Myc amino-terminal region; The myc family belongs to the basic helix-loop-helix leucine zipper class of transcription factors, see pfam00010. Myc forms a heterodimer with Max, and this complex regulates cell growth through direct activation of genes involved in cell replication. Mutations in the C-terminal 20 residues of this domain cause unique changes in the induction of apoptosis, transformation, and G2 arrest.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212   10 PGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPPLSPSRAFPEHSPEPS-----NWATEMLLp 84
Cdd:pfam01056   4 SGMISKNYDLDYDSLQPCFYPEEEDFYFSGLQPPAPSEDIWKKFELLPTPPLSPSRRSSLSSPFPStadqlEMVTELLG- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212   85 eADLWG-----NPAEEDAFglgglggltPNPVILQDCMWSGFSAREKLERAVNEKLQHGHGPPGVSSACsaPGVGASSPG 159
Cdd:pfam01056  83 -ADLVNqsficDPDEDDSF---------LKSIIIQDCMWSGFSAAAKLEKVVSEKLASGQAARKEGAAT--LAAGAASSA 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212  160 GRALGGSSSASHTGATLPTDLSHPAAECVDPAVVFPFPVNKRESASVPAAPTSAPATSAAVTSvsvpatapvaapARAGG 239
Cdd:pfam01056 151 GRAHSGSAGGGRSSSGYLQDLSHSASECVDPSVVFPFPLNKREKAPVPPAPSPALALDPPATP------------PRSSG 218

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212  240 RPASSGEAKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNNKAVTTFtitvrpkTSALGLGRAQPGELILK 319
Cdd:pfam01056 219 SSSSSGDSKGLSSSGEDTLSDSDDEEEEEEEEEEEIDVVTVEKRQPSSKRKEVSTL-------TTALGHSRPQHSPLVLK 291

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 162287212  320 RCVPIHQQHNYAAPsPYVESEDaPPQKKIKSEASPRPLKSVVPaKAKSLSP 370
Cdd:pfam01056 292 RCHVIIHQHNYAAP-PSTRSED-PPQKRLKLESSGRVLKQISN-NRKCSSP 339

Myc amino-terminal region; The myc family belongs to the basic helix-loop-helix leucine zipper class of transcription factors, see pfam00010. Myc forms a heterodimer with Max, and this complex regulates cell growth through direct activation of genes involved in cell replication. Mutations in the C-terminal 20 residues of this domain cause unique changes in the induction of apoptosis, transformation, and G2 arrest.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212   10 PGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPPLSPSRAFPEHSPEPS-----NWATEMLLp 84
Cdd:pfam01056   4 SGMISKNYDLDYDSLQPCFYPEEEDFYFSGLQPPAPSEDIWKKFELLPTPPLSPSRRSSLSSPFPStadqlEMVTELLG- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212   85 eADLWG-----NPAEEDAFglgglggltPNPVILQDCMWSGFSAREKLERAVNEKLQHGHGPPGVSSACsaPGVGASSPG 159
Cdd:pfam01056  83 -ADLVNqsficDPDEDDSF---------LKSIIIQDCMWSGFSAAAKLEKVVSEKLASGQAARKEGAAT--LAAGAASSA 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212  160 GRALGGSSSASHTGATLPTDLSHPAAECVDPAVVFPFPVNKRESASVPAAPTSAPATSAAVTSvsvpatapvaapARAGG 239
Cdd:pfam01056 151 GRAHSGSAGGGRSSSGYLQDLSHSASECVDPSVVFPFPLNKREKAPVPPAPSPALALDPPATP------------PRSSG 218

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212  240 RPASSGEAKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNNKAVTTFtitvrpkTSALGLGRAQPGELILK 319
Cdd:pfam01056 219 SSSSSGDSKGLSSSGEDTLSDSDDEEEEEEEEEEEIDVVTVEKRQPSSKRKEVSTL-------TTALGHSRPQHSPLVLK 291

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 162287212  320 RCVPIHQQHNYAAPsPYVESEDaPPQKKIKSEASPRPLKSVVPaKAKSLSP 370
Cdd:pfam01056 292 RCHVIIHQHNYAAP-PSTRSED-PPQKRLKLESSGRVLKQISN-NRKCSSP 339

Helix-loop-helix DNA-binding domain;

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 162287212  380 RRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQ 432
Cdd:pfam00010   1 RREAHNERERRRRDRINDAFDELRELLPTLPPDKKLSKAEILRLAIEYIKHLQ 53

