3ojs_A : 3D-footprint complex

structure name	SNAPSHOTS OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS PROCESSING C5 MODIFIED THYMIDINES (DNA polymerase I, thermostable)
reference	Diederichs et al. Proc.Natl.Acad.Sci.USA 107 21327 2010
source	Thermus aquaticus
experiment	X-ray (resolution=1.90, R-factor=0.166)
structural superfamily	DNA/RNA polymerases;Ribonuclease H-like;
sequence family	DNA polymerase family A; Taq polymerase, exonuclease;
redundant complexes	3m8s 4ktq 3lwm 3ktq 1qsy 3m8r 1qss 1tau 3lwl 1qtm 2ktq 3oju
reference complex	6fbc_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3ojs_A interface=247,251,280,287,290,461,491, leeapwpppegafvgfvlsrkepmwadllalaaarggrvhrapepykalrdlkeargllakdlsvlalreglglppgddpmllaylldpsnttpegvarryggewteeageraalserlfanlwgrlegeerllwlyreverplsavlahmeatgvrldvaylralslevaeeiarleaevfrlaghpfnlnsrdqlervlfdelglpaigktektgkrstsaavlealreahpivekilqyreltKlksTyidplpdlihprtgrlhtrfnqtatatgRlsssdpNlqNipvrtplgqrirrafiaeegwllvaldysqielrvlahlsgdenlirvfqegrdihtetaswmfgvpreavdplmrraaktinfgvlygmsahrlsqelaipyeeaqafieryfqsfpkvrawiektleegrrrgyvetlfgrrryvpdlearvksvreaaermafnmpvQgtaadlmklamvklfprleemgarmllqvHdelvleapkeraeavarlakevmegvyplavplevevgigedwlsake
interface signature	KTRNNQH

Estimated binding specificities ?

contact

# IC=2.762 IC/col=0.690 n_of_columns=4

specificity:

A |   9   0   9   9
C |   2  96   9  57
G |  76   0  69   9
T |   9   0   9  21

scan!

Dendrogram of similar interfaces ?

matrix format

  
  ------------IASAAAVAAA--------KC--------RGNGNG--TAFA--YAMASAHARA--QAEA--EARANGQG--HG   L                        +--3ojs_A    
                                                                                                            +-----2 
  ----------------DT--KT--------KC--------RG--NTRGAAFA--YCIA------LAQTNANT------QC----                      !     ! +-2hhv_A    
                                                                                             +--------------3     +-1 
  LCNGKGYGMGEG----------------------SGHGVC--------------------------------------------       !              !       +-1kln_A    
                                                                                           --4              ! 
  --------------------------------KT------RTNG----------YA----------------------QA----       !              +--------1x9m_A    
                                                                                             ! 
  ----------------------ATYTDGKG----------------------TTYT------------------------HT--       +-----------------------1msw_D

home
updated Sat Aug 2 04:36:36 2025