| structure name | CRYSTAL STRUCTURE OF THE PDX1 HOMEODOMAIN IN COMPLEX WITH DNA (Pancreatic and duodenal homeobox 1) |
| reference | Guanga et al. Biochemistry 46 2948 2007 |
| source | Mesocricetus auratus |
| experiment | X-ray (resolution=2.42, R-factor=?) |
| structural superfamily | Homeodomain-like; |
| sequence family | Homeobox domain; |
| links to other resources | NAKB  PDIdb DNAproDB |
| protein sequence | |
| interface signature | KRIQNM |
Estimated binding specificities ?
| readout + contact |  |
A | 9 6 24 0 1 75 6 C | 6 6 24 0 6 6 9 G | 6 6 24 0 0 6 75 T | 75 78 24 96 89 9 6scan! |
Related DNA sequences reported in the literature ?
| site | source | matches (E-value) |
|---|---|---|
| term: PDX1 | ||
| CTCTAAT | PubMed | 2h1k_B(1.04e-02) |
Dendrogram of similar interfaces ?
matrix format------RT--------------NT--NAIARG-- L +1puf_B +---------10 ------RT--------------NT--NAIARG-- L ! +1b72_B ! ------RT--------------VAQTNA------ L ! +5hod_A ! +-5 RA----RT--------------VASGNA------ L ! ! +3cmy_A ! +--11 ------RA--------------ITQTNAMG---- L ! ! ! +5zjt_E +--21 +--15 +-2 --RT--RT--------------IAKGNA------ L ! ! ! ! +6m3d_C ! ! ! ! ------RA------------RCVTCTNAQTRC-- L ! ! ! +----1au7_A ! ! +-17 RT----RT--------------VAQTNA------ L ! ! ! ! +1fjl_B ! ! ! ! +-8 RC----RT--------------ITQCNAACRG-- L +-25 ! ! ! +---9 +6a8r_A ! ! +-18 ! ! ! ----RC----RT----------NCSTNARG---- L ! ! ! +---14 +1mnm_C ! ! ! ! --------------RA----KAITQTNAMC---- L ! ! ! +---1ahd_P ! ! ! ------RA--------------IAQCNAMC---- L ! ! +---------4uus_E ! ! ------RA----YA--------IAQCNAYCKG-- L ! +---------------5flv_I ! ------RT--------------IAQCNAMG---- L +--26 +1b72_A ! ! +--4 ------RT--------------ITQCNAMC---- L ! ! +------13 +2r5y_A ! ! ! ! ------RA--------------ITQCNAMC---- L ! ! ! +--1b8i_A ! ! +-20 RA----RA--------------IAQTNAMC---- L ! ! ! ! +-----1puf_A ! ! ! +---16 ----YART--------------IAQTNA------ L ! ! ! ! +5lux_K ! +-23 +-----3 ----YARA--------------IAQTNA------ L +-27 ! +6es3_K ! ! ! RC--RT----------------NCICNARGRG-- L ! ! ! +6fqp_B ! ! ! +-1 --RT--RT------------QTVAQTNA------ L ! ! +-------------7 +3a01_F ! ! ! --KA--RT--------------ICQTNA------ L ! ! +5edn_J +-28 ! --------HTRT----------NCSTNARG---- L ! ! ! +1k61_B ! ! ! +---------------6 ------RT--------------NT--NA--RG-- L ! ! +---24 +1b8i_B ! ! ! ------RA------------KGSAQA-------- L ! ! +---------------6j5b_C ! ! ----------------YTVCKGDCKC-------- L -29 ! +---------2qhb_A ! +----------19 --------RT------------NT--NAIARG-- L ! ! +--4cyc_B ! +-----12 ------RA--------RCET--SAQAKG------ L ! +--5lxu_A ! RT----RT--------------IAQTNASG---- L ! +-------------5zfz_A +---------22 --KG--RT--------------IAQCNAYA--RT L +-------------1nk2_P |
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updated Tue Dec 19 06:30:57 2023