Myc amino-terminal region; The myc family belongs to the basic helix-loop-helix leucine zipper class of transcription factors, see pfam00010. Myc forms a heterodimer with Max, and this complex regulates cell growth through direct activation of genes involved in cell replication. Mutations in the C-terminal 20 residues of this domain cause unique changes in the induction of apoptosis, transformation, and G2 arrest.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212   10 PGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPPLSPSRAFPEHSPEPS-----NWATEMLLp 84
Cdd:pfam01056   4 SGMISKNYDLDYDSLQPCFYPEEEDFYFSGLQPPAPSEDIWKKFELLPTPPLSPSRRSSLSSPFPStadqlEMVTELLG- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212   85 eADLWG-----NPAEEDAFglgglggltPNPVILQDCMWSGFSAREKLERAVNEKLQHGHGPPGVSSACsaPGVGASSPG 159
Cdd:pfam01056  83 -ADLVNqsficDPDEDDSF---------LKSIIIQDCMWSGFSAAAKLEKVVSEKLASGQAARKEGAAT--LAAGAASSA 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212  160 GRALGGSSSASHTGATLPTDLSHPAAECVDPAVVFPFPVNKRESASVPAAPTSAPATSAAVTSvsvpatapvaapARAGG 239
Cdd:pfam01056 151 GRAHSGSAGGGRSSSGYLQDLSHSASECVDPSVVFPFPLNKREKAPVPPAPSPALALDPPATP------------PRSSG 218

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212  240 RPASSGEAKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNNKAVTTFtitvrpkTSALGLGRAQPGELILK 319
Cdd:pfam01056 219 SSSSSGDSKGLSSSGEDTLSDSDDEEEEEEEEEEEIDVVTVEKRQPSSKRKEVSTL-------TTALGHSRPQHSPLVLK 291

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 162287212  320 RCVPIHQQHNYAAPsPYVESEDaPPQKKIKSEASPRPLKSVVPaKAKSLSP 370
Cdd:pfam01056 292 RCHVIIHQHNYAAP-PSTRSED-PPQKRLKLESSGRVLKQISN-NRKCSSP 339

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in the Myc family; The Myc family is a member of the bHLHzip family of transcription factors that play important roles in the control of normal cell proliferation, growth, survival and differentiation. All Myc isoforms contain two independently functioning polypeptide chain regions: N-terminal transactivating residues and a C-terminal bHLHzip segment. The bHLHzip family of bHLH transcription factors are characterized by a highly conserved N-terminal basic region that may bind DNA at a consensus hexanucleotide sequence known as the E-box (CANNTG) followed by HLH and leucine zipper motifs that may interact with other proteins to form homo- and heterodimers. Myc heterodimerizes with Max enabling specific binding to E-box DNA sequences in the promoters of target genes. The Myc proto-oncoprotein family includes at least five different functional members: c-, N-, L-, S- and B-Myc (which is lacking the bHLH domain).

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 162287212 380 RRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKLQARQQQLLKKIEH 458
Cdd:cd11400    1 KRRLHNVLERQRRNDLKNSFEKLRDLVPELADNEKASKVVILKKATEYIKQLQQEEKKLEKEKDKLKARNEQLRKKLER 79

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in c-Myc and similar proteins; c-Myc, also termed Myc proto-oncogene protein, or Class E basic helix-loop-helix protein 39 (bHLHe39), or transcription factor p64, a bHLHZip proto-oncogene protein that functions as a transcription factor, which binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. It activates the transcription of growth-related genes.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 376 EDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKLQARQQQLLKK 455
Cdd:cd11458    1 EENDKRRTHNVLERQRRNELKLSFFALRDQIPEVANNEKAPKVVILKKATEYILSMQADEQRLISEKEQLRRRREQLKHR 80

                 ..
gi 162287212 456 IE 457
Cdd:cd11458   81 LE 82

helix loop helix domain;

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 162287212   385 NILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQANEHQ 437
Cdd:smart00353   1 NARERRRRRKINEAFDELRSLLPTLPKNKKLSKAEILRLAIEYIKSLQEELQK 53

basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. Members of the bHLH superfamily have two highly conserved and functionally distinct regions. The basic part is at the amino end of the bHLH that may bind DNA to a consensus hexanucleotide sequence known as the E box (CANNTG). Different families of bHLH proteins recognize different E-box consensus sequences. At the carboxyl-terminal end of the region is the HLH region that interacts with other proteins to form homo- and heterodimers. bHLH proteins function as a diverse set of regulatory factors because they recognize different DNA sequences and dimerize with different proteins. The bHLH proteins can be divided to cell-type specific and widely expressed proteins. The cell-type specific members of bHLH superfamily are involved in cell-fate determination and act in neurogenesis, cardiogenesis, myogenesis, and hematopoiesis.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 162287212 388 ERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQA 433
Cdd:cd00083    1 ERRRRDKINDAFEELKRLLPELPDSKKLSKASILQKAVEYIRELQS 46

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in MAX gene-associated protein (MGA) family; The MGA family includes MGA, Schizosaccharomyces pombe ESC1 (spESC1) and similar proteins. MGA, also termed MAX dimerization protein 5 (MAD5), is a dual specificity T-box/ bHLHzip transcription factor that regulates the expression of both Max-network and T-box family target genes. It contains a Myc-like bHLHZip motif and requires heterodimerization with Max for binding to the preferred Myc-Max-binding site CACGTG. In addition to the bHLHZip domain, MGA harbors a second DNA-binding domain, the T-box or T-domain. It thus binds the preferred Brachyury-binding sequence and represses transcription of reporter genes containing promoter-proximal Brachyury-binding sites. spESC1 is a bHLHzip protein with homology to human MyoD and Myf-5 myogenic differentiation inducers. It is involved in the sexual differentiation process.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 162287212 381 RRNHNILERQRRNDLRSSFLTLRDHVPeLVKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKLQ 446
Cdd:cd19682    1 RLRHKKRERERRSELRELFDKLKQLLG-LDSDEKASKLAVLTEAIEEIQQLKREEDELQKEKARLT 65

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in sterol regulatory element-binding protein (SREBP) family and similar proteins; The SREBP family includes SREBP1 and SREBP2, which are bHLHzip transcriptional activator of genes encoding proteins essential for cholesterol biosynthesis/uptake and fatty acid biosynthesis. SREBP1 and SREBP2 are principally found in the liver and in adipocytes and made up of an N-terminal transcription factor portion (composed of an activation domain, a bHLHzip domain, and a nuclear localization signal), a hydrophobic region containing two membrane spanning regions, and a C-terminal regulatory segment. They recognize a symmetric sterol regulatory element (TCACNCCAC) instead of E-box. The family also includes Saccharomyces cerevisiae transcription factor HMS1 (also termed high-copy MEP suppressor protein 1) and serine-rich protein TYE7. HMS1 is a putative bHLHzip transcription factor involved in exit from mitosis and pseudohyphal differentiation. TYE7, also termed basic-helix-loop-helix protein SGC1, is a putative bHLHzip transcription activator required for Ty1-mediated glycolytic gene expression. TYE7 N-terminal is extremely rich in serine residues. It binds DNA on E-box motifs, 5'-CANNTG-3'. TYE7 is not essential for growth.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 379 ERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNE---------------KAAKVVILKKATEYVHALQANEHQLLLEKE 443
Cdd:cd11395    2 RKRLPHNAIEKRYRSNLNTKIERLRDAIPSLRSPEgksddgglgglapttKLSKATILTKAIEYIRHLEQENERLEEENE 81

                 ....*
gi 162287212 444 KLQAR 448
Cdd:cd11395   82 ELRQQ 86

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in Max-binding protein Mnt and similar proteins; Mnt, also termed Class D basic helix-loop-helix protein 3 (bHLHd3), or Myc antagonist MNT, or protein ROX, is a bHLHZip transcriptional repressor that binds DNA as a heterodimer with MAX. It binds to the canonical E box sequence 5'-CACGTG-3' and, with higher affinity, to 5'-CACGCG-3'. Mnt has an important role as an antagonist and regulator of Myc activities and it is a potential tumor suppressor. Mnt is ubiquitously expressed. Mnt-deficient mice shown to exhibit early postnatal lethality.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 162287212 381 RRNHNILERQRRNDLRSSFLTLRDHVPELvKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKLQARQQQLLKKI 456
Cdd:cd11402    3 REVHNKLEKNRRAHLKECFETLKRQIPNL-DDKKTSNLNILRSALRYIQILKRKEKEYEHEMERLAREKIALQQRL 77

basic helix-loop-helix (bHLH) domain found in factor in the germline alpha (FIGLA) and similar proteins; FIGLA, also termed FIGalpha, or Class C basic helix-loop-helix protein 8 (bHLHc8), or folliculogenesis-specific basic helix-loop-helix protein, or transcription factor FIGa, is a germ-cell-specific bHLH transcription factor expressed abundantly in female and less so in male germ cells. It is essential for primordial follicle formation and expression of many genes required for folliculogenesis, fertilization and early embryonic survival. FIGLA knockout mice cannot form primordial follicles and lose oocytes rapidly after birth, whereas male gonads are unaffected.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 162287212 381 RRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQA 433
Cdd:cd11422    1 RRVANARERERVRNLNSGFSKLRRIVPLIPRDRKPSKVDTLKGATEYIRLLQR 53

