| structure name | CRYSTAL STRUCTURE OF A UBX-EXD-DNA COMPLEX INCLUDING THE HEXAPEPTIDE AND UBDA MOTIFS (HOMEOBOX PROTEIN EXTRADENTICLE) |
| reference | Ortiz-Lombardia et al. Structure 23 270 2015 |
| source | DROSOPHILA MELANOGASTER |
| experiment | X-ray (resolution=2.36, R-factor=0.213) |
| structural superfamily | Homeodomain-like; |
| sequence family | Homeobox domain; |
| multimeric complexes | 4cyc_AB 4uus_AB 4uus_EF 5zjq_AB 5zjr_AB 5zjs_AB |
| redundant complexes |  5zjr_B
4uus
5zjq
5zjs
|
| links to other resources | NAKB  PDIdb DNAproDB |
| protein sequence | |
| interface signature | RNNIR |
Estimated binding specificities ?
| readout + contact |  |
A | 17 0 0 96 52 78 C | 8 0 0 0 17 0 G | 61 0 96 0 10 0 T | 10 96 0 0 17 18scan! |
Related DNA sequences reported in the literature ?
| site | source | matches (E-value) |
|---|---|---|
| term: EXD | ||
| TTGATTGAT | PubMed | 4cyc_AB(8.22e-03), 4uus_AB(1.12e-03), 5zjq_AB(1.71e-06), ... (total=6) |
| TGATTAAT | PubMed | 4cyc_AB(4.00e-03), 4uus_AB(2.37e-04), 5zjq_AB(1.91e-07), ... (total=6) |
| TGATNNAT | PubMed | 4uus_AB(1.33e-05), 5zjq_AB(2.52e-05), 5zjr_AB(1.78e-05), ... (total=5) |
| TGATTNATGG | PubMed | 4cyc_AB(3.52e-03), 4uus_AB(5.57e-04), 5zjq_AB(1.44e-09), ... (total=6) |
| ATCAATCAA | PubMed | 4cyc_AB(8.22e-03), 4uus_AB(1.12e-03), 5zjq_AB(1.71e-06), ... (total=6) |
Dendrogram of similar interfaces ?
matrix format----------------------------NT--NAIARG---- L +1b72_B +----5 ----------------------------ICQTNA-------- L +-----15 +5edn_J ! ! ----------------------------IAQTNAMC------ L ! +----1puf_A +--21 ----------------------------NT--NAIARG---- L ! ! +-----1puf_B ! +----16 ----------------------------ITQTNAMG------ L +-23 ! +5zjt_E ! ! +-----4 ----------------------------IAQTNA-------- L ! ! +5lux_K ! ! --------------------------RCVTCTNAQTRC---- L ! +---------------1au7_A ! ----------------------------NT--NAIARG---- L ! +4cyc_B ! +-1 ----------------------------NCITNARGRG---- L ! +-----8 +6fqq_E ! ! ! ------------------TT--------HTRTVG-------- L ! +--17 +6ldm_A ! ! ! ----------------------------IAQTNASG------ L ! ! +------5zfz_A +-25 +-19 ----------------------------NT--NA--RG---- L ! ! ! ! +1b8i_B ! ! ! ! +-7 RT--------------------------NCSTNARG------ L ! ! ! +-------11 +1mnm_C ! ! ! ! ----------------------------IAQCNAYA----RT L ! ! ! +-1nk2_P ! ! ! ----------------------------NCICNARGRG---- L ! ! +-22 +6fqp_B ! ! ! ! +-2 --------------------------QTVAQTNA-------- L ! ! ! ! +-10 +3a01_F ! ! ! ! ! ! ----------------------------IAKGNA-------- L ! ! ! ! +--13 +-6m3d_C +-26 ! ! ! ! ! --------------RA----------KAITQTNAMC------ L ! ! ! ! +---18 +---1ahd_P ! ! +-24 ! ----------------------------ITQCNAMC------ L ! ! ! ! +1b8i_A ! ! ! +-------3 ----------------------------ITQCNAMC------ L ! ! ! +2r5y_A ! ! ! RT--------------------------NCSTNARG------ L +-27 ! ! +-1k61_B ! ! ! ! +---------9 ----FAWTQANT------------------------------ L ! ! ! +--20 +-6wq2_b ! ! ! ! ----------------------------IAQCNAMC------ L ! ! ! +-----------4uus_E ! ! ! ------------YA--------------IAQCNAYCKG---- L ! ! +--------------------5flv_I +----28 ! RGTG------------LG----LCRG---------------- ! ! +----------------------4ew0_A ! ! ----------------------------VAQTNA-------- L ! ! +5hod_A ! ! +-6 ----------------------------VASGNA-------- L -29 ! +-12 +3cmy_A ! ! ! ! --------------------RCET----SAQAKG-------- L ! +-----------------14 +-5lxu_A ! ! ----------------------------IAQCNAMG------ L ! +---1b72_A ! ------------------------------KG--NA--EC-- L +----------------------------1xpx_A |
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updated Thu Dec 22 20:05:07 2022