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Conserved domains on  [gi|1958752878|ref|XP_038959134|]
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myocyte-specific enhancer factor 2D isoform X5 [Rattus norvegicus]

Protein Classification

myocyte-specific enhancer factor 2( domain architecture ID 13416751)

myocyte-specific enhancer factor 2 (MEF2) is a MADS (MCM1, AGAMOUS, DEFICIENS, and SRF, serum response factor) domain transcription factor, such as Rattus norvegicus MEF2D, a transcription activator which binds specifically to the MEF2 element present in the regulatory regions of many muscle-specific genes

CATH:  3.40.1810.10
Gene Ontology:  GO:0003700|GO:0046983
PubMed:  8875863|29802068|12949148
SCOP:  4001594

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MADS_MEF2_like cd00265
MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, ...
 2-78 3.86e-39

MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.


:

Pssm-ID: 238165 [Multi-domain]  Cd Length: 77  Bit Score: 136.53  E-value: 3.86e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958752878   2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDMDKVLLKYTEYNEPHES 78
Cdd:cd00265     1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSLW 77
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 96-153 1.29e-13

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


:

Pssm-ID: 463543  Cd Length: 63  Bit Score: 65.45  E-value: 1.29e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958752878  96 ESPEVDEA---FALTPQTEEKYKKIDEEFDKMMQSYRLASSVPAPNFAMPVTVPVSNQSSM 153
Cdd:pfam12347   3 ISPVKAISrprTELPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYRAG 63
ARG80 super family cl34888
Regulator of arginine metabolism and related MADS box-containing transcription factors ...
 1-345 2.33e-12

Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription];


The actual alignment was detected with superfamily member COG5068:

Pssm-ID: 227400 [Multi-domain]  Cd Length: 412  Bit Score: 68.50  E-value: 2.33e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878   1 MGRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDMDKV--------------L 66
Cdd:COG5068    81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVvkslegksliqspcS 160

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878  67 LKYTEYNEPHESRTNADIIEALHKKHRECESPEVDEAFALTPQTEEKYKKIDEEFDKMMQSYRLASS--VPAPNFAMpvt 144
Cdd:COG5068   161 NAPSDSSEEPSSSASFSVDPNDNNPMGSFQHNGSPQTNFIPLQNPQTQQYQQHSSRKDHPTVPHSNTnnGRPPAKFM--- 237

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878 145 VPVSNQssmqfSNPSSSLVTPSLVTSSLTDPRLLS--PQQPALQrNSVSPGLPQRPasagamlggdlnsanGACPSPVGN 222
Cdd:COG5068   238 IPELHS-----SHSTLDLPSDFISDSGFPNQSSTSifPLDSAII-QITPPHLPNNP---------------PQENRHELY 296

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878 223 GYVSARASPGLLPVANGNGLNKVIPAKSPPPPThntqlgapSRKPDLRVitsqggkglmHHLNNAQRLGVSQSTHSLTTP 302
Cdd:COG5068   297 SNDSSMVSETPPPKNLPNGSPNQSPLNNLSRGN--------PASPNSII----------RENNQVEDESFNGRQGSAIWN 358

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1958752878 303 VVSVATPSLLSQGLPFSSMPTAYNTDYQLP--SAELSSLPAFSSP 345
Cdd:COG5068   359 ALISTTQPNSGLHTEASTAPSSTIPADPLKnaAQTNSGTRNNNFS 403
 
Name Accession Description Interval E-value
MADS_MEF2_like cd00265
MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, ...
 2-78 3.86e-39

MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.


Pssm-ID: 238165 [Multi-domain]  Cd Length: 77  Bit Score: 136.53  E-value: 3.86e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958752878   2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDMDKVLLKYTEYNEPHES 78
Cdd:cd00265     1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSLW 77
MADS smart00432
MADS domain;
2-60 4.14e-32

MADS domain;


Pssm-ID: 197721 [Multi-domain]  Cd Length: 59  Bit Score: 117.27  E-value: 4.14e-32
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1958752878    2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYAST 60
Cdd:smart00432   1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59
SRF-TF pfam00319
SRF-type transcription factor (DNA-binding and dimerization domain);
10-57 1.27e-24

SRF-type transcription factor (DNA-binding and dimerization domain);


Pssm-ID: 459760 [Multi-domain]  Cd Length: 48  Bit Score: 95.96  E-value: 1.27e-24
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1958752878  10 RITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQY 57
Cdd:pfam00319   1 RIENKRARQVTFSKRRKGLFKKASELSVLCGAEVAVIVFSPTGKLYTF 48
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 96-153 1.29e-13

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


Pssm-ID: 463543  Cd Length: 63  Bit Score: 65.45  E-value: 1.29e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958752878  96 ESPEVDEA---FALTPQTEEKYKKIDEEFDKMMQSYRLASSVPAPNFAMPVTVPVSNQSSM 153
Cdd:pfam12347   3 ISPVKAISrprTELPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYRAG 63
ARG80 COG5068
Regulator of arginine metabolism and related MADS box-containing transcription factors ...
 1-345 2.33e-12

Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription];


Pssm-ID: 227400 [Multi-domain]  Cd Length: 412  Bit Score: 68.50  E-value: 2.33e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878   1 MGRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDMDKV--------------L 66
Cdd:COG5068    81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVvkslegksliqspcS 160

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878  67 LKYTEYNEPHESRTNADIIEALHKKHRECESPEVDEAFALTPQTEEKYKKIDEEFDKMMQSYRLASS--VPAPNFAMpvt 144
Cdd:COG5068   161 NAPSDSSEEPSSSASFSVDPNDNNPMGSFQHNGSPQTNFIPLQNPQTQQYQQHSSRKDHPTVPHSNTnnGRPPAKFM--- 237

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878 145 VPVSNQssmqfSNPSSSLVTPSLVTSSLTDPRLLS--PQQPALQrNSVSPGLPQRPasagamlggdlnsanGACPSPVGN 222
Cdd:COG5068   238 IPELHS-----SHSTLDLPSDFISDSGFPNQSSTSifPLDSAII-QITPPHLPNNP---------------PQENRHELY 296

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878 223 GYVSARASPGLLPVANGNGLNKVIPAKSPPPPThntqlgapSRKPDLRVitsqggkglmHHLNNAQRLGVSQSTHSLTTP 302
Cdd:COG5068   297 SNDSSMVSETPPPKNLPNGSPNQSPLNNLSRGN--------PASPNSII----------RENNQVEDESFNGRQGSAIWN 358

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1958752878 303 VVSVATPSLLSQGLPFSSMPTAYNTDYQLP--SAELSSLPAFSSP 345
Cdd:COG5068   359 ALISTTQPNSGLHTEASTAPSSTIPADPLKnaAQTNSGTRNNNFS 403
 
Name Accession Description Interval E-value
MADS_MEF2_like cd00265
MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, ...
 2-78 3.86e-39

MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.


Pssm-ID: 238165 [Multi-domain]  Cd Length: 77  Bit Score: 136.53  E-value: 3.86e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958752878   2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDMDKVLLKYTEYNEPHES 78
Cdd:cd00265     1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSLW 77
MADS smart00432
MADS domain;
2-60 4.14e-32

MADS domain;


Pssm-ID: 197721 [Multi-domain]  Cd Length: 59  Bit Score: 117.27  E-value: 4.14e-32
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1958752878    2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYAST 60
Cdd:smart00432   1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59
MADS cd00120
MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic ...
 2-60 4.26e-29

MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.


Pssm-ID: 238067 [Multi-domain]  Cd Length: 59  Bit Score: 108.76  E-value: 4.26e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1958752878   2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYAST 60
Cdd:cd00120     1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59
MADS_SRF_like cd00266
SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) ...
 2-83 1.69e-25

SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.


Pssm-ID: 238166 [Multi-domain]  Cd Length: 83  Bit Score: 99.64  E-value: 1.69e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878   2 GRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDM-DKVLLKYTEYNEPHESRT 80
Cdd:cd00266     1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEvEGVISRFEVLSALERKKK 80


                  ...
gi 1958752878  81 NAD 83
Cdd:cd00266    81 AVD 83
SRF-TF pfam00319
SRF-type transcription factor (DNA-binding and dimerization domain);
10-57 1.27e-24

SRF-type transcription factor (DNA-binding and dimerization domain);


Pssm-ID: 459760 [Multi-domain]  Cd Length: 48  Bit Score: 95.96  E-value: 1.27e-24
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1958752878  10 RITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQY 57
Cdd:pfam00319   1 RIENKRARQVTFSKRRKGLFKKASELSVLCGAEVAVIVFSPTGKLYTF 48
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 96-153 1.29e-13

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


Pssm-ID: 463543  Cd Length: 63  Bit Score: 65.45  E-value: 1.29e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958752878  96 ESPEVDEA---FALTPQTEEKYKKIDEEFDKMMQSYRLASSVPAPNFAMPVTVPVSNQSSM 153
Cdd:pfam12347   3 ISPVKAISrprTELPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYRAG 63
ARG80 COG5068
Regulator of arginine metabolism and related MADS box-containing transcription factors ...
 1-345 2.33e-12

Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription];


Pssm-ID: 227400 [Multi-domain]  Cd Length: 412  Bit Score: 68.50  E-value: 2.33e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878   1 MGRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYASTDMDKV--------------L 66
Cdd:COG5068    81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVvkslegksliqspcS 160

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878  67 LKYTEYNEPHESRTNADIIEALHKKHRECESPEVDEAFALTPQTEEKYKKIDEEFDKMMQSYRLASS--VPAPNFAMpvt 144
Cdd:COG5068   161 NAPSDSSEEPSSSASFSVDPNDNNPMGSFQHNGSPQTNFIPLQNPQTQQYQQHSSRKDHPTVPHSNTnnGRPPAKFM--- 237

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878 145 VPVSNQssmqfSNPSSSLVTPSLVTSSLTDPRLLS--PQQPALQrNSVSPGLPQRPasagamlggdlnsanGACPSPVGN 222
Cdd:COG5068   238 IPELHS-----SHSTLDLPSDFISDSGFPNQSSTSifPLDSAII-QITPPHLPNNP---------------PQENRHELY 296

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958752878 223 GYVSARASPGLLPVANGNGLNKVIPAKSPPPPThntqlgapSRKPDLRVitsqggkglmHHLNNAQRLGVSQSTHSLTTP 302
Cdd:COG5068   297 SNDSSMVSETPPPKNLPNGSPNQSPLNNLSRGN--------PASPNSII----------RENNQVEDESFNGRQGSAIWN 358

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1958752878 303 VVSVATPSLLSQGLPFSSMPTAYNTDYQLP--SAELSSLPAFSSP 345
Cdd:COG5068   359 ALISTTQPNSGLHTEASTAPSSTIPADPLKnaAQTNSGTRNNNFS 403
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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