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in MLX-interacting protein (MLXIP), MLX-interacting protein-like (MLXIPL) and similar proteins; The family includes MLXIP and MLXIPL. MLXIP, also termed Class E basic helix-loop-helix protein 36 (bHLHe36), or transcriptional activator MondoA, is a bHLHZip transcriptional activator that binds DNA as a heterodimer with Mlx. It binds to the canonical E box sequence 5'-CACGTG-3' and plays a role in transcriptional activation of glycolytic target genes. MLXIP is most highly expressed in skeletal muscle and functions as an indirect glucose sensor, by sensing glucose 6-phosphate and shuttling between the nucleus and the cytoplasm. MLXIPL, also termed carbohydrate-responsive element-binding protein (ChREBP), or Class D basic helix-loop-helix protein 14 (bHLHd14), or MLX interactor, or WS basic-helix-loop-helix leucine zipper protein (WS-bHLH), or Williams-Beuren syndrome chromosomal region 14 protein (WBSCR14), is a bHLHZip transcriptional factor integral to the regulation of glycolysis and lipogenesis in the liver. It forms heterodimers with the bHLHZip protein Mlx to bind the DNA sequence 5'-CACGTG-3'.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 162287212 380 RRRNHNILERQRRNDLRSSFLTLRDHVPELV--KNEKAAKVVILKKATEYVHALQAnehqlllEKEKLQARQQQLLKKI 456
Cdd:cd11405    3 RRLSHISAEQKRRFNIKSGFDTLQSLIPSLGqnPNQKVSKAAMLQKAAEYIKSLKR-------ERQQMQEEAEQLRQEI 74

basic helix-loop-helix (bHLH) domain found in achaete-scute-like protein 1 (ASCL-1) and similar proteins; ASCL-1, also termed Class A basic helix-loop-helix protein 46 (bHLHa46), or achaete-scute homolog 1 (ASH-1), or mammalian achaete scute homolog 1 (Mash1), is a neural-specific bHLH transcription factor that is expressed in subsets of neural progenitors in both the central and peripheral nervous system. It plays a key role in neuronal differentiation and specification in the nervous system.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 381 RRNHNilERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQanehQLLLEKEKLQARQQ 450
Cdd:cd19742    8 RRNER--ERNRVKLVNMGFATLREHVPNGAANKKMSKVETLRSAVEYIRALQ----QLLDEHDAVSAAFQ 71

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in sterol regulatory element-binding protein 2 (SREBP2) and similar proteins; SREBP2, also termed Class D basic helix-loop-helix protein 2 (bHLHd2), or sterol regulatory element-binding transcription factor 2 (SREBF2), is a member of a family of bHLHzip transcription factors that recognize sterol regulatory element 1 (SRE-1). It acts as a transcription activator of cholesterol biosynthesis.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 162287212 377 DSERRRNHNILERQRRNDLRSSFLTLRDHVpeLVKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKLQARQQQ 451
Cdd:cd18922    3 EGERRTTHNIIEKRYRSSINDKIIELKDLV--MGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMALKLANQK 75

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana OBP3-responsive gene 2 (ORG2), 3 (ORG3) and similar proteins; The family includes ORG2 (also termed AtbHLH38, or EN 8) and ORG3 (also termed AtbHLH39, or EN 9), both of which act as bHLH transcription factors.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 380 RRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQANehqllleKEKLQARQQQLLKKIEHA 459
Cdd:cd18914    1 KKLLHNDVERQRRQEMASLFSSLRSLLPLQYIKGKLSVSDHVDEAVNYIKELQEK-------IKELSEKRDELLKLISGV 73

                 .
gi 162287212 460 R 460
Cdd:cd18914   74 R 74

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana Fe-deficiency induced transcription factor 1 (FIT) and similar proteins; The family includes bHLH transcription factors from Arabidopsis thaliana, such as FIT and DYT1. FIT, also termed FER-like iron deficiency-induced transcription factor, or FER-like regulator of iron uptake, or AtbHLH29, or EN 43, is a bHLH transcription factor that is required for the iron deficiency response in plant. It regulates FRO2 at the level of mRNA accumulation and IRT1 at the level of protein accumulation. DYT1, also termed AtbHLH22, or protein dysfunctional tapetum 1, or EN 49, is a bHLH transcription factor involved in the control of tapetum development. It is required for male fertility and pollen differentiation, especially during callose deposition.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 162287212 386 ILERQRRNDLRSSFLTLRDHVPELVKNEKAAkvvILKKATEYVHALQANEHQLLLEKEKLQARQQQLL 453
Cdd:cd11450    9 VSERNRRQKLNQRLFALRSVVPNITKMDKAS---IIKDAISYIQELQYQEKKLEAEIRELESRPPSTL 73

