3.3 |
Class: Fork head / winged helix factors (FKH), Alignment |
Note: The three families of this class do not share significant sequence similarities. Therefore, the sequence aligments of their DNA-binding domains will be listed separately for the FOX family (3.3.1), the E2F family (3.3.2), and the RFX family (3.3.3). |
Aligned FOX sequences (Family 3.3.1): |
KPPYSYISLITMAIQQAPSKMLTLSEIYQWIMDLFPYYRQNQQ-----RWQNSIRHSLSFNDCFVKVARSPDKP----GKGSYWTLHPDSGNMFENGCYLRRQKR FOXA1
KPPYSYISLITMAIQQSPNKMLTLSEIYQWIMDLFPFYRQNQQ-----RWQNSIRHSLSFNDCFLKVPRSPDKP----GKGSFWTLHPDSGNMFENGCYLRRQKR FOXA2
KPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQ-----RWQNSIRHSLSFNDCFVKVARSPDKP----GKGSYWALHPSSGNMFENGCYLRRQKR FOXA3
KPPYSYISLTAMAIQSSPEKMLPLSEIYKFIMDRFPYYRENTQ-----RWQNSLRHNLSFNDCFIKIPRRPDQP----GKGSFWALHPSCGDMFENGSFLRRQKR FOXB1
KPPYSYISLTAMAIQHSAEKMLPLSDIYKFIMERFPYYREHTQ-----RWQNSLRHNLSFNDCFIKIPRRPDQP----GKGSFWALHPDCGDMFENGSFLRRRKR FOXB2
KPPYSYIALITMAIQNAPDKKITLNGIYQFIMDRFPFYRDNKQ-----GWQNSIRHNLSLNECFVKVPRDDKKP----GKGSYWTLDPDSYNMFENGSFLRRRRR FOXC1
KPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQ-----GWQNSIRHNLSLNECFVKVPRDDKKP----GKGSYWTLDPDSYNMFENGSFLRRRRR FOXC2
KPPYSYIALITMAILQSPKKRLTLSEICEFISGRFPYYREKFP-----AWQNSIRHNLSLNDCFVKIPREPGNP----GKGNYWTLDPESADMFDNGSFLRRRKR FOXD1
KPPYSYIALITMAILQSPKKRLTLSEICEFISGRFPYYREKFP-----AWQNSIRHNLSLNDCFVKIPREPGNP----GKGNYWTLDPESADMFDNGSFLRRRKR FOXD2
KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFP-----AWQNSIRHNLSLNDCFVKIPREPGNP----GKGNYWTLDPQSEDMFDNGSFLRRRKR FOXD3
KPPSSYIALITMAILQSPHKRLTLSGICAFISDRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGRP----GKGNYWSLDPASQDMFDNGSFLRRRKR FOXD4
KPPYSYIALITMAILQSPHKRLTLSGICAFISGRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGHP----GKGTYWSLDPASQDMFDNGSFLRRRKR FOXD4L1
KPPYSYIALITMAILQNPHKRLTLSGICAFISGRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGHP----GKGNYWSLDPASQDMFDNGSFLRRRKR FOXD4L2
KPPYSYIALITMAILQNPHKRLTLSGICAFISGRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGHP----GKGNYWSLDPASQDMFDNGSFLRRRKR FOXD4L3
KPPYSYIALITMAILQNPHKRLTLSGICAFISGRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGHP----GKGNYWSLDPASQDMFDNGSFLRRRKR FOXD4L4
KPPYSYIALITMAILQNPHKRLTLSGICAFISGRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGHP----GKGNYWSLDPASQDMFDNGSFLRRRKR FOXD4L5
KPPYSYIALITMAILQNPHKRLTLSGICAFISGRFPYYRRKFP-----AWQNSIRHNLSLNDCFVKIPREPGHP----GKGNYWSLDPASQDMFDNGSFLRRRKR FOXD4L6
KPPYSYIALIAMAIAHAPERRLTLGGIYKFITERFPFYRDNPK-----KWQNSIRHNLTLNDCFLKIPREAGRP----GKGNYWALDPNAEDMFESGSFLRRRKR FOXE1
KPPYSYIALIAMALAHAPGRRLTLAAIYRFITERFAFYRDSPR-----KWQNSIRHNLTLNDCFVKVPREPGNP----GKGNYWTLDPAAADMFDNGSFLRRRKR FOXE3
KPPYSYIALIVMAIQSSPTKRLTLSEIYQFLQSRFPFFRGSYQ-----GWKNSVRHNLSLNECFIKLPKGLGRP----GKGHYWTIDPASEFMFEEGSFRRRPRG FOXF1
KPPYSYIALIVMAIQSSPSKRLTLSEIYQFLQARFPFFRGAYQ-----GWKNSVRHNLSLNECFIKLPKGLGRP----GKGHYWTIDPASEFMFEEGSFRRRPRG FOXF2
KPPFSYNALIMMAIRQSPEKRLTLNGIYEFIMKNFPYYRENKQ-----GWQNSIRHNLSLNKCFVKVPRHYDDP----GKGNYWMLDPSSDDVFIGGTTGKLRRR FOXG1
KPPYTYLAMIALVIQAAPSRRLKLAQIIRQVQAVFPFFREDYE-----GWKDSIRHNLSSNRCFRKVPKDPAKPQ---AKGNFWAVDVSLIPAEALRLQNTALCR FOXH1
RPPYSYSALIAMAIHGAPDKRLTLSQIYQYVADNFPFYNKSKA-----GWQNSIRHNLSLNDCFKKVPRDEDDP----GKGNYWTLDPNCEKMFDNGNFRRKRKR FOXI1
RPPYSYSALIAMAIQSAPLRKLTLSQIYQYVAGNFPFYKRSKA-----GWQNSIRHNLSLNDCFKKVPRDEDDP----GKGNYWTLDPNCEKMFDNGNFRRKRKR FOXI2
RPPYSYSALIAMAIQSAPERKLTLSHIYQFVADSFPFYQRSKA-----GWQNSIRHNLSLNDCFKKVPRDEDDP----GKGNYWTLDPNCEKMFDNGNFRRKRKR FOXI3
KPPYSYATLICMAMQASKATKITLSAIYKWITDNFCYFRHADP-----TWQNSIRHNLSLNKCFIKVPREKDEP----GKGGFWRIDPQYAERLLSGAFKKRRLP FOXJ1
KPRYSYATLITYAINSSPAKKMTLSEIYRWICDNFPYYKNAGI-----GWKNSIRHNLSLNKCFRKVPRPRDDP----GKGSYWTIDTCPDISRKRRHPPDDDLS FOXJ2
KPPYSYASLITFAINSSPKKKMTLSEIYQWICDNFPYYREAGS-----GWKNSIRHNLSLNKCFLKVPRSKDDP----GKGSYWAIDTNPKEDVLPTRPKKRARS FOXJ3
KPPFSYAQLIVQAISSAQDRQLTLSGIYAHITKHYPYYRTADK-----GWQNSIRHNLSLNRYFIKVPRSQEEP----GKGSFWRIDPASEAKLVEQAFRKRRQR FOXK1
KPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADK-----GWQNSIRHNLSLNRYFIKVPRSQEEP----GKGSFWRIDPASESKLIEQAFRKRRPR FOXK2
KPPYSYIALIAMAIQDAPEQRVTLNGIYQFIMDRFPFYHDNRQ-----GWQNSIRHNLSLNDCFVKVPREKGRP----GKGSYWTLDPRCLDMFENGNYRRRKRK FOXL1
