Preprotein Translocase Seca 1 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 Preprotein Translocase Seca 1 Subunit
  Conformer 1
(PDB)
1nkt (A)
  Conformer 2
(PDB)
1nkt (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 683 0.45   -13 - 227   352 - 670   672 - 672   674 - 746   750 - 764   767 - 785   798 - 827
2 149 0.45   228 - 351   671 - 671   673 - 673   747 - 749   765 - 766   786 - 797   828 - 833

Sequence


           ________________________________________________________________________________________________________________________ 
 1nkt(A) : DSPDLGTLVPRGSMADILSKLLRLGEGRMVKRLKKVADYVGTLSDDVEKLTDAELRAKTDEFKRRLADQKNPETLDDLLPEAFAVAREAAWRVLDQRPFDVQVMGAAALHLGNVAEMKTG 
         :                                                                                                                          
 1nkt(B) : DSPDLGTLVPRGSMADILSKLLRLGEGRMVKRLKKVADYVGTLSDDVEKLTDAELRAKTDEFKRRLADQKNPETLDDLLPEAFAVAREAAWRVLDQRPFDVQVMGAAALHLGNVAEMKTG 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1nkt(A) : EGKTLTCVLPAYLNALAGNGVHIVTVNDYLAKRDSEWMGRVHRFLGLQVGVILATMTPDERRVAYNADITYGTNNEFGFDYLRDNMAHSLDDLVQRGHHYAIVDEVDSILIDEARTPLII 
         :                                                                                                                          
 1nkt(B) : EGKTLTCVLPAYLNALAGNGVHIVTVNDYLAKRDSEWMGRVHRFLGLQVGVILATMTPDERRVAYNADITYGTNNEFGFDYLRDNMAHSLDDLVQRGHHYAIVDEVDSILIDEARTPLII 
           ________________________________________________________________________________________________________________________ 

           227_____________________________________________________________________________________________________________________ 
 1nkt(A) : SGPADGASNWYTEFARLAPLMEKDVHYEVDLRKRTVGVHEKGVEFVEDQLGIDNLYEAANSPLVSYLNNALKAKELFSRDKDYIVRDGEVLIVDEFTGRVLIGRRYNEGMHQAIEAKEHV 
         :                                                                                                                          
 1nkt(B) : SGPADGASNWYTEFARLAPLMEKDVHYEVDLRKRTVGVHEKGVEFVEDQLGIDNLYEAANSPLVSYLNNALKAKELFSRDKDYIVRDGEVLIVDEFTGRVLIGRRYNEGMHQAIEAKEHV 
           227_____________________________________________________________________________________________________________________ 

           ____351_________________________________________________________________________________________________________________ 
 1nkt(A) : EIKAENQTLATITLQNYFRLYDKLAGMTGTAQTEAAELHEIYKLGVVSIPTNMPMIREDQSDLIYKTEEAKYIAVVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKY 
         :                                                                                                                          
 1nkt(B) : EIKAENQTLATITLQNYFRLYDKLAGMTGTAQTEAAELHEIYKLGVVSIPTNMPMIREDQSDLIYKTEEAKYIAVVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKY 
           ____351_________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1nkt(A) : HEQEATIIAVAGRRGGVTVATNMAGRGTDIVLGGNVDFLTDQRLRERGLDPVETPEEYEAAWHSELPIVKEEASKEAKEVIEAGGLYVLGTERHESRRIDNQLRGRSGRQGDPGESRFYL 
         :                                                                                                                          
 1nkt(B) : HEQEATIIAVAGRRGGVTVATNMAGRGTDIVLGGNVDFLTDQRLRERGLDPVETPEEYEAAWHSELPIVKEEASKEAKEVIEAGGLYVLGTERHESRRIDNQLRGRSGRQGDPGESRFYL 
           ________________________________________________________________________________________________________________________ 

           ___________________________________________________________________________________670__________________________________ 
 1nkt(A) : SLGDELMRRFNGAALETLLTRLNLPDDVPIEAKMVTRAIKSAQTQVEQQNFEVRKNVLKYDEVMNQQRKVIYAERRRILEGENLKDQALDMVRDVITAYVDGATGEGYAEDWDLDALWTA 
         :                                                                                                                          
 1nkt(B) : SLGDELMRRFNGAALETLLTRLNLPDDVPIEAKMVTRAIKSAQTQVEQQNFEVRKNVLKYDEVMNQQRKVIYAERRRILEGENLKDQALDMVRDVITAYVDGATGEGYAEDWDLDALWTA 
           ___________________________________________________________________________________670__________________________________ 

           ________________________746_______________764__________________785_________797___________________________827________     
 1nkt(A) : LKTLYPVGITADSLTlLEALLKDAERAYAAREAELEEIAGEGAMRQLERNVLLNVIDRKWREHLYEMDYLKEGIGLRAMAQRDPLVEYQREGYDMFMAMLDGMKEESVGFLFNVTV     
         :                                                                                                                          
 1nkt(B) : LKTLYPVGITADSLTlLEALLKDAERAYAAREAELEEIAGEGAMRQLERNVLLNVIDRKWREHLYEMDYLKEGIGLRAMAQRDPLVEYQREGYDMFMAMLDGMKEESVGFLFNVTV     
           ________________________746_______________764__________________785_________797___________________________827________     

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
4.2
Translation
(A)
0.0
Closure
(%)
95.7
Bending Residues
( green )
  227 - 229
  351 - 352
  670 - 674
  746 - 747
  749 - 750
  764 - 767
  785 - 786
  797 - 800
  827 - 828
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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