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in Max-associated protein 3 (Mad3) and similar proteins; Mad3, also termed Max dimerization protein 3, or Max dimerizer 3 (MXD3), or Class C basic helix-loop-helix protein 13 (bHLHc13), or Max-interacting transcriptional repressor MAD3, or Myx, is a bHLHZip Max-interacting transcriptional repressor that plays an important role in cellular proliferation. It suppresses c-myc dependent transformation and is expressed during neural and epidermal differentiation.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 162287212 381 RRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKLQARQQQLLKKIE 457
Cdd:cd18932    7 RSVHNELEKHRRAQLRRCLEQLKQQVPLGADCSRYTTLSLLRRARLHIQKLEEQEQRAQQLKERLRWEQQKLRRRLE 83

basic Helix-Loop-Helix (bHLH) domain found in Arabidopsis thaliana MYC1 and similar proteins; MYC1, also termed AtbHLH12, or EN 58, acts as a transcription activator, when associated with MYB75/PAP1 or MYB90/PAP2.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 162287212 384 HNILERQRRNDLRSSFLTLRDHVPELVKNEKAAkvvILKKATEYVHALQA--NEHQLLLEKEKLQARQQ 450
Cdd:cd18918    1 LFATERERREKLNEKFSDLRNLIPNPTKNDRAS---ILSDAIKYINELQRtvEELKSLVEKKRCGERDR 66

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein ABA-INDUCIBLE bHLH-TYPE (AIB) and similar proteins; The family includes several bHLH transcription factors from Arabidopsis thaliana, such as AIB and MYC proteins (MYC2, MYC3 and MYC4). AIB, also termed AtbHLH17, or EN 35, is a transcription activator that regulates positively abscisic acid (ABA) response. MYC2, also termed protein jasmonate insensitive 1, or R-homologous Arabidopsis protein 1 (RAP-1), or AtbHLH6, or EN 38, or Z-box binding factor 1 protein, is a transcriptional activator involved in abscisic acid (ABA), jasmonic acid (JA), and light signaling pathways. MYC3, also termed protein altered tryptophan regulation 2, or AtbHLH5, or transcription factor ATR2, or EN 36, is a transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. MYC4, also termed AtbHLH4, or EN 37, is a transcription factor involved in jasmonic acid (JA) gene regulation. MYC2, together with MYC3 and MYC4, controls additively subsets of JA-dependent responses.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 162287212 383 NHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAkvvILKKATEYVHALQANEHQLLLEKEKLQARQQQLLK 454
Cdd:cd11449    8 NHVEAERQRREKLNQRFYALRAVVPNVSKMDKAS---LLGDAISYINELKSKVQDMETEKKEMKRQESEKKT 76

basic helix-loop-helix (bHLH) domain found in achaete-scute-like proteins, ASCL3-5, and similar proteins; This subfamily includes three ASCL family of transcription factors, ASCL-3, ASCL-4 and ASCL-5. ASCL-3, also termed Class A basic helix-loop-helix protein 42 (bHLHa42), or bHLH transcriptional regulator Sgn-1, or achaete-scute homolog 3 (ASH-3), is specifically localized in the duct cells of the salivary glands. It may act as transcriptional repressor that inhibits myogenesis. ASCL-4, also termed Class A basic helix-loop-helix protein 44 (bHLHa44), or achaete-scute homolog 4 (ASH-4), or Hash4, may be involved in skin development. ASCL-5, also termed Class A basic helix-loop-helix protein 47 (bHLHa47), or achaete-scute homolog 5 (ASH-5), is an uncharacterized bHLH transcription factor that is close related to ASCL-3 and ASCL-4.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 162287212 380 RRRNHNilERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQA 433
Cdd:cd19724    3 RKRNER--ERQRVRCVNEGYARLRRHLPLENKDKRLSKVETLRAAIRYIKHLQE 54

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription factors and similar proteins; bHLH proteins are the second largest class of plant transcription factors that regulate transcription of genes that are involve in many essential physiological and developmental process. bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. The Arabidopsis bHLH proteins that have been characterized so far have roles in regulation of fruit dehiscence, cell development (carpel, anther and epidermal), phytochrome signaling, flavonoid biosynthesis, hormone signaling and stress responses.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 162287212 384 HNILERQRRNDLRSSFLTLRDHVPELVKNEKAAkvvILKKATEYVHALQ 432
Cdd:cd11393    1 HSIAERKRREKINERIRALRSLVPNGGKTDKAS---ILDEAIEYIKFLQ 46

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in MAX gene-associated protein (MGA) and similar proteins; MGA, also termed MAX dimerization protein 5 (MAD5), is a dual specificity T-box/ bHLHzip transcription factor that regulates the expression of both Max-network and T-box family target genes. It contains a Myc-like bHLHZip motif and requires heterodimerization with Max for binding to the preferred Myc-Max-binding site CACGTG. In addition to the bHLHZip domain, MGA harbors a second DNA-binding domain, the T-box or T-domain. It thus binds the preferred Brachyury-binding sequence and represses transcription of reporter genes containing promoter-proximal Brachyury-binding sites.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 162287212 381 RRNHNILERQRRNDLRSSFLTLRdHVPELVKNEKAAKVVILKKATEYVHALQANEHQLLLEKEKL 445
Cdd:cd18911    1 RRTHTANERRRRNEMRDLFEKLK-RTLGLHNLPKVSKYYILKQAFEEIQGLTDQADRLIGQKTLL 64

