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Conserved domains on  [gi|1863413327|ref|XP_035022789|]
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myocyte enhancer factor 2cb isoform X9 [Hippoglossus stenolepis]

Protein Classification

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 9.73e-40

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: 137.68  E-value: 9.73e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1863413327   2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDMDKVLLKYTEYNEPHES 78
Cdd:cd00265     1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSLW 77
HJURP_C super family cl13744
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 107-152 8.85e-10

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.


The actual alignment was detected with superfamily member pfam12347:

Pssm-ID: 463543  Cd Length: 63  Bit Score: 54.66  E-value: 8.85e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1863413327 107 LTPRTEEKYKQINEEFDHMIKTHKIPQAVPPSSYDMPVSIPVSNQN 152
Cdd:pfam12347  16 LPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYR 61
ARG80 super family cl34888
Regulator of arginine metabolism and related MADS box-containing transcription factors ...
 1-268 5.56e-09

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: 58.10  E-value: 5.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327   1 MGRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDMDKVllkyteynePHESRT 80
Cdd:COG5068    81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESV---------VKSLEG 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327  81 NSDIVEALSKKENKGGESPELESALILTPrTEEKYKQINEEFDHMIKTHKIPQAVPPSSYD----MPVSIPVSNQNNLIY 156
Cdd:COG5068   152 KSLIQSPCSNAPSDSSEEPSSSASFSVDP-NDNNPMGSFQHNGSPQTNFIPLQNPQTQQYQqhssRKDHPTVPHSNTNNG 230

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327 157 SHPGGSLGNHnllplahhglQRNSMSPGVTHRPPSAGNtcGLMGADLTTGagtSAGNGYGNHRNSPGLLVSPGGMNKNMQ 236
Cdd:COG5068   231 RPPAKFMIPE----------LHSSHSTLDLPSDFISDS--GFPNQSSTSI---FPLDSAIIQITPPHLPNNPPQENRHEL 295

                         250       260       270
                  ....*....|....*....|....*....|..
gi 1863413327 237 AKSPPPMNLGMNNRKPDLRVLIPPGAKNNMPS 268
Cdd:COG5068   296 YSNDSSMVSETPPPKNLPNGSPNQSPLNNLSR 327
 
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 9.73e-40

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: 137.68  E-value: 9.73e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1863413327   2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDMDKVLLKYTEYNEPHES 78
Cdd:cd00265     1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSLW 77
MADS smart00432
MADS domain;
2-60 2.00e-32

MADS domain;


Pssm-ID: 197721 [Multi-domain]  Cd Length: 59  Bit Score: 117.66  E-value: 2.00e-32
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1863413327    2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYAST 60
Cdd:smart00432   1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59
SRF-TF pfam00319
SRF-type transcription factor (DNA-binding and dimerization domain);
10-57 1.41e-24

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


Pssm-ID: 459760 [Multi-domain]  Cd Length: 48  Bit Score: 95.96  E-value: 1.41e-24
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1863413327  10 RIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQY 57
Cdd:pfam00319   1 RIENKRARQVTFSKRRKGLFKKASELSVLCGAEVAVIVFSPTGKLYTF 48
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 107-152 8.85e-10

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: 54.66  E-value: 8.85e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1863413327 107 LTPRTEEKYKQINEEFDHMIKTHKIPQAVPPSSYDMPVSIPVSNQN 152
Cdd:pfam12347  16 LPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYR 61
ARG80 COG5068
Regulator of arginine metabolism and related MADS box-containing transcription factors ...
 1-268 5.56e-09

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


Pssm-ID: 227400 [Multi-domain]  Cd Length: 412  Bit Score: 58.10  E-value: 5.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327   1 MGRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDMDKVllkyteynePHESRT 80
Cdd:COG5068    81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESV---------VKSLEG 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327  81 NSDIVEALSKKENKGGESPELESALILTPrTEEKYKQINEEFDHMIKTHKIPQAVPPSSYD----MPVSIPVSNQNNLIY 156
Cdd:COG5068   152 KSLIQSPCSNAPSDSSEEPSSSASFSVDP-NDNNPMGSFQHNGSPQTNFIPLQNPQTQQYQqhssRKDHPTVPHSNTNNG 230

