6d92_F : 3D-footprint complex

structure name	TERNARY RSAGO COMPLEX WITH GUIDE RNA AND TARGET DNA CONTAINING A-A NON-CANONICAL PAIR AT POSITION 3 (Uncharacterized protein)
reference	Olovnikov et al. 'Cell 24 453 2018
source	Rhodobacter sphaeroides (strain ATCC 17025 / ATH 2.4.3) / Rhodobacter sphaeroides (strain ATCC 17025 / ATH 2.4.3)
experiment	X-ray (resolution=1.81, R-factor=0.200)
structural superfamily	Ribonuclease H-like;
sequence family	Piwi domain 478;
redundant complexes	5awh_B 6d8a_A 6d8f_A 6d8p_B 6d95_A 6d9k_F 6d9l_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6d92_F interface=26,44,226,310,322,324,325,472,475,522,587,621,651,668,670,671,673,708,715,716, rqlvsngfevnlpdqvevivrdlpdPskvkeertrlmgywfvhWfdgklfhlrikaggpnvdgehrairtaehpwllrarlddaleealpkyaavkkrpftflaqkdelidaaataaglshrllnsfkviprfalspkiyepvdgttrvgvfvtigmrydieaslrdlleagidlrgmyvvrrkrqpgergllgrvraisddmvqlfeetdlasvnvndaklegsKenftrclsallghnykkllnalddqeagyrtgprfddavrrmgeflakkpirladninaqvgdrivfsnegqarnvrlapkveYvfdrtgaksaeYaWRglsqfgpfdrpsfanrsprilvvypsstqgkvenflsafrdgmgsnysgfskgfvdlmgltkvefvmcpvevssadrngahtkynsaiedklagagevhagivvlfedharlpddrnpyihtksllltlgvptqqvrmptvllepkSlqYtlqnfsiatyaklngtpwtvnhdkaindelvvgmglaelsgsrtekRqrfvgittvfagdgsyllgnvskeceyegysdairesmtgilrelkkrnnwrpgdtvrvvfhahRplkrvdvasivfectreigsdqniqmafvtvshDhpfvlidrsergleaykgstarkgvfappRgaisrvgrltrllavnSpQLiKrantplptpllvslhpdstfkdvdylaeqalkftSlswrstLPaatpvtifyseriaellgrlksipnwssanlniklkwsrwfl
interface signature	PWKYYWRSYRRDRSQLKSLP

Estimated binding specificities ?

contact

# IC=12.108 IC/col=0.673 n_of_columns=18

specificity:

A |   3   3  24  24  85   3   3   5  24  24   3   3  24   3  24  96  96   0
C |  87   5  24  24   3  85  85   3  24  24   3  85  24   3  24   0   0  96
G |   3  85  24  24   5   3   3   3  24  24  87   3  24  85  24   0   0   0
T |   3   3  24  24   3   5   5  85  24  24   3   5  24   5  24   0   0   0

scan!

Dendrogram of similar interfaces ?

matrix format

  
  PC--WG------KG--YAYAWCRC----------------------SA--YA------RT--RC----DCRASAQALAKG----SA--LAPA----   L                  +------------6d92_F    
                                                                                                                 +------2 
  --HT------TGRAKT------KTQT--ICNC--YC------------LTYTYGHTNG--EG----RANT------------------KA------   L           !      !   +--------6qzk_A    
                                                                                                                 !      +---1 
  ------ITPT----------------PTMT----RT--IT--NT------HCRG--NG------RT--SCDG--------FGRGRGFGAGFG----            +--4          +--------4n41_B    
                                                                                                              !  ! 
  ------------TT--------------------------------KCFC------------------------------------YCTC------   L        !  !   +---------------5ux0_A    
                                                                                                         +----5  +---3 
  --------------------------------------NT--------------------------------------------------------       !    !      +---------------5g5t_A    
                                                                                                       --6    ! 
  --------------------IT----------TA--YA--IT--RT----FAYTDTNT----------------------------FTRA------       !    +----------------------6t5t_A    
                                                                                                         ! 
  --------------------------------------------------------------QI----------------------------QGKG       +---------------------------2w36_A

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updated Sun Aug 3 11:08:03 2025