1qtm_A : 3D-footprint complex

structure name	DDTTP-TRAPPED CLOSED TERNARY COMPLEX OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS (DNA POLYMERASE I)
reference	Mitaxov et al. Proc.Natl.Acad.Sci.USA 96 9491 1999
source	Thermus aquaticus
experiment	X-ray (resolution=2.30, R-factor=0.227)
structural superfamily	DNA/RNA polymerases;Ribonuclease H-like;
sequence family	DNA polymerase family A; Taq polymerase, exonuclease;
redundant complexes	4ktq 3ktq 1qsy 2ktq 1qss 1tau
reference complex	6fbc_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1qtm_A interface=248,252,253,281,288,291,323,372,375,379,381,385,458,462,492, aleeapwpppegafvgfvlsrkepmwadllalaaarggrvhrapepykalrdlkeargllakdlsvlalreglglppgddpmllaylldpsnttpegvarryggewteeageraalserlfanlwgrlegeerllwlyreverplsavlahmeatgvrldvaylralslevaeeiarleaevfrlaghpfnlnsrdqlervlfdelglpaigktektgkrstsaavlealreahpivekilqyreltKlksTYidplpdlihprtgrlhtrfnqtatatgRlsssdpNlqNipvrtplgqrirrafiaeegwllvaldysqiElrvlahlsgdenlirvfqegrdihtetaswmfgvpreavdplmrraakTinFgvlYgMsahRlsqelaipyeeaqafieryfqsfpkvrawiektleegrrrgyvetlfgrrryvpdlearvksvreaaermafNmpvQgtaadlmklamvklfprleemgarmllqvHdelvleapkeraeavarlakevmegvyplavplevevgigedwlsak
interface signature	KTYRNNETFYMRNQH

Estimated binding specificities ?

readout + contact

# IC=0.725 IC/col=0.181 n_of_columns=4

specificity:

A |  20  19  11  14
C |  19  38   9  52
G |  38  19  67  14
T |  19  20   9  16

scan!

Dendrogram of similar interfaces ?

matrix format

  
  ------------------------KG--YG--------RGNGNG--TAFA--YAMASARA--------EARAQA--HG   L                        +--1qtm_A    
                                                                                                      +-----2 
  ------------DTKT--------KC------------RG--NTRGAAFA--YCIA----LAQTNANT----QC----   L                  !     ! +-2hhv_A    
                                                                                       +--------------3     +-1 
  LCNGKGYGMGEG------------------SGHGVC------------------------------------------       !              !       +-1kln_A    
                                                                                     --4              ! 
  --------------------------KT----------RTNG----------YA------------------QA----   L   !              +--------1x9m_A    
                                                                                       ! 
  ----------------ATYTDGKG------------RC------------TTYT--------------------HT--   L   +-----------------------1msw_D

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updated Mon Dec 18 05:55:16 2023