6sdg_B : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF THE DNA BINDING DOMAIN OF M. POLYMORPHA AUXIN RESPONSE FACTOR 2 (MPARF2) IN COMPLEX WITH HIGH AFFINITY DNA (Auxin response factor)
reference	Weijers et al.
source	Marchantia polymorpha
experiment	X-ray (resolution=2.96, R-factor=0.218)
structural superfamily	DNA-binding pseudobarrel domain;
sequence family	Auxin response factor; B3 DNA binding domain;
multimeric complexes	6sdg_AB
reference complex	8oj2_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6sdg_B interface=91,96,100,141,144,146, idaelwyacagpqkalppvgsvvaylpqghieqvasfnnqiprynlpavipcmlndiqlsadpdsdevyatltlcpmseqsrsftktltvSdtstHggfSvprraaddclpkldmslnppnqelvakdlhgnewrfrhifRgqPkRhllttgwsvfvsqkrlvagdavlflrgengqlrvgvrraprqqqlqpkvltsptmhigvlaaaahaateksrfsliynprscpsefvipyskylkavksnfnvgqrfkmkfespsdrrhtgtitgicdfdparwpgsewrslqvnwdesssserqervspwevepgns
interface signature	SHSRPR

Estimated binding specificities ?

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# IC=5.367 IC/col=0.671 n_of_columns=8

specificity:

A |  19   1   0   6  21   2   4  14
C |  20   1   0   6  33   1   4  52
G |  19   1  96   6  21  92  81  16
T |  38  93   0  78  21   1   7  14

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Dendrogram of similar interfaces ?

matrix format

  
  --STHG--ST----RC----PT--RG--------   L                              +6sdg_B    
                                                     +----------------1 
  --STHG--------RG----PT--RG--------   L         +---2                +6ycq_A    
                                                 !   ! 
  --STITRGVTWC--NCNG------MA--------   L   +-----3   +-----------------5yzz_C    
                                           !     ! 
  KASTLTRGIT----WC--NTNT----MA------   L --4     +---------------------6j9b_A    
                                           ! 
  ------YCWC--ET----NGNGFA----DCRGRC   L   +---------------------------3zi5_A

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updated Tue Dec 17 06:56:18 2024