| structure name | CRYSTAL STRUCTURE OF BZIP TRANSCRIPTION FACTOR PAP1 BOUND TO DNA (TRANSCRIPTION FACTOR PAP1) |
| reference | Hakoshima et al. |
| source | Schizosaccharomyces pombe |
| experiment | X-ray (resolution=2.00, R-factor=?) |
| structural superfamily | Leucine zipper domain; |
| links to other resources | NAKB  PDIdb DNAproDB |
| protein sequence | |
| interface signature | RQNRAQFR |
Estimated binding specificities ?
| readout + contact |  |
A | 8 0 8 96 96 8 8 C | 69 0 11 0 0 87 72 G | 8 96 8 0 0 1 8 T | 11 0 69 0 0 0 8scan! |
Related DNA sequences reported in the literature ?
| site | source | matches (E-value) |
|---|---|---|
| term: PAP1 | ||
| TTACGAAT | PubMed | 1gd2_G(1.67e-04), 1gd2_EF(2.89e-04), 1gd2_GH(2.93e-04) |
| TTACGTAT | PubMed | 1gd2_G(1.67e-04), 1gd2_EF(4.59e-08), 1gd2_GH(4.68e-08) |
| TTACGCGA | PubMed | 1gd2_G(1.67e-04), 1gd2_EF(1.51e-03), 1gd2_GH(1.52e-03) |
| TTACGTAA | PubMed | 1gd2_G(1.67e-04), 1gd2_EF(6.54e-12), 1gd2_GH(6.70e-12) |
| AACCTAAC | PubMed | 1gd2_G(1.08e-03), 1gd2_EF(2.89e-04), 1gd2_GH(2.96e-04) |
Dendrogram of similar interfaces ?
matrix format------------------RG------NC----YGAT--CTRG L +--------------------------2wt7_B ! RG----QGNART--AGQT----FTRG---------------- L ! +1gd2_G ! +-2 --------RA----NT----AAVT----STRG---------- L ! +----------6 +1hjb_A ! ! ! ------------RG------NC----YGAT------RC---- L ! ! +--4eot_A ! +-----8 RC------NC----AAAT----CTRC---------------- L +-11 ! ! +2wt7_A ! ! ! ! +-1 --RA----NA----AAVT----STRG---------------- L ! ! ! +-----------3 +1h89_A ! ! +----9 ! ----------NCRT--ATAT----STRG-------------- ! ! ! ! +-1t2k_D ! ! ! ! ----------RA----NA----AAVT----STRG-------- L ! ! ! ! +----1nwq_C ! ! ! ! ! ------------NT----ATAT----STRG------------ L -12 +-10 +--------------7 +-1dh3_C ! ! ! +-4 ----------------NC----AT------STRA-------- ! ! +-5 +-1a02_J ! ! ! --------NCTT----AT------RG---------------- L ! ! +--2dgc_A ! ! ----------NT----ATAT------RG-------------- L ! +------------------------5t01_B ! ----RG------NT----ATAT------RG------------ L +---------------------------5vpe_C |
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updated Fri Sep 13 15:37:41 2024