________________________211__________________________________________________________________________ 

           _________________________________________________________________________284____________________________________________ 
 2vf7(A) : FTDE-QP-VVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLH-TFANT--------ESASMKKRVQ-GYMISEECPLCHGKRLRQEALNVTFAGLDITELSRLPLARVSELLRPYA 
         :                                                                                                                          
 3pih(A) : FTFEVDPSLVaIIPYRWDRRLSRWVAREIEKRGVSPpEDVKEFILYGDfEGVVPKVQRWHRETeMKEWLEKNFIVQRTCSVCGGRRLNREALSVKINGLNIHEFTELSISEELEFLKNL- 
           _________________________________________________________________________381____________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2vf7(A) : EEREPGHAERVKNRPEQAIALQRMAADLVKRLDVLLHLGLGYLGLDRSTPTLSPGELQRLRLATQLYSNLFGVVYVLDEPSAGLHPADTEALLSALENLKRGGNSLFVVEHDLDVIRRAD 
         :                                                                                                                          
 3pih(A) : -----NLTER-----EREI-VGELLKEIEKRLEFLVDVGLEYLTLSRSATTLSGGESQRIRLATQIGSGLTGVIYVLDEPTIGLHPRDTERLIKTLKKLRDLGNTVIVVEHDEEVIRNAD 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2vf7(A) : WLVDVGPEAGEKGGEILYSGPPEGLKHVPESQ-TGQYLFADRH-TEPHTPREPAGWLELNGVTRNNLDNLDVRFPLGVMTSVTGVSGSGKSTLVSQALVDALAAHFGQgSARLGG-DLAQ 
         :                                                                                                                          
 3pih(A) : HIIDIGPGGGTNGGRVVFQGTVDELLKNPDSSLTGEYLSGKRKITVNKTRRLPYASLKIKGVRHNNLKNIDVEIPLGVFVCVTGVSGSGKSSLVMETLYPALMNLLHKTKLPAGEFDSIE 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2vf7(A) : ----ITRLVRVDQKPIGRTPRSNMATYTGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEHCQGEGWVMVELLFLPSVYAPCPVCHGTRYNAETLEVEYRGKNIADVLALTVDEAH 
         :                                                                                                                          
 3pih(A) : GHENIDKMIAIDQSPIGRTPRSNPATYTKVFDEIRSLFAMTPAAKARGYNKSRFSFNLKGGRCEACQGQGYVKIEMLFLPDVYVECDVCKGKRYNRETLEITYKGKNISDILDMTVDEAL 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2vf7(A) : DFFADESAIFRALDTLREVGLGYLRLGQPATELSGGEAQRIKLATELRRSGRGGTVYVLDEPTTGLHPADVERLQRQLVKLVDAGNTVIAVEHKMQVVAASDWVLDIGPGAGEDGGRLVA 
         :                                                                                                                          
 3pih(A) : EFFKNIPSIKRTLQVLHDVGLGYVKLGQPATTLSGGEAQRIKLASELRKRDTGRTLYILDEPTVGLHFEDVRKLVEVLHRLVDRGNTVIVIEHNLDVIKNADHIIDLGPEGGKEGGYIVA 
           ________________________________________________________________________________________________________________________ 

           ________________________                                                                                                 
 2vf7(A) : QGTPAEVAQAAGSVTAPYLRAALR                                                                                                 
         :                                                                                                                          
 3pih(A) : TGTPEEIAKNPHSYTGRFLKNVL*                                                                                                 
           ________________________                                                                                                 

Morph

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 156.3 2.6 22.7   129 - 139 Bending Region Analysis
1 3 100.4 -4.3 90.3   284 - 285 Bending Region Analysis
2 3 143.6 -14.6 91.2   161 - 259 Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification:

No Contacts

Conformer 1 Contact:
Residue 2 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 2

Movement classification: Hinge

PyMOL Script

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