5fmf_V : 3D-footprint complex

structure name	THE P-LOBE OF RNA POLYMERASE II PRE-INITIATION COMPLEX (TRANSCRIPTION INITIATION FACTOR IIF SUBUNIT BETA, TFG2)
reference	Bushnell et al. Proc.Natl.Acad.Sci.USA 112 13543 2015
source	SACCHAROMYCES CEREVISIAE
experiment	X-ray (resolution=6.00, R-factor=?)
structural superfamily	Rap30/74 interaction domains;"Winged helix" DNA-binding domain;
sequence family	Transcription initiation factor IIF, beta;
multimeric complexes	5fmf_1AMPQUV
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5fmf_V interface=106,107,109,110,138, eesldldlersnrqvwlvrlpmflaekwrdrnnlhgqelgkirinkdgskitlllnendndsipheydleltkkvveneyvfteqnlkktaivgtvchecqvmpsSIrMPkkeildylfklfdeydywslkglkertRqpeahlkecldkvatlvkkgpyafkytlrpeykklk
interface signature	SIMPR

Estimated binding specificities ?

contact

# IC=3.205 IC/col=0.458 n_of_columns=7

specificity:

A |   0   0  21  24  27  60  14
C |   0   0  21  24  22  12  54
G |   0   0  31  24  25  12  14
T |  96  96  23  24  22  12  14

scan!

Dendrogram of similar interfaces ?

matrix format

  
  SGITMTPTRT--------------------   L             +-------------------5fmf_V    
                                               +-2 
  ----------STKTPTTTFT------RA--   L           ! !          +--------4aso_F    
                                            +--3 +----------1 
  --------------------RC--KT----            !  !            +--------2acj_B    
                                       +----4  ! 
  ----------------NA--RAHT------   L   !    !  +-------------------2a07_J    
                                     --5    ! 
  --------------------RGHT------   L   !    +----------------------6akp_C    
                                       ! 
  ------------------------RG--YG   L   +---------------------------5vfx_A

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updated Sun Aug 3 09:09:59 2025