2xhb_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF DNA POLYMERASE FROM THERMOCOCCUS GORGONARIUS IN COMPLEX WITH HYPOXANTHINE-CONTAINING DNA (DNA POLYMERASE)
reference	Connolly et al. Biochemistry 49 5772 2010
source	THERMOCOCCUS GORGONARIUS
experiment	X-ray (resolution=2.72, R-factor=0.237)
structural superfamily	DNA/RNA polymerases;Ribonuclease H-like;
sequence family	DNA polymerase family B; DNA polymerase family B, exonuclease do;
redundant complexes	2vwj_A 7b0f_A 7b0g_A 7b0h_E
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 2xhb_A interface=241,256,260,596, mildtdyitedgkpvirifkkengefkidydrnfepyiyallkddsaiedvkkitaerhgttvrvvraekvkkkflgrpievwklyfthpqdvpairdkikehpavvdiyeydipfakrylidkglipmegdeelkmlafdietlefaegpilmisyadeegarvitwknidlpyvdvvstekemikrflkvvkekdpdvlityngdnfafaylkkrseklgvkfilgregsepkiqrmgDrfavevkgrihfdlYpviRrtinlptytleavyeaifgqpkekvyaeeiaqawetgeglervarysmedakvtyelgkeffpmeaqlsrlvgqslwdvsrsstgnlvewfllrkayernelapnkpdaggyvkeperglwenivyldfrslypsiiithnvspdtlnregceeydvapqvghkfckdfpgfipsllgdlleerqkvkkkmkatidpiekklldyrqraikilansfygyygyakarwyckecaesvtawgrqyiettireieekfgfkvlyadtdgffatipgadaetvkkkakefldyinaklpglleleyegfykrgffvtkkkyavideedkittrgleivRrdwseiaketqarvleailkhgdveeavrivkevteklskyevppeklviyeqitrdlkdykatgphvavakrlaargikirpgtvisyivlkgsgrigdraipfdefdpakhkydaeyyienqvlpaverilrafgyrkedlry
interface signature	DYRR

Estimated binding specificities ?

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# IC=8.912 IC/col=0.469 n_of_columns=19

specificity:

A |   0   0  96   9  24  24  24  24  24  24  24  24  24  24   7   9   7   0   0
C |   0   0   0   7  24  24  24  24  24  24  24  24  24  24   7   7  73   0  96
G |  96  96   0  73  24  24  24  24  24  24  24  24  24  24  73   7   7   0   0
T |   0   0   0   7  24  24  24  24  24  24  24  24  24  24   9  73   9  96   0

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Dendrogram of similar interfaces ?

matrix format

  
  PIPIVIIIPGFIKGRINTNTFCQGMGDARAYT--RG--WGDG--------WG----------------------------RGDA--   L                 +--------------2xhb_A    
                                                                                                    +--------2 
  ------IT------------------------------------QGQAVT--FTIGNGSGYGFT--VAKTLT--------------   L        !        ! +------------3iay_A    
                                                                                               +----3        +-1 
  --------------------------------DG--FA----FG----------------------WC----------KT------       !    !          +------------2dtu_A    
                                                                                             --4    ! 
  --------------------------RT----------------RC--------LC--SCYG--FAYA------------------   L   !    +-----------------------8g9l_A    
                                                                                               ! 
  ------------------------------------------------------------------------RTPTST------KT       +----------------------------7uin_D

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updated Tue Dec 17 23:09:51 2024