Excinuclease Abc, A Subunit

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

Domains

Domain Size Backbone RMSD
(A)
Residues
1 604 4.03   4 - 129   248 - 688   839 - 932
2 69 2.24   130 - 246
3 148 2.37   691 - 838

Sequence


           ________________________________________________________________________________________________________________________ 
 3uwx(A) : MDKIIVKGARAHNLKNIDVEIPRGKLVVLTGLSGSGKSSLAFDTIYAEGQRRYVESLSAYARQFLGQMEKPDVDAIEGLSPAISIDQKTTSRNPRSTVGTVTEIYDYLRLLFARIGRPIC 
         :                                                                                                                          
 3pih(A) : *NEIVVKGARVHNLKNITVRIPKNRLVVITGVSGSGKSSLAMDTIYAEGQRRYLESLSTY--------kKPDVDEIEGLSPAIAIDQKT-sHNPRSTVGTVTEIYDYLRVLYARIGKAHC 
           ________________________________________________________________________________________________________________________ 

           ______129_______________________________________________________________________________________________________________ 
 3uwx(A) : PTHGIEIQSQTIEQMVDRLL-SYPERTKMQILAPIVSGKKGTHAKTLEDIRKQGYVRVRIDREMRELTGDIELEKNKKHSIDVVVDRIIIKDGIAARLADSLETALKLADGKVVVDVIGE 
         :                                                                                                                          
 3pih(A) : PECGRPLEKKSIDEILQDLFNSFKEGSRIYILAPlV------------------------------------------------VDRLILETRNEHRILDSLELAMREGKGFVEIRNVDT 
           ______129_______________________________________________________________________________________________________________ 

           _____246________________________________________________________________________________________________________________ 
 3uwx(A) : GEL-LFSEKHACPYCGFSIGELEPRLFSFNSPFGACPDCDGLGAKLEVDLDLVIPNDELTLKEHAIAP--WEPyYPQLLEAVCRHYGIPMDVPVKDLPKEQLDKILYGSGGEPIYFRYTN 
         :                                                                                                                          
 3pih(A) : GESKIFSENLMCPVCGIGFPEITPKLFSFNSPYGACPNCHGLGFTFEVDPSLV-----------aIIPYRWDRRLSRWVAREIEKRGVSPpEDVKEF-------ILYGD----------- 
           _____248________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 3uwx(A) : DFGQVREQYIAFEGVIPNVERRYRETSSDYIREQMEK-YMAEQPCPTCQGYRLKKESLAVLVGGKHIGEVTAMSVTEALAFFDGLELTEKEAQIARLILREIRDRLGFLQNVGLDYLTLS 
         :                                                                                                                          
 3pih(A) : -----------fEGVVPKVQRWHRETe---MKEWLEKNFIVQRTCSVCGGRRLNREALSVKINGLNIHEFTELSISEELEFLKNLNLTEREREIVGELLKEIEKRLEFLVDVGLEYLTLS 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 3uwx(A) : RSAGTLSGGEAQRIRLATQIGSRLTGVLYVLDEPSIGLHQRDNDRLIATLKSMRDLGNTLIVVEHDEDTMLAADYLIDIGPGAGIHGGEVVAAGTPEEVMNDPNS-LTGQYLSGKKFIPI 
         :                                                                                                                          
 3pih(A) : RSATTLSGGESQRIRLATQIGSGLTGVIYVLDEPTIGLHPRDTERLIKTLKKLRDLGNTVIVVEHDEEVIRNADHIIDIGPGGGTNGGRVVFQGTVDELLKNPDSSLTGEYLSGKRKITV 
           ________________________________________________________________________________________________________________________ 

           _______________________________________________________________________________________688______________________________ 
 3uwx(A) : PAERRRPDGRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEVLYKALAQKLHRAKAKPGEHRDIRGLEHLDKVIDIDQSPIGRTPRSNPATYTGVFDDIRDVFASTNEAK 
         :                                                                                                                          
 3pih(A) : NKTRRLPYAS-LKIKGVRHNNLKNIDVEIPLGVFVCVTGVSGSGKSSLVMETLYPALMNLLHKTKLPAGEFDSIEGHENIDKMIAIDQSPIGRTPRSNPATYTKVFDEIRSLFAMTPAAK 
           _______________________________________________________________________________________668______________________________ 

           ____________________________________________________________________________________________________________________837_ 
 3uwx(A) : VRGYKKGRFSFNVKGGRCEACHGDGIIKIEMHFLPDVYVPCEVCHGKRYNRETLEVTYKGKNIAEVLDMTVEDALDFFASIPKIKRKLETLYDVGLGYMKLGQPATTLSGGEAQRVKLAA 
         :                                                                                                                          
 3pih(A) : ARGYNKSRFSFNLKGGRCEACQGQGYVKIEMLFLPDVYVECDVCKGKRYNRETLEITYKGKNISDILDMTVDEALEFFKNIPSIKRTLQVLHDVGLGYVKLGQPATTLSGGEAQRIKLAS 
           ____________________________________________________________________________________________________________________817_ 

           _______________________________________________________________________________________________________________          
 3uwx(A) : ELHRRSNGRTLYILDEPTTGLHVDDIARLLDVLHRLVDNGDTVLVIEHNLDVIKTADYIIDLGPEGGDRGGQIVAVGTPEEVAEVKESHTGRYLKPILERDRARMQARYEA          
         :                                                                                                                          
 3pih(A) : ELRKRDTGRTLYILDEPTVGLHFEDVRKLVEVLHRLVDRGNTVIVIEHNLDVIKNADHIIDLGPEGGKEGGYIVATGTPEEIAKNPHSYTGRFLKNVL*************          
           _______________________________________________________________________________________________________________          

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
43.4
Translation
(A)
-1.2
Closure
(%)
61.4
Bending Residues
( green )
  129 - 130
  246 - 248
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
28.9
Translation
(A)
3.5
Closure
(%)
96.0
Bending Residues
( green )
  688 - 695
  837 - 839
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

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

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

Movement classification: Hinge

PyMOL Script

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