family / count / name / Coiled-coil sequence
fgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdefgabcdef
1 / C/EBPa / RNVETQQKVLELTSDNDRLRKRVEQLSRELDTLRGIFRQLLE
2 / C/EBPb / MRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFKQL
3 / C/EBPg / QKAQDTLQRVNQLKEENERLEAKIKLLTKELSVLKDLFLEHAHNLAD
C/EBP / 4 / C/EBPd / RRNQEMQQKLVELSAENEKLHQRVEQLTRDLAGLRQFFKQL
5 / C_EBPe / RRILETQQKVLEYMAENERLRSRVEQLTQELDTLRNLFRQI
6 / CHOP / EKEQENERKVAQLAEENERLKQEIERLTREVEATRRALIDRMVNLHQA
7 / HP8 / QRNVETQQKVLELTSDNDRLRNGVEQLSRELDTLRGIFRQLLE
8 / ATF-1 / EYVKCLENRVAVLENQNKTLIEELKTLKDLYSNKSV
CREB / 9 / CREM-Ia / EYVKCLENRVAVLENQNKTLIEELKALKDLYCHKVE
10 / CREM-Ib / EYVKCLESRVAVLEVQNKKLIEELETLKDICSLE
11 / CREB / EYVKCLENRVAVLENQNKTLIEELKALKDLYCHKSD
12 / OASIS / EYVECLEKKVETFTSENNELWKKVETLENANRTLLQQLQKLQTLVTNKISRLE
13 / CREB-H / EYIDGLETRMSACTAQNQELQRKVLHLEKQNLSLLEQLKKLQAIVVQSTSL
OASIS / 14 / CREB3 / VYVGGLESRVLKYTAQNMELQNKVQLLEEQNLSLLDQLRKLQAMVIEISNKTSS
15 / CREB4 / EYIDGLESRVAACSAQNQELQKKVQELERHNISLVAQLRQLQTLIAQTSNKAAQTST
ATF-6 / 16 / ATF-6 / EYMLGLEARLKAALSENEQLKKENGTLKRQLDEVVSENQRLKV
17 / ZF / EYVMGLESRVRGLAAENQELRAENRELGKRVQALQEESRYLRAVLANETGLE
XBP / 18 / XBP-1 / ARMSELEQQVVDLEEENQKLLLENQLLREKTHGLVVENQEL
E4BP4 / 19 / E4BP4 / LNDLVLENKLIALGEENATLKAELLSLKLKFGLIS
20 / ATF-2 / VWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQLLLAHKDC
ATF-2 / 21 / ATF-7 / LWVSSLEKKAEELTSQNIQLSNEVTLLRNEVAQLKQLLLAHKDC
22 / CREBPA / VWVMSLEKKAEELTQTNMQLQNEVSMLKNEVAQLKQLLLTHKDC
23 / cJun / ERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQKVMNH
JUN / 24 / JunB / ERIARLEDKVKTLKAENAGLSSTAGLLREQVAQLKQKVMTH
25 / JunD / ERISRLEEKVKTLKSQNTELASTASLLREQVAQLKQKVLSHV
26 / Fos / ELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFILAAHR
FOS / 27 / FosB / ELTDRLQAETDQLEEEKAELESEIAELQKEKERLEFVLVAHK
28 / Fra1 / ELTDFLQAETDKLEDEKSGLQREIEELQKQKERLELVLEAHR
29 / Fra2 / ELTEKLQAETEELEEEKSGLQKEIAELQKEKEKLEFMLVAHG
ATF-3 / 30 / ATF-3 / EKTECLQKESEKLESVNAELKAQIEELKNEKQHLIYMLNLHR
31 / ATF-4 / AEQEALTGECKELEKKNEALKERADSLAKEIQYLKDLIEEVRKARGKKRV
ATF-4 / 32 / ATF-4L1 / VEQEVLTGECKAVEKKNEALQERADSLAEEIQYMKDSIEEVCKARGK
33 / ATF-5 / AEGEALEGECQGLEARNRELKERAESVEREIQYVKDLLIEVYKARSQ
34 / B-ATF / QKADTLHLESEDLEKQNAALRKEIKQLTEELKYFTSVLNSHELE
B-ATF / 35 / p21SNFT / QKADKLHEEYESLEQENTMLRREIGKLTEELKHLTEALKEHEKMC
36 / DBP / LKENQISVRAAFLEKENALLRQEVVAVRQELSHYRAVLSRYQAQ
PAR / 37 / HLF / LKENQIAIRASFLEKENSALRQEVADLRKELGKCKNILAKYEARHLE
38 / TEF / LKENQITIRAAFLEKENTALRTEVAELRKEVGKCKTIVSKYETK
39 / MafG / TQKEELEKQKAELQQEVEKLASENASMKLELDALRSKYEALQTFARTVARS
smMAF / 40 / MafK / TQKEELERQRVELQQEVEKLARENSSMRLELDALRSKYEALQTFARTVARLE
41 / cMaf / QQRHVLESEKNQLLQQVDHLKQEISRLVRERDAYKEKYEKLVSSGFREN
lgMAF / 42 / MafB / QQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYKVKCEKLANSG