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327 157 SHPGGSLGNHnllplahhglQRNSMSPGVTHRPPSAGNtcGLMGADLTTGagtSAGNGYGNHRNSPGLLVSPGGMNKNMQ 236
Cdd:COG5068   231 RPPAKFMIPE----------LHSSHSTLDLPSDFISDS--GFPNQSSTSI---FPLDSAIIQITPPHLPNNPPQENRHEL 295

                         250       260       270
                  ....*....|....*....|....*....|..
gi 1863413327 237 AKSPPPMNLGMNNRKPDLRVLIPPGAKNNMPS 268
Cdd:COG5068   296 YSNDSSMVSETPPPKNLPNGSPNQSPLNNLSR 327
 
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 9.73e-40

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: 137.68  E-value: 9.73e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1863413327   2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDMDKVLLKYTEYNEPHES 78
Cdd:cd00265     1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSLW 77
MADS smart00432
MADS domain;
2-60 2.00e-32

MADS domain;


Pssm-ID: 197721 [Multi-domain]  Cd Length: 59  Bit Score: 117.66  E-value: 2.00e-32
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1863413327    2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYAST 60
Cdd:smart00432   1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59
MADS cd00120
MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic ...
 2-60 1.74e-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: 109.53  E-value: 1.74e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1863413327   2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYAST 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 2.40e-26

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: 101.95  E-value: 2.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327   2 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDM-DKVLLKYTEYNEPHESRT 80
Cdd:cd00266     1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEvEGVISRFEVLSALERKKK 80


                  ...
gi 1863413327  81 NSD 83
Cdd:cd00266    81 AVD 83
SRF-TF pfam00319
SRF-type transcription factor (DNA-binding and dimerization domain);
10-57 1.41e-24

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


Pssm-ID: 459760 [Multi-domain]  Cd Length: 48  Bit Score: 95.96  E-value: 1.41e-24
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1863413327  10 RIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQY 57
Cdd:pfam00319   1 RIENKRARQVTFSKRRKGLFKKASELSVLCGAEVAVIVFSPTGKLYTF 48
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 107-152 8.85e-10

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: 54.66  E-value: 8.85e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1863413327 107 LTPRTEEKYKQINEEFDHMIKTHKIPQAVPPSSYDMPVSIPVSNQN 152
Cdd:pfam12347  16 LPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYR 61
ARG80 COG5068
Regulator of arginine metabolism and related MADS box-containing transcription factors ...
 1-268 5.56e-09

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


Pssm-ID: 227400 [Multi-domain]  Cd Length: 412  Bit Score: 58.10  E-value: 5.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327   1 MGRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSTNKLFQYASTDMDKVllkyteynePHESRT 80
Cdd:COG5068    81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESV---------VKSLEG 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327  81 NSDIVEALSKKENKGGESPELESALILTPrTEEKYKQINEEFDHMIKTHKIPQAVPPSSYD----MPVSIPVSNQNNLIY 156
Cdd:COG5068   152 KSLIQSPCSNAPSDSSEEPSSSASFSVDP-NDNNPMGSFQHNGSPQTNFIPLQNPQTQQYQqhssRKDHPTVPHSNTNNG 230

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1863413327 157 SHPGGSLGNHnllplahhglQRNSMSPGVTHRPPSAGNtcGLMGADLTTGagtSAGNGYGNHRNSPGLLVSPGGMNKNMQ 236
Cdd:COG5068   231 RPPAKFMIPE----------LHSSHSTLDLPSDFISDS--GFPNQSSTSI---FPLDSAIIQITPPHLPNNPPQENRHEL 295

                         250       260       270
                  ....*....|....*....|....*....|..
gi 1863413327 237 AKSPPPMNLGMNNRKPDLRVLIPPGAKNNMPS 268
Cdd:COG5068   296 YSNDSSMVSETPPPKNLPNGSPNQSPLNNLSR 327
 
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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