KPPYSYVALIAMAIRESAEKRLTLSGIYQYIIAKFPFYEKNKK-----GWQNSIRHNLSLNECFIKVPREGGGE----RKGNYWTLDPACEDMFEKGNYRRRRRM FOXL2
RPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKP----GWKNSIRHNLSLHDMFV---RETSAN----GKVSFWTIHPSANRYLTLDQVFKPLDP FOXM1
KPIYSYSILIFMALKNSKTGSLPVSEIYNFMTEHFPYFKTAPD-----GWKNSVRHNLSLNKCFEKVENKSGSSS---RKGCLWALNPAKIDKMQEELQKWKRKD FOXN1
KPPYSFSLLIYMAIEHSPNKCLPVKEIYSWILDHFPYFATAPT-----GWKNSVRHNLSLNKCFQKVERSHGKVN---GKGSLWCVDPEYKPNLIQALKKQPFSS FOXN2
KPPYSFSCLIFMAIEDSPTKRLPVKDIYNWILEHFPYFANAPT-----GWKNSVRHNLSLNKCFKKVDKERSQSI---GKGSLWCIDPEYRQNLIQALKKTPYHP FOXN3
KPIYSYSCLIAMALKNSKTGSLPVSEIYSFMKEHFPYFKTAPD-----GWKNSVRHNLSLNKCFEKVENKMSGSS---RKGCLWALNLARIDKMEEEMHKWKRKD FOXN4
WGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIRVQNEGT------GKSSWWMLNPEGGKSGKSPRRRAASMD FOXO1
WGNLSYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNSIRHNLSLHSRFMRVQNEGT------GKSSWWIINPDGGKSGKAPRRRAVSMD FOXO3
WGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEAT------GKSSWWMLNPEGGKSGKAPRRRAASMD FOXO4
WGNLSYADLITKAIESAPDKRLTLSQIYDWMVRYVPYFKDKGDSNSSAGWKNSIRHNLSLHTRFIRVQNEGT------GKSSWWMLNPEGGKTGKTPRRRAVSMD FOXO6
RPPFTYASLIRQAILESPEKQLTLNEIYNWFTRMFAYFRRNAA-----TWKNAVRHNLSLHKCFVRVEN---------VKGAVWTVDEVEFQKRRPQKISGNPSL FOXP1
RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAA-----TWKNAVRHNLSLHKCFVRVEN---------VKGAVWTVDEVEYQKRRSQKITGSPTL FOXP2
RPPFTYATLIRWAILEAPEKQRTLNEIYHWFTRMFAFFRNHPA-----TWKNAIRHNLSLHKCFVRVES---------EKGAVWTVDELEFRKKRSQRPSRCSNP FOXP3
RPPFTYASLIRQAILETPDRQLTLNEIYNWFTRMFAYFRRNTA-----TWKNAVRHNLSLHKCFVRVEN---------VKGAVWTVDEREYQKRRPPKMTGSPTL FOXP4
KPPYSYIALIAMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYT-----GWRNSVRHNLSLNDCFVKVLRDPSRPW---GKDNYWMLNPNSEYTFADGVFRRRRKR FOXQ1
RPPLNYFHLIALALRNSSPCGLNVQQIYSFTRKHFPFFRTAPE-----GWKNTVRHNLCFRDSFEKVPVSMQGGASTRPRSCLWKLTEEGHRRFAEEARALASTR FOXR1
RPPLNCSHLIALALRNNPHCGLSVQEIYNFTRQHFPFFWTAPD-----GWKSTIHYNLCFLDSFEKVPDSLKDEDNARPRSCLWKLTKEGHRRFWEETRVLAFAQ FOXR2
KPPYSYIALIAMAIQSSPGQRATLSGIYRYIMGRFAFYRHNRP-----GWQNSIRHNLSLNECFVKVPRDDRKP----GKGSYWTLDPDCHDMFEHGSFLRRRRR FOXS1
