5kfz_A : 3D-footprint complex

structure name	HUMAN DNA POLYMERASE ETA-DNA TERNARY COMPLEX: REACTION FIRST WITH 1 MM MN2+ FOR 1800S THEN WITH 5 MM MN2+ FOR 60S AT 14 DEGREE (DNA polymerase eta)
reference	Yang et al. Science 352 1334 2016
source	Homo sapiens
experiment	X-ray (resolution=1.44, R-factor=0.187)
structural superfamily	DNA/RNA polymerases;Lesion bypass DNA polymerase Y-family, little finger domain;
sequence family	impB/mucB/samB family;
redundant complexes	6mxo 6mq8 4ed3 5kfp 4o3r 5kfv 5dg7 4j9r 6m7v 4j9m 4q8e 4ecz 3si8 4j9k 5kfk 5kfc 5l1i 5kfe 5kfy 6m7o 5kfs 6pl8 5kg7 5f9l 4ecv 6q02 6d0z 4ecy 4dl3 5kfg 5kg4 6m7u 5ewf 5kg2 4ecs 4yqw 5kg6 4ect 5kfx 4ed2 4q8f 6pz3 6ui2 5dqg 4yr2 4dl2 5dqi 3tq1 4o3o 4yr3 4ecq 6plc 5kfq 5kfo 4ed8 6m7p 4j9n 4ecx 5kfr 6d0m 5l1j 4o3n 5kg1 5dqh 4eey 5kfb 4j9o 5kg0 4ed6 3mr5 5l1l 5kfu 5kfn 5l9x 5kfa 4ecr 4yr0 4rnn 5dgb 5kft 5kff 4ed7 5dlf 5kfj 4dl5 4ecw 4dl7 3mr2 5kfh 4dl4 5ewg 5kg3 6uqi 5dga 5ewe 4j9l 5dlg 4rnm 5kfw 4dl6 4rno 3jaa 4o3p 4j9p 5l1k 6mp3 6m7t 5kg5 5kfi 4j9q 5f9n 4j9s 5jum 4ed0 5dg9 4ecu 5kfd 4ed1 5kfl 3mr3 5dg8 3mr6 6pl7 4o3q 5kfm 4yp3 4ru9 4o3s
reference complex	3jaa_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5kfz_A interface=320,376, gphmatgqdrvvalvdmdcffvqveqrqnphlrnkpcavvqykswkgggiiavsyearafgvtrsmwaddakklcpdlllaqvresrgkanltkyreasvevmeimsrfavierasideayvdltsavqerlqklqgqpisadllpstyieglpqgptvqkegmrkqglfqwldslqidnltspdlqltvgaviveemraaieretgfqcsagishnkvlaklacglnkpnrqtlvshgsvpqlfsqmpirkirslggklgasvieilgieymgeltqftesqlqshfgekngswlyamcrgiehdpvkprqlpktigcSknfpgktalatreqvqwwllqlaqeleerltkdrndndrvatqlvvsirvqgdkrLsslrrccaltrydahkmshdaftvikncntsgiqtewsppltmlflcatkfsas

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

Dendrogram of similar interfaces ?

matrix format

  
  QTWA------ITRTST------------ST--PATA------LT------------                            +-----5kfz_A    
                                                                                +-----8 
  --------------------------MANG--------YA----RC--ST------                      !     +-----3mfi_A    
                                                                                ! 
  --------VASA--AAPT--MT------EG------RT----FT------RT----                      !            +5yuy_A    
                                                                 +--------------9          +-2 
  --------VGTG------------------------RT------------RT--RT       !              !        +-4 +6jum_A    
                                                                 !              !        ! ! 
  --------EG------FG--------------------------------------       !              !      +-6 +-3gqc_A    
                                                                 !              !      ! ! 
  HT----ST--------WG--------------------------------------       !              +------7 +--6x6z_A    
                                                                 !                     ! 
  --------AC--AG----------ST----YG----RG--LC----------RCKT     -11                     !  +-4f4z_A    
                                                                 !                     +--5 
  ----MA--MT----ATPCFAIC----STEG----------------TC------RT       !                        +-6cst_A    
                                                                 !  
  ----------------------RT--------------------------------       !                         +3n4m_B    
                                                                 !         +---------------3 
  ----------------------RA--------------------------------       !         !               +6b6h_I    
                                                                 +--------10  
  ----------------------RG--------------------------------                 !                +5tw1_T    
                                                                           +----------------1 
  ----------------------RA--------------------------------                                  +6pst_M

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updated Mon Dec 18 13:11:43 2023