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structure name3D SOLUTION NMR STRUCTURE OF THE WILD TYPE HMG-BOX DOMAIN OF THE HUMAN MALE SEX DETERMINING FACTOR SRY COMPLEXED TO DNA
(SEX-DETERMINING REGION Y PROTEIN)
sourceHOMO SAPIENS
experimentNMR
structural superfamilyHMG-box;
sequence familyHMG high mobility group box;
redundant complexes1j47
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRNFIRNSSYP

Estimated binding specificities ?

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# IC=6.338 IC/col=0.905 n_of_columns=7 specificity:   
A |   7  96   7  75  75  96   0
C |  73   0  73   7   7   0  96
G |   7   0   9   7   7   0   0
T |   9   0   7   7   7   0   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: SRY
AACAATPubMed1j46_A(3.38e-03), 1j47_A(1.12e-03)
AACAAAGPubMed1j46_A(5.19e-05), 1j47_A(6.37e-06)
GAACAATPubMed1j46_A(1.05e-02), 1j47_A(3.38e-03)
ACAATPubMed1j46_A(1.01e-03), 1j47_A(3.55e-04)
GTTTGCACTTCGAAGCAGAGPubMed1j46_A(7.47e-03), 1j47_A(7.92e-04)
CTTTGPubMed1j46_A(1.01e-03), 1j47_A(3.59e-04)
ATTGTTPubMed1j46_A(3.38e-03), 1j47_A(1.12e-03)
TCAAAGPubMed1j46_A(3.38e-03), 1j47_A(1.13e-03)
NACAATPubMed1j46_A(3.38e-03), 1j47_A(1.12e-03)

Dendrogram of similar interfaces ?

matrix format
  
  RTNGFTIA--RA--NASGSTYAPG--   L                        +--1j46_A    
                                          +-------------1 
  KCNT--MAMA--EGSAACNT----YT   L     +----2             +--2lef_A    
                                     !    ! 
  RCNTFTMA--RAHGNT--SAYA----   L   +-3    +----------------3f27_D    
                                   ! ! 
  ----YC--VT----FC--SA------   L --4 +---------------------1ckt_A    
                                   ! 
  --STYGLASGLA--TGTCIT------   L   +-----------------------3tq6_B

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updated Mon Dec 16 17:57:06 2024