| structure name | GCNF DNA BINDING DOMAIN - OCT4 DR0 COMPLEX (Nuclear receptor subfamily 6 group A member 1) |
| reference | Ortlund et al. 'J. 428 4981 2016 |
| source | Mus musculus |
| experiment | X-ray (resolution=2.10, R-factor=0.218) |
| structural superfamily | Glucocorticoid receptor-like DNA-binding domain; |
| sequence family | Zinc finger, C4 type two domains; |
| multimeric complexes | 5krb_BG |
| links to other resources | NAKB  PDIdb DNAproDB |
| protein sequence | |
| interface signature | EKRPR |
Estimated binding specificities ?
| readout + contact |  |
A | 0 6 24 61 0 0 24 0 78 C | 6 61 24 13 0 0 24 82 6 G | 1 16 24 13 96 96 24 0 6 T | 89 13 24 9 0 0 24 14 6scan! |
Related DNA sequences reported in the literature ?
| site | source | matches (E-value) |
|---|---|---|
| term: GCNF | ||
| AGGTCA | PubMed | 5krb_G(4.54e-05), 5krb_BG(1.13e-04) |
| TCAAGGTCA | PubMed | 5krb_G(2.83e-08), 5krb_BG(3.81e-07) |
| AGGTCAAGGTCA | PubMed | 5krb_G(8.93e-07), 5krb_BG(2.47e-11) |
| TCAAG | PubMed | 5krb_G(3.14e-03), 5krb_BG(5.75e-03) |
Dendrogram of similar interfaces ?
matrix format----ECKG--KGRG----RCRC L +-------------------2ff0_A +-13 --HC--KGVT--RG-------- ! ! +--3g9m_B ! +----------------6 ------KGVT--RG-------- ! +--5emp_A ! ----ECKG--KGRA----RTRC L ! +------5l0m_A ! ! CA--ECKG--KGRG-------- L +-14 ! +---6l6q_B ! ! +--------10 +-7 ----DGKG--RTRG-------- L ! ! ! ! ! ! +3cbb_A ! ! ! ! ! +---3 ----ECKG--KGRG-------- ! ! ! ! ! +3dzy_A ! ! ! +-9 ------KAVA--RA-------- L ! ! ! ! +5e69_A ! ! ! ! +-4 ----ECKG--RGRG-------- L ! +---12 +----5 +3dzy_D ! ! ! ----ETKGAT--RG-------- L -15 ! +1lat_A ! ! ----EAKG--RTRTRT------ ! ! +2han_B ! ! +-----1 ----EAKG--RTRTRT------ ! +----------8 +4umm_E ! ! ----ECKG--RGRG-------- L ! +-----5uan_B ! ------KGVT--RG-------- L ! +6x6e_A ! +---------------2 ----DAKG--RGRG--RT---- L +------11 +4iqr_B ! ----ECKG--KGRG-------- +---------------4nqa_H |
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updated Fri Sep 13 19:59:24 2024