43 / NFE2 / ETIVQLERELERLTNERERLLRARGEADRTLEVMRQQLTELYR
44 / NFE2L1 / DTILNLERDVEDLQRDKARLLREKVEFLRSLRQMKQKVQSLYQEV
45 / NFE2L2 / ENIVELEQDLDHLKDEKEKLLKEKGENDKSLHLLKKQLSTLYLEV
CNC / 46 / NFE2L3 / DIILNLEDDVCNLQAKKETLKREQAQCNKAINIMKQKLHDL
47 / BACH1 / DCIQNLESEIEKLQSEKESLLKERDHILSTLGETKQNLTGL
48 / BACH2 / DCIQNLECEIRKLVCEKEKLLSERNQLKACMGEL
49 / ARR1 / ERLEELEKKEAQLTVTNDQIHILKKENELLHFML
50 / CIN5 / KYIKNLEEKSKLFDGLMKENSELKKMIESLKSKLKE
51 / YAP1 / RKMKELEKKVQSLESIQQQNEVEATFLRDQLITLD
52 / YAP2 / AKMKSLQERVELLEQKDAQNKTTTDFLLCSLKSL
YEAST / 53 / YAP3 / ARMKELQDKLLESERNRQSLLKEIEELRKANTEINAENRLLLRSGN
54 / YAP5 / NKLQVLEETIESLSKVVKNYETKLNRLQNELQAKESENHALKQKLETLTLKQASV
55 / YAP7 / TRIQVLEEKVEMLHNLVDDWQRKYKLLESEFSDTKENLQKSIALNNELQKAL
56 / MET28 / QKNFENMNKLQNLNTQINKLRDRIEQLNKENEFWKAKLNDINEI
57 / GCN4 / QRMKQLEDKVEELLSKNYHLENEVARLKKLVGDAAR
58 / MET4 / LKEKELESSIHELTEIAASLQKRIHTLETENKLLKNLVLSSGET
Supplementary Table 1: bZIP transcription factor coiled coils, as described in [23].
Supplementary Information on Experimental Constraints
The following experimental studies are used to derive to constraints for the base dataset:
· Coiled coils from [37] are ordered according to DG values given in Table 1 (with updated values from some sequences obtained from [38], Table 1). DG differences of at least 0.8 are required.
· Coiled coils from [43] are ordered according to DG values given in Table 2. DG differences of at least 0.8 are required.
· Coiled coils from [19] are ordered according to DG values given Table 3. DG differences of at least 0.22 are required.
· Coiled coils from [14] are ordered using Figure 2. Heterodimeric pairings AIV/BLL and ALL/BIV are not ordered with respect to each other.
· Coiled coils from [44] are ordered according to Figure 6.
· The GABAB coiled-coil heterodimer and corresponding homodimers given in [50] are ordered as given by Figures 1 and 2.
· The six pairings between the fos, jun and GCN4 constructs given in [16] are ordered according to Figure 5. Additionally, all constructs given in Table 1 (except NFF, NJJ, NFJ, NFFout, NJJout, NFJout) are ordered with respect to each other using the given Tm's.
· Coiled coils in [45] are ordered as given in Table 1, with the following constructs judged to be equally ranked: Met and Ile; Tyr, Phe and Val; Ala and Trp; His and Thr; Lys, Ser and Asp; Glu, Arg, and Gly.
· Jun homodimer mutants in [52] are ordered by their relative transcriptional activity, as given in Figure 8a.
· Fos homodimer mutants in [51] are ordered by their association constants, as given in Table 1.
· Coiled coils pVNL, pV LN, and pV LQ in [46] are ordered by their Tm's, as given in Table 1.
· GCN4 type D mutants from [49] are assumed to form dimeric coiled coils (given in Table 3).