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in upstream stimulatory factor 2 (USF2) and similar proteins; USF2, also termed Class B basic helix-loop-helix protein 12 (bHLHb12), or major late transcription factor 2, or FOS-interacting protein (FIP), or upstream transcription factor 2, is a bHLHzip transcription factor that binds to a symmetrical DNA sequence (E-boxes) (5'-CACGTG-3') that is found in a variety of viral and cellular promoters.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 369 SPRnsdseDSERRRNHNILERQRRNDLRSSFLTLRDHVPEL-VKNEK--AAKVVILKKATEYVHAL-QANE--HQLLLEK 442
Cdd:cd18923    2 TPR-----DERRRAQHNEVERRRRDKINNWIVQLSKIIPDCnTDNSKtgASKGGILSKACDYIRELrQTNQrmQETYKEA 76

                 ....
gi 162287212 443 EKLQ 446
Cdd:cd18923   77 ERLQ 80

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in microphthalmia-associated transcription factor (MITF) and similar proteins; MITF, also termed Class E basic helix-loop-helix protein 32 (bHLHe32), is a bHLHzip transcription factor that is involved in neural crest melanocytes development as well as the pigmented retinal epithelium. It regulates the expression of genes with essential roles in cell differentiation, proliferation and survival. It binds to M-boxes (5'-TCATGTG-3') and symmetrical DNA sequences (E-boxes) (5'-CACGTG-3') found in the promoters of target genes, such as BCL2 and tyrosinase (TYR).

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 375 SEDSERRRNHNILERQRR---NDLRSSFLTL--RDHVPELVKNekaaKVVILKKATEYVHALQANEHQllleKEKLQARQ 449
Cdd:cd18926    8 AKERQKKDNHNLIERRRRfniNDRIKELGTLipKSNDPDMRWN----KGTILKASVDYIRKLQREQQR----AKELENRQ 79

                         90
                 ....*....|
gi 162287212 450 qqllKKIEHA 459
Cdd:cd18926   80 ----KKLEHA 85

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in sterol regulatory element-binding protein 1 (SREBP1) and similar proteins; SREBP1, also termed Class D basic helix-loop-helix protein 1 (bHLHd1), or sterol regulatory element-binding transcription factor 1 (SREBF1), is a member of a family of bHLHzip transcription factors that recognize sterol regulatory element 1 (SRE-1). It acts as a transcriptional activator required for lipid homeostasis. It may control transcription of the low-density lipoprotein receptor gene as well as the fatty acid. SREBP1 has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA-3') and to SRE-1 (5'-ATCACCCCAC-3').

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 162287212 379 ERRRNHNILERQRRNDLRSSFLTLRDHVpelVKNE-KAAKVVILKKATEYVHALQANEHQLLLEKEKLQARQQQ 451
Cdd:cd18921    5 EKRTAHNAIEKRYRSSINDKIIELKDLV---VGTEaKLNKSAVLRKAIDYIRFLQQSNQKLKQENMALKMAVQK 75

basic helix-loop-helix (bHLH) domain found in muscle, intestine and stomach expression 1 (MIST-1) and similar proteins; MIST-1, also termed Class A basic helix-loop-helix protein 15 (bHLHa15), or Class B basic helix-loop-helix protein 8 (bHLHb8), is a bHLH transcription factor expressed in pancreatic acinar cells and other serous exocrine cells. It is essential for cytoskeletal organization and secretory activity. It also functions as a potent endoplasmic reticulum (ER) stress-inducible transcriptional regulator. MIST-1 is capable of binding to E-box (CANNTG) motifs as a homodimer or a heterodimer with E-proteins (E12 and E47) to regulate transcription.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 162287212 380 RRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQA 433
Cdd:cd19711    1 RRLESNERERQRMHKLNNAFQALREVIPHVRAEKKLSKIETLTLAKNYIKSLTT 54

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in upstream stimulatory factor 1 (USF1) and similar proteins; USF1, also termed Class B basic helix-loop-helix protein 11 (bHLHb11), or major late transcription factor 1, is a bHLHzip transcription factor that binds to a symmetrical DNA sequence (E-boxes) (5'-CACGTG-3') that is found in a variety of viral and cellular promoters. It is ubiquitously expressed and involved in the transcription activation of various functional genes implicated in lipid and glucose metabolism, stress response, immune response, cell cycle control and tumour suppression. USF-1 recruits chromatin remodeling enzymes and interact with co-activators and the members of the transcription pre-initiation complex. Genetic polymorphisms of USF1 are associated with some metabolic and cardiovascular diseases, like diabetes, atherosclerosis, coronary artery calcifications and familial combined hyperlipidaemia (FCHL).

