2xsd_C : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF THE DIMERIC OCT-6 (POU3F1) POU DOMAIN BOUND TO PALINDROMIC MORE DNA (POU DOMAIN, CLASS 3, TRANSCRIPTION FACTOR 1)
reference	Kolatkar et al. Proteins 79 674 2011
source	MUS MUSCULUS
experiment	X-ray (resolution=2.05, R-factor=0.198)
structural superfamily	lambda repressor-like DNA-binding domains;Homeodomain-like;
sequence family	Pou domain Nterminal to homeobox domain;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 2xsd_C interface=41,42,43,46,47,53,57,113,114,117,118,121, apssddleqfakqfkqrriklgftqadvglalgtlygnvfSQTtiCRfealqLsfkNmcklkpllnkwleetdsievgvkgaleshflkcpkpsaheitgladslqlekevvRVwfCNrrQkekrmtp
interface signature	SQTCRLNRVCNQ

Estimated binding specificities ?

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# IC=7.596 IC/col=0.844 n_of_columns=9

specificity:

A |  96   0  16   0  96   0   8  24   8
C |   0   8   8  96   0   0   8  24   8
G |   0   8  64   0   0   0  72  24  72
T |   0  80   8   0   0  96   8  24   8

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: OCT-6
ATGCAAAA	PubMed	2xsd_C(1.56e-03)
ATGCAAAT	PubMed	2xsd_C(1.56e-03)
term: POU3F1
ATATGCAA	PubMed	2xsd_C(1.56e-03)
ATGCAAAT	PubMed	2xsd_C(1.56e-03)
ATGCATATGCAT	PubMed	2xsd_C(5.80e-06)

Dendrogram of similar interfaces ?

matrix format

  
  --SGQATT--RG--------   L                               +-1o4x_A    
                                   +---------------------1 
  --SGQATGCARG--------   L   +-----2                     +-8g87_X    
                             !     ! 
  ------------ITQCNAMC   L --3     +-----------------------2r5y_A    
                             ! 
  AT--QAATSA----------       +-----------------------------4z5h_A

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updated Tue Dec 19 07:05:42 2023