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structure nameMUTM SET 1 GPG
(Formamidopyrimidine-DNA glycosylase)
referenceVerdine et al. J.Biol.Chem. 287 18044 2012
sourceGeobacillus stearothermophilus
experimentX-ray (resolution=1.60, R-factor=0.193)
structural superfamilyN-terminal domain of MutM-like DNA repair proteins;S13-like H2TH domain;Glucocorticoid receptor-like DNA-binding domain;
sequence familyFormamidopyrimidineDNA glycosylase N; FormamidopyrimidineDNA glycosylase H2; Zinc finger found in FPG and IleRS;
redundant complexes1l1t_A 1l1z_A 1l2c_A 1l2d_A 1r2y_A 1r2z_A 2f5n_A 2f5o_A 2f5p_A 2f5q_A 2f5s_A 3gp1_A 3gpp_A 3gpy_A 3gq4_A 3gq5_A 3jr4_A 3jr5_A 3sar_A 3sas_A 3sat_A 3sau_A 3sav_A 3saw_A 3sbj_A 3u6c_A 3u6d_A 3u6e_A 3u6l_A 3u6m_A 3u6o_A 3u6q_A 3u6s_A 4g4n_A 4g4o_A 4g4q_A 4g4r_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRMRFR

Estimated binding specificities ?

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# IC=3.076 IC/col=0.769 n_of_columns=4 specificity:   
A |  19  13   0   0
C |  38  10   0   0
G |  20  63  96  96
T |  19  10   0   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: MUTM
CTGGCPubMed3gpp_A(1.34e-04), 3u6s_A(1.35e-04), 3sau_A(1.34e-04), ... (total=4)

Dendrogram of similar interfaces ?

matrix format
  
  --RGMG----RCFC--RG   L                   +3u6p_A    
                                         +-1 
  --RA------RGFT--RA                   +-2 +3gpu_A    
                                       ! ! 
  --RTMT----RCFA--RT       +-----------3 +6fl1_A    
                           !           ! 
  RT--MG----RCFC--RT   L --6           +-6tc9_A    
                           ! 
  --QALGYA--------RG       !   +---------1k3x_A    
                           +---5 
  ----MG--ITRCFGHGRG   L       !  +------5itu_A    
                               +--4 
  ----MG--ITRCFG--RG              +------6lwd_G

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updated Fri Sep 13 17:47:36 2024