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 162287212 377 DSERRRNHNILERQRRNDLRSSFLTLRDHVPEL-VKNEKA--AKVVILKKATEYVHALQANEHQ 437
Cdd:cd18924    2 DEKRRAQHNEVERRRRDKINNWIVQLSKIIPDCsMESTKSgqSKGGILSKACDYIQELRQSNHR 65

basic helix-loop-helix (bHLH) domain found in protein atonal homolog 8 (ATOH8) and similar proteins; ATOH8, also termed Class A basic helix-loop-helix protein 21 (bHLHa21), or helix-loop-helix protein hATH-6 (hATH6), is a bHLH shear-stress-responsive transcription factor expressed in activated satellite cells and proliferating myoblasts of human skeletal muscle tissue. It regulates endothelial cell proliferation, migration and tube-like structures formation. ATOH8 binds a palindromic (canonical) core consensus DNA sequence 5'-CANNTG- 3' known as an E-box element, possibly as a heterodimer with other bHLH proteins.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 162287212 379 ERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHAL 431
Cdd:cd11421    7 QRRIEANARERTRVHTISAAFEALRKAVPSYSYNQKLSKLAILRIACSYILAL 59

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in USF/MITF family; The USF (upstream stimulatory factor)/MITF (microphthalmia-associated transcription factor) family includes two bHLHzip transcription factor subfamilies. USFs are ubiquitously expressed and key regulators of a wide number of gene regulation networks, including the stress and immune responses, cell cycle and proliferation, lipid and glucid metabolism. USFs recruit chromatin remodeling enzymes and interact with co-activators and the members of the transcription pre-initiation complex. USFs interact with high affinity to E-box regulatory elements. The MITF (also known as microphthalmia-TFE, or MiT) subfamily comprises four genes in mammals (MITF, TFE3, TFEB, and TFEC); each gene has different functions. MITF is involved in neural crest melanocytes development as well as the pigmented retinal epithelium. TFEB is required for vascularization of the mouse placenta. TFE3 is involved in B cell function. TFEC regulates gene expression in macrophages. The MITF subfamily proteins can form homodimers or heterodimers with each other but not with other bHLH or bHLHzip proteins.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 162287212 383 NHNILERQRRNDLRSSFLTLRDHVPEL---VKNEKAAKVVILKKATEYVHALQ 432
Cdd:cd11387    1 SHNAVERRRRDNINEKIQELGSLVPPSrleTKDLKPNKGSILSKAVEYIRELQ 53

basic helix-loop-helix (bHLH) domain found in Drosophila melanogaster protein Amos and similar proteins; Amos, also termed absent MD neurons and olfactory sensilla protein, or reduced olfactory organs protein, or rough eye protein, is a bHLH transcription factor that promotes multiple dendritic neuron formation in the Drosophila peripheral nervous system.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 162287212 380 RRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHAL 431
Cdd:cd19715    8 RRLAANARERRRMNSLNVAFDKLRDVVPSLGDDRKLSKYETLQMAQSYITAL 59

basic Helix-Loop-Helix (bHLH) domain found in Saccharomyces cerevisiae INO4 and similar proteins; INO4 is a bHLH transcriptional activator of phospholipid synthetic genes (such as INO1, CHO1/PSS, CHO2/PEM1, OPI3/PEM2, etc.). It is required for de-repression of phospholipid biosynthetic gene expression in response to inositol deprivation in yeast. INO4 dimerizes with INO2 and binds to an UAS DNA element to control expression of the genes whose expression is inositol-responsive.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162287212 379 ERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQanehqllleKEKLQARQQQLLKKIEH 458
Cdd:cd11403    1 QKKENHISSEHKRREAIREGFDRLCAIVPALSSSQSRSEAVVYVKTVEYLKELY---------ERRAKLRSQLRSKGVEI 71

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in the microphthalmia-associated transcription factor family (MITF) family; The MITF (also known as microphthalmia-TFE, or MiT) family is a small family that contain a basic helix loop helix domain associated with a leucine zipper (bHLHZip). The MITF family comprises four genes in mammals (MITF, TFE3, TFEB, and TFEC); each gene has different functions. MITF is involved in neural crest melanocytes development as well as the pigmented retinal epithelium. TFEB is required for vascularization of the mouse placenta. TFE3 is involved in B cell function. TFEC regulates gene expression in macrophages. The MITF family can form homodimers or heterodimers with each other but not with other bHLH or bHLHzip proteins.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 162287212 377 DSERRRNHNILERQRR---NDLRSSFLTL--RDHVPELVKNekaaKVVILKKATEYVHALQaNEHQLLLEKEK 444
Cdd:cd11397    2 DRQKKDNHNMIERRRRfniNDRIKELGTLlpKSNDPDMRWN----KGTILKASVDYIRKLQ-KEQERLRQLEE 69

basic helix-loop-helix (bHLH) domain found in twist-related protein 1 (TWIST1) and similar proteins; TWIST1, also termed Class A basic helix-loop-helix protein 38 (bHLHa38), or H-twist, is a bHLH transcriptional regulator that inhibits myogenesis by sequestrating E proteins, inhibiting trans-activation by MEF2, and inhibiting DNA-binding by MYOD1 through physical interaction. It also represses expression of proinflammatory cytokines such as TNFA and IL1B. In addition, TWIST1 is involved in cancer development and progression.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 162287212 369 SPRnSDSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELvKNEKAAKVVILKKATEYV----HALQANE 435
Cdd:cd11412    2 SPQ-SFEELQTQRVMANVRERQRTQSLNEAFAALRKIIPTL-PSDKLSKIQTLKLAARYIdflyQVLQSDE 70

basic helix-loop-helix (bHLH) domain found in transcription factor E47 and similar proteins; E47 is a class I bHLH transcriptional regulator that forms heterodimers with class II bHLH proteins to regulate distinct differentiation pathways. Its homodimers regulate B lymphocytes development.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 162287212 374 DSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKA-AKVVILKKATEYVHAL--QANEHQL 438
Cdd:cd18943    4 DLRDRERRMANNARERVRVRDINEAFKELGRMCQMHLKSDKAqTKLIILQQAVQVILGLeqQVRERNL 71

basic helix-loop-helix (bHLH) domain found in heart- and neural crest derivatives-expressed protein (HAND) family; The HAND family includes two bHLH transcription factors, HAND1 and HAND2. HAND1, also termed Class A basic helix-loop-helix protein 27 (bHLHa27), or extraembryonic tissues, heart, autonomic nervous system and neural crest derivatives-expressed protein 1 (eHAND), plays an essential role in both trophoblast-giant cells differentiation and in cardiac morphogenesis. HAND2, also termed Class A basic helix-loop-helix protein 26 (bHLHa26), or deciduum, heart, autonomic nervous system and neural crest derivatives-expressed protein 2 (dHAND), is essential for cardiac morphogenesis, particularly for the formation of the right ventricle and of the aortic arch arteries.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 162287212 380 RRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHAL 431
Cdd:cd11466    1 RRGSANKKERRRTQSINSAFADLRECIPNVPADTKLSKIKTLRLATSYIAYL 52

basic helix-loop-helix (bHLH) domain found in neurogenic differentiation factor (NeuroD) family; The NeuroD family includes NeuroD1, NeuroD2, NeuroD4 and NeuroD6. NeuroD1, also termed Class A basic helix-loop-helix protein 3 (bHLHa3), is a neuronal bHLH transcription factor involved in the development and maintenance of the endocrine pancreas and neuronal elements. It acts as an essential regulator of glutamatergic neuronal differentiation. Loss of NeuroD1 causes ataxia, cerebellar hypoplasia, sensorineural deafness, and severe retinal dystrophy in mice. NeuroD2, also termed Class A basic helix-loop-helix protein 1 (bHLHa1), or NeuroD-related factor (NDRF), is a neuronal calcium-dependent bHLH transcription factor that induces neuronal differentiation and promotes neuronal survival. It plays a central role in thalamocortical synaptic maturation. NeuroD2 mediates calcium-dependent transcription activation by binding to E box-containing promoter. NeuroD4, also termed Class A basic helix-loop-helix protein 4 (bHLHa4), or protein atonal homolog 3 (ATH-3), or Atoh3, or Math-3, is a bHLH transcriptional activator that mediates neuronal differentiation. NeuroD6, also termed Class A basic helix-loop-helix protein 2 (bHLHa2), or protein atonal homolog 2 (ATH-2), or Atoh2, or Math2, or Nex1, is a neurogenic bHLH transcription factor involved in neuronal development, differentiation, and survival in Alzheimer's disease (AD) brains of both cohorts. It plays an integrative role in coordinating increase in mitochondrial mass with cytoskeletal remodeling, suggesting that it may act as a co-regulator of neuronal differentiation and energy metabolism.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 162287212 385 NILERQRRNDLRSSFLTLRDHVPELVKNEKAAKVVILKKATEYVHALQ 432
Cdd:cd11427    5 NARERNRMHGLNDALDNLRKVVPCYSKTQKLSKIETLRLARNYIWALS 52