6fbc_A : 3D-footprint complex

structure name	KLENTAQ DNA POLYMERASE PROCESSING A MODIFIED PRIMER - BEARING THE MODIFICATION AT THE 3'-TERMINUS OF THE PRIMER. (DNA polymerase I, thermostable)
reference	Diederichs et al. 'Proc. 115 9992 2018
source	Thermus aquaticus
experiment	X-ray (resolution=1.54, R-factor=0.187)
structural superfamily	DNA/RNA polymerases;Ribonuclease H-like;
sequence family	DNA polymerase family A; Taq polymerase, exonuclease;
redundant complexes	1qss_A 1qsy_A 1qtm_A 2ktq_A 3ktq_A 3lwl_A 3lwm_A 3m8r_A 3m8s_A 3ojs_A 3oju_A 3po4_A 3po5_A 3py8_A 3rr7_A 3rr8_A 3rrg_A 3rrh_A 3rtv_A 3sv3_A 3sv4_A 3syz_A 3sz2_A 3t3f_A 4bwj_A 4bwm_A 4c8k_A 4c8l_A 4c8m_A 4c8n_A 4c8o_A 4cch_A 4df4_A 4df8_A 4dfj_A 4dfk_A 4dfm_A 4dfp_A 4dle_A 4dlg_A 4elt_A 4elu_A 4elv_A 4ktq_A 4n56_A 4n5s_A 4xiu_A 5e41_A 5nkl_A 5o7t_A 5oxj_A 5szt_A 5w6k_A 5w6q_G 5ytc_A 5ytd_A 5yte_A 5ytf_A 5ytg_A 5yth_A 5z3n_A 6fbd_A 6fbe_A 6fbf_A 6fbg_A 6fbh_A 6fbi_A 6q4u_A 6q4v_A 7owf_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6fbc_A interface=248,252,281,288,291,492, aleeapwpppegafvgfvlsrkepmwadllalaaarggrvhrapepykalrdlkeargllakdlsvlalreglglppgddpmllaylldpsnttpegvarryggewteeageraalserlfanlwgrlegeerllwlyreverplsavlahmeatgvrldvaylralslevaeeiarleaevfrlaghpfnlnsrdqlervlfdelglpaigktektgkrstsaavlealreahpivekilqyreltKlksTyidplpdlihprtgrlhtrfnqtatatgRlsssdpNlqNipvrtplgqrirrafiaeegwllvaldysqielrvlahlsgdenlirvfqegrdihtetaswmfgvpreavdplmrraaktinfgvlygmsahrlsqelaipyeeaqafieryfqsfpkvrawiektleegrrrgyvetlfgrrryvpdlearvksvreaaermafnmpvqgtaadlmklamvklfprleemgarmllqvHdelvleapkeraeavarlakevmegvyplavplevevgigedwlsake

No structural evidence for specific binding to DNA (<4 informative columns)

Dendrogram of similar interfaces ?

matrix format

  
  ------------IAAAVAAA--------KC----------------RT--NGNC----TC----YCMCSAHARAQAEA------------NGQG----                                +--6fbc_A    
                                                                                                                            +-------3 
  --------------------------------------------------NANC------FC--YG------RG--------------RGNGQC----   L                    !       +--1tau_A    
                                                                                                                            ! 
  ------------------------------RC--------------RA--NGNGRT----YG--YT--SCYC------------------NTQT----   L                 +--6          +-6vdd_A    
                                                                                                                         !  !        +-1 
  ----------------------------KT------YG--------RG--NGNGRC----YG--YAIGSCYC----NGRC--FG--------QA--HG                     !  !      +-2 +-4yfu_D    
                                                                                                                         !  !      ! ! 
  LCNGKGYGMGEG--------------------------SGHGVC------------------------------------------------------       +-------------7  +------4 +-1kln_A    
                                                                                                           !             !         ! 
  ----------------------------NA----KG----------RC----NT----QC--------------------NG--YGATRT--QG--HC       !             !         +---4x0p_B    
                                                                                                           !             ! 
  ----------------------------KT----------------RG--------EGKGYGACYCAC----RC----------QTATRTNGQG--HC   L --8             !     +-------4xvk_A    
                                                                                                           !             +-----5 
  --------------------------------KA------------------NT--------------------------------------QG--HT   L   !                   +-------6xbu_A    
                                                                                                           ! 
  --------------------ATYTDGKG----------------RCRCYC------------TTYT----------------------------HT--       +---------------------------1msw_D

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updated Fri Sep 13 21:38:43 2024