Aligned E2F sequences (Family 3.3.2): |
Note that E2F-7 and E2F-8 have two (potential) DBDs of FKH type, denoted E2F-7(or 8)-1 and E2F-7(or 8)-2, resp. |
SRYETSLNLTTKRFLELLS----HSADGVVDLNWAAEVLKV-Q--------------------KRRIYDITNVLEGIQLIAKKSKNHIQWLG E2F-1
TRYDTSLGLLTKKFIYLLS----ESEDGVLDLNWAAEVLDVQ---------------------KRRIYDITNVLEGIQLIRKKAKNNIQWVG E2F-2
TRYDTSLGLLTKKFIQLLS----QSPDGVLDLNKAAEVLKVQ---------------------KRRIYDITNVLEGIHLIKKKSKNNVQWMG E2F-3
SRHEKSLGLLTTKFVSLLQ----EAKDGVLDLKLAADTLAVRQ--------------------KRRIYDITNVLEGIGLIEKKSKNSIQWKG E2F-4
SRHEKSLGLLTTKFVSLLQ----EAKDGVLDLKAAADTLAVRQ--------------------KRRIYDITNVLEGIDLIEKKSKNSIQWKG E2F-5
PRFDVSLVYLTRKFMDLVR----SAPGGILDLNKVATKLGVR---------------------KRRVYDITNVLDGIDLVEKKSKNHIRWIG E2F-6
SRKQKSLGLLCQKFLARYPSYPLSTEKTTISLDEVAVSLGVE---------------------RRRIYDIVNVLESLHLVSRVAKNQYGWHG E2F-7-1
SRKDKSLRIMSQKFVMLFL----VSKTKIVTLDVAAKILIEE-SQDAPDHSKFKTKVRRLYDIANVLTSLALIKKVHVTEERGRKPAFKWIG E2F-7-2
SRKEKSLGLLCHKFLARYPNYPNPAVNNDICLDEVAEELNVE---------------------RRRIYDIVNVLESLHMVSRLAKNRYTWHG E2F-8-1
SRKDKSLRVMSQKFVMLFL----VSTPQIVSLEVAAKILIGEDHVEDLDKSKFKTKIRRLYDIANVLSSLDLIKKVHVTEERGRKPAFKWTG E2F-8-2
EKNGKGLRHFSMKVCEKVQ------RKGTTSYNEVADELVAEFSAADNHILPNESAYDQK-NIRRRVYDALNVLMAMNIISKEKKE-IKWIG Dp-1
DKNGKGLRHFSMKVCEKVQ------RKGTTSYNEVADELVSEFTNSNNH-LAADSAYDQK-NIRRRVYDALNVLMAMNIISKEKKE-IKWIG Dp-2
Aligned RFX sequences (Family 3.3.3): |
TVQWLLDNYETAEGVSLPRSTLYCHYLLHCQEQKL-EPVNAASFGKLIRSVFMGLRTRRLGTRGNSKYHYYGLRIKA RFX1
HLQWLLDNYETAEGVSLPRSSLYNHYLRHCQEHKL-DPVNAASFGKLIRSVFMGLRTRRLGTRGNSKYHYYGIRLKP RFX2
HLQWLLDNYETAEGVSLPRSTLYNHYLRHCQEHKL-DPVNAASFGKLIRSIFMGLRTRRLGTRGNSKYHYYGIRVKP RFX3
TLQWLEENYEIAEGVCIPRSALYMHYLDFCEKNDT-QPVNAASFGKIIRQQFPQLTTRRLGTRGQSKYHYYGIAVKE RFX4
AYRWIRNHLEEHTDTCLPKQSVYDAYRKYCESLACCRPLSTANFGKIIREIFPDIKARRLGGRGQSKYCYSGIRRKT RFX5
TLQWLEENYIVCEGVCLPRCILYAHYLDFCRKEKL-EPACAATFGKTIRQKFPLLTTRRLGTRGHSKYHYYGIGIKE RFX6
AFSWIRNTLEEHPETSLPKQEVYDEYKSYCDNLGY-HPLSAADFGKIMKNVFPNMKARRLGTRGKSKYCYSGLRKKA RFX7
VIQWLVDNFCICEECSVPRCLMYEIYVETCGQNTE-NQVNPATFGKLVRLVFPDLGTRRLGTRGSARYHYDGICIKK RFX8