Ba3-Type Cytochrome-C Oxidase

(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 Ba3-Type Cytochrome-C Oxidase
  Conformer 1
(PDB)
1ehk (A)
  Conformer 2
(PDB)
2ify (A)
  Window Length 7
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 27 7.61   316 - 342
2 26 5.73   343 - 368

Sequence


           ________________________________________________________________________________________________________________________ 
 1ehk(A) : AYPEKKATLYFLVLGFLALIVGSLFGPFQALNYGNVDAYPLLKRLLPFVQSYYQGLTLHGVLNAIVFTQLFAQAIMVYLPARELNMRPNMGLMWLSWWMAFIGLVVAALPLLANEATVLY 
         :                                                                                                                          
 2ify(A) : ************************************************************************************************************************ 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ehk(A) : TFYPPLKGHWAFYLGASVFVLSTWVSIYIVLDLWRRWKAANPGKVTPLVTYMAVVFWLMWFLASLGLVLEAVLFLLPWSFGLVEGVDPLVARTLFWWTGHPIVYFWLLPAYAIIYTILPK 
         :                                                                                                                          
 2ify(A) : ************************************************************************************************************************ 
           ________________________________________________________________________________________________________________________ 

           ______________________________________________________________________________________341_______________________________ 
 1ehk(A) : QAGGKLVSDPMARLAFLLFLLLSTPVGFHHQFADPGIDPTW-KMIHSVLTLFVAVPSLMTAFTVAASLEFAGRLRGGRGLFGWIRALPWDNPAFVAPVLGLLGFIPGGAGGIVNASFTLD 
         :                                                                                                                          
 2ify(A) : ******RKPTALIILDGFGLREETYGNAVAQAKKPNFDGYWNKFPHTTLTACGEAVGLPEGQMGNSEVGHLNIGAGRIVYQSLTRVNVAIREGEFDKNETFQSAIKSVKEKGTALHLFGL 
           _______________________________________________________________________________________84_______________________________ 

           ________________________________________________________________________________________________________________________ 
 1ehk(A) : YVVHNTAWVPGHFHLQVASLVTLTAMGSLYWLLPNLTGKPISDAQRRLGLAVVWLWFLGMMIMAVGLHWAGLLNVPRRAYIAQVPDAYPHAAVPMVFNVLAGIVLLVALLLFIYGLFSVL 
         :                                                                                                                          
 2ify(A) : LSDGGVHSHMNHMFALLRLAAKEGVEKVYIHAFLDGRDVGPKTAQSYIDATNEVIKETGVGQFATISGRYYSMDRDKRWDRVEKCYRAMVNGEGPTYKSAEECVEDSYANGIYDEFVLPS 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ehk(A) : LSRlAEAPLPFAEVISGPEDRRLVLAMDRIGFWFAVAAILVVLAYGPTLVQLFGHLNPVPGWRLW******************************************************* 
         :                                                                                                                          
 2ify(A) : VIVNEDNTPVATINDDDAVIFYNFRPDRAIQIARVFTNGDFREFDRGEKVPHIPEFVCMTHFSETVDGYVAFKPMNLDNTLGEVVAQAGLKQLRIAETEKYPHVTFFFSGGREAEFPGEE 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ehk(A) : ************************************************************************************************************************ 
         :                                                                                                                          
 2ify(A) : RILINSPKVATYDLKPEMSIYEVTDALVNEIENDKHDVIILNFANCDMVGHSGMMEPTIKAVEATDECLGKVVEAILAKDGVALITADHGNADEELTSEGEPMTAHTTNPVPFIVTKNDV 
           ________________________________________________________________________________________________________________________ 

           __________________________________                                                                                       
 1ehk(A) : **********************************                                                                                       
         :                                                                                                                          
 2ify(A) : ELREDGILGDIAPTMLTLLGVEQPKEMTGKTIIK                                                                                       
           __________________________________                                                                                       

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)
153.4
Translation
(A)
-17.6
Closure
(%)
37.4
Bending Residues
( green )
  341 - 343
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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