6qzk_A : 3D-footprint complex

structure name	STRUCTURE OF CLOSTRIDIUM BUTYRICUM ARGONAUTE BOUND TO A GUIDE DNA (5' DEOXYCYTIDINE) AND A 19-MER TARGET DNA (Clostridium butyricum Argonaute)
reference	Van der Oost et al. 'Nucleic 47 5809 2019
source	Clostridium butyricum
experiment	X-ray (resolution=3.55, R-factor=0.250)
structural superfamily	Ribonuclease H-like;
sequence family	Piwi domain;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6qzk_A interface=33,35,36,278,279,298,491,505,506,509,575,613,638,713, annltfeafegigqlnelnfykyrligkgqidNvHQaiwsvkyklqannffkpvfvkgeilysldelkvipefenvevildgniilsisentdiykdvivfyinnalknikditnyrkyitkntdeiicksilttnlkyqymksekgfklqrkfkispvvfrngkvilylncssdfstdksiyemlndglgvvglqvknkwtnangnifiekvldntisdpgtsgklgqslidyyingnqkyrvekftdedknakviqakiknktynyipqaltpviTReylshtdkkfskqienviKmdmnyryqtlksfvedigvikelnnlhfknqyytnfdfmgfesgvleepvlmgangkikdkkqifingffknpkenvkfgvlypegcmenaqsiarsildfatagkynkqenkyisknlmnigfkpsecifesyklgditeykatarklkehekvgfviavipdmlevenpynpfkkvwaklnipsqmitlkTtekfknivdksglYYlhNialnilgkiggipwiikdmpgnidcfiglavgtrekgihfpacsvlfdkygklinyykptipqsgEkiaetilqeifdnvlisykeengeypknivihragfsRenidwykeyfdkkgikfniievkkNipvkiakvvgsnicnpikgsyvlkndkafivttdikdgvaspnplkiektygdvemksileqiyslsqihvgstKslrlpittgyadkickaieyipqgvvdnrlffl
interface signature	NHQTRKTYYNERNK

Estimated binding specificities ?

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# IC=9.335 IC/col=0.622 n_of_columns=15

specificity:

A |   0  96   5   9   0  24  24  24  67  14   9   0  24  24   0
C |   0   0   0   9   0  24  24  24   9  14   9   0  24  24   0
G |  96   0  91  67   0  24  24  24  11  52  69   0  24  24   0
T |   0   0   0  11  96  24  24  24   9  16   9  96  24  24  96

scan!

Dendrogram of similar interfaces ?

matrix format

  
  NA--HTQAYT--KANA------QARA----TGRA--KT----KTQTKTYTIC----NCYC------TG--LTYTYGHTNGEG--RANT--------------------KA------   L                      +--------6qzk_A    
                                                                                                                                   +------------1 
  ----------------LTPTYT----ITPT----LA------------------MT--RT--IT--------HCRG--NG--------SCDGVG--RGFGRG--RGFGAGFG----             !            +--------4n41_B    
                                                                                                                                   ! 
  --PC------WG--------------------KG----YAYARC------------------------SA--YA--------RC--DC--RA--KG--------SA--LAPA----   L   +-----5      +--------------6d92_F    
                                                                                                                             !     !    +-2 
  --------------------------------TT----------------------------------KCFC------------------------------LG--YCTC------   L   !     !  +-3 +--------------5ux0_A    
                                                                                                                             !     !  ! ! 
  --------------------------------------------------------------NT----------------------------------------------------     --6     +--4 +----------------5g5t_A    
                                                                                                                             !        ! 
  ----------------------------------------------------YA--TA--YA--RA------FAYTDTNT--------------------------FTRA------       !        +------------------6t5t_A    
                                                                                                                             ! 
  ----------------------------------------------------------------------------------------------------------------QGKG       +---------------------------2w36_A

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updated Sun Aug 3 13:01:08 2025