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Conserved domains on  [gi|1958807623|ref|XP_038955755|]
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male-specific lethal 3 homolog isoform X5 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MRG pfam05712
MRG; This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4 ...
 161-510 2.91e-47

MRG; This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4/MRG15), male-specific lethal 3(MSL-3) and ESA1-associated factor 3(EAF3)). It is thought that the MRG family is involved in transcriptional regulation via histone acetylation. It contains 2 chromo domains and a leucine zipper motif.


:

Pssm-ID: 461721  Cd Length: 185  Bit Score: 162.38  E-value: 2.91e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 161 RSRKDMDER------TITIEIPEVLKKQLEDDCYYINRRKRLVKLPCQTNIITILESYVKHFAINAAFSANErprhhham 234
Cdd:pfam05712   1 RARDSESEDefskrpEIKLDIPDELKKILVDDWENITKNNQLVPLPAKPPVDEILEDYVEHEKVKRANGSNK-------- 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 235 mhahmnvhyvpaEKNVDLCKEMVDGLRITFDYTLPLVLLYPYEQTQYKRVtsskfflpikesttttnrsqeelspsppll 314
Cdd:pfam05712  73 ------------TRDEDLLEEVVAGLREYFDKALGRILLYRFERPQYAEL------------------------------ 110

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 315 npstpqstesqpptgepatpkrrkaepealqslrrstrhstncdrlsesssspqpkRRQQDTSTSMPKLFLHlektlsvt 394
Cdd:pfam05712 111 --------------------------------------------------------RKKWASGPNDDQGKEP-------- 126

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 395 etpvhsrssspipltpskdgsavfagfegrrtneinevlswklvpdnyppgdqppppSYIYGAQHLLRLFVKLPEILGKM 474
Cdd:pfam05712 127 ---------------------------------------------------------SDIYGAEHLLRLFVKLPELLAQT 149

                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 1958807623 475 SFSEKNLKALLKHFDLFLRFLAEYHDDFFPESAYVA 510
Cdd:pfam05712 150 NMDEQSLNRLREHLEDFLEFLAKNHERYFSKQEYES 185
CD_CSD super family cl28914
CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains; Members of this ...
 29-76 2.39e-14

CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains; Members of this group are chromodomains or chromo shadow domains; these are SH3-fold-beta-barrel domains of the chromo-like superfamily. Chromodomains lack the first strand of the SH3-fold-beta-barrel, this first strand is altered by insertion in the chromo shadow domains. The chromodomain is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and which appears to play a role in the functional organization of the eukaryotic nucleus. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. Chromodomain-containing proteins include: i) those having an N-terminal chromodomain followed by a related chromo shadow domain, such as Drosophila and human heterochromatin protein Su(var)205 (HP1), and mammalian modifier 1 and 2; ii) those having a single chromodomain, such as Drosophila protein Polycomb (Pc), mammalian modifier 3, human Mi-2 autoantigen, and several yeast and Caenorhabditis elegans proteins of unknown function; iii) those having paired tandem chromodomains, such as mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1; (iv) and elongation factor eEF3, a member of the ATP-binding cassette (ABC) family of proteins, that serves an essential function in the translation cycle of fungi. eEF3 is a soluble factor lacking a transmembrane domain and having two ABC domains arranged in tandem, with a unique chromodomain inserted within the ABC2 domain.


The actual alignment was detected with superfamily member cd18983:

Pssm-ID: 475127  Cd Length: 57  Bit Score: 67.47  E-value: 2.39e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1958807623  29 IIDVIIGKDEkgrkiPEYLIHFNGWNSSsWDRWAAEDHVLHDTDENRR 76
Cdd:cd18983    16 ILDVIPDKKE-----WKYFIHYNGWNKS-WDEWVPEDRVLKYTDENLR 57
 
Name Accession Description Interval E-value
MRG pfam05712
MRG; This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4 ...
 161-510 2.91e-47

MRG; This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4/MRG15), male-specific lethal 3(MSL-3) and ESA1-associated factor 3(EAF3)). It is thought that the MRG family is involved in transcriptional regulation via histone acetylation. It contains 2 chromo domains and a leucine zipper motif.


Pssm-ID: 461721  Cd Length: 185  Bit Score: 162.38  E-value: 2.91e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 161 RSRKDMDER------TITIEIPEVLKKQLEDDCYYINRRKRLVKLPCQTNIITILESYVKHFAINAAFSANErprhhham 234
Cdd:pfam05712   1 RARDSESEDefskrpEIKLDIPDELKKILVDDWENITKNNQLVPLPAKPPVDEILEDYVEHEKVKRANGSNK-------- 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 235 mhahmnvhyvpaEKNVDLCKEMVDGLRITFDYTLPLVLLYPYEQTQYKRVtsskfflpikesttttnrsqeelspsppll 314
Cdd:pfam05712  73 ------------TRDEDLLEEVVAGLREYFDKALGRILLYRFERPQYAEL------------------------------ 110

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 315 npstpqstesqpptgepatpkrrkaepealqslrrstrhstncdrlsesssspqpkRRQQDTSTSMPKLFLHlektlsvt 394
Cdd:pfam05712 111 --------------------------------------------------------RKKWASGPNDDQGKEP-------- 126

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 395 etpvhsrssspipltpskdgsavfagfegrrtneinevlswklvpdnyppgdqppppSYIYGAQHLLRLFVKLPEILGKM 474
Cdd:pfam05712 127 ---------------------------------------------------------SDIYGAEHLLRLFVKLPELLAQT 149

                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 1958807623 475 SFSEKNLKALLKHFDLFLRFLAEYHDDFFPESAYVA 510
Cdd:pfam05712 150 NMDEQSLNRLREHLEDFLEFLAKNHERYFSKQEYES 185
CBD_MSL3_like cd18983
chromo barrel domain of human male-specific lethal complex subunit 3, and similar proteins; ...
 29-76 2.39e-14

chromo barrel domain of human male-specific lethal complex subunit 3, and similar proteins; This subgroup includes human male-specific lethal (MSL) complex subunit 3 (MSL3, also known as MSL3L1). The MSL3 chromodomain specifically recognizes the H4K20 monomethyl mark, in a DNA-dependent manner, and may be involved in chromosomal targeting of the MSL complex. Also included is MORF-related gene on chromosome 15 (MRG15, also known as MORF4L1) which specifically binds to Lys36-methylated histone H3 and plays a role in transcriptional regulation and in DNA repair. This subgroup also includes Arabidopsis thaliana Morf Related Gene 2 (MRG2) which acts as a H3K4me3/H3K36me3 reader involved in the regulation of Arabidopsis flowering. SH3-fold-beta-barrel domains of the chromo-like superfamily include chromodomains, chromo shadow domains and chromo barrel domains, and are implicated in the recognition of lysine-methylated histone tails and nucleic acids. The chromodomain differs, in that it lacks the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain.


Pssm-ID: 350846  Cd Length: 57  Bit Score: 67.47  E-value: 2.39e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1958807623  29 IIDVIIGKDEkgrkiPEYLIHFNGWNSSsWDRWAAEDHVLHDTDENRR 76
Cdd:cd18983    16 ILDVIPDKKE-----WKYFIHYNGWNKS-WDEWVPEDRVLKYTDENLR 57
CHROMO smart00298
Chromatin organization modifier domain;
30-73 2.19e-04

Chromatin organization modifier domain;


Pssm-ID: 214605 [Multi-domain]  Cd Length: 55  Bit Score: 39.12  E-value: 2.19e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1958807623   30 IDVIIGKDEKGRKIPEYLIHFNGWNsSSWDRWAAEDHVLHDTDE 73
Cdd:smart00298   4 VEKILDHRWKKKGELEYLVKWKGYS-YSEDTWEPEENLLNCSKK 46
 
Name Accession Description Interval E-value
MRG pfam05712
MRG; This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4 ...
 161-510 2.91e-47

MRG; This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4/MRG15), male-specific lethal 3(MSL-3) and ESA1-associated factor 3(EAF3)). It is thought that the MRG family is involved in transcriptional regulation via histone acetylation. It contains 2 chromo domains and a leucine zipper motif.


Pssm-ID: 461721  Cd Length: 185  Bit Score: 162.38  E-value: 2.91e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 161 RSRKDMDER------TITIEIPEVLKKQLEDDCYYINRRKRLVKLPCQTNIITILESYVKHFAINAAFSANErprhhham 234
Cdd:pfam05712   1 RARDSESEDefskrpEIKLDIPDELKKILVDDWENITKNNQLVPLPAKPPVDEILEDYVEHEKVKRANGSNK-------- 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 235 mhahmnvhyvpaEKNVDLCKEMVDGLRITFDYTLPLVLLYPYEQTQYKRVtsskfflpikesttttnrsqeelspsppll 314
Cdd:pfam05712  73 ------------TRDEDLLEEVVAGLREYFDKALGRILLYRFERPQYAEL------------------------------ 110

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 315 npstpqstesqpptgepatpkrrkaepealqslrrstrhstncdrlsesssspqpkRRQQDTSTSMPKLFLHlektlsvt 394
Cdd:pfam05712 111 --------------------------------------------------------RKKWASGPNDDQGKEP-------- 126

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958807623 395 etpvhsrssspipltpskdgsavfagfegrrtneinevlswklvpdnyppgdqppppSYIYGAQHLLRLFVKLPEILGKM 474
Cdd:pfam05712 127 ---------------------------------------------------------SDIYGAEHLLRLFVKLPELLAQT 149

                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 1958807623 475 SFSEKNLKALLKHFDLFLRFLAEYHDDFFPESAYVA 510
Cdd:pfam05712 150 NMDEQSLNRLREHLEDFLEFLAKNHERYFSKQEYES 185
CBD_MSL3_like cd18983
chromo barrel domain of human male-specific lethal complex subunit 3, and similar proteins; ...
 29-76 2.39e-14

chromo barrel domain of human male-specific lethal complex subunit 3, and similar proteins; This subgroup includes human male-specific lethal (MSL) complex subunit 3 (MSL3, also known as MSL3L1). The MSL3 chromodomain specifically recognizes the H4K20 monomethyl mark, in a DNA-dependent manner, and may be involved in chromosomal targeting of the MSL complex. Also included is MORF-related gene on chromosome 15 (MRG15, also known as MORF4L1) which specifically binds to Lys36-methylated histone H3 and plays a role in transcriptional regulation and in DNA repair. This subgroup also includes Arabidopsis thaliana Morf Related Gene 2 (MRG2) which acts as a H3K4me3/H3K36me3 reader involved in the regulation of Arabidopsis flowering. SH3-fold-beta-barrel domains of the chromo-like superfamily include chromodomains, chromo shadow domains and chromo barrel domains, and are implicated in the recognition of lysine-methylated histone tails and nucleic acids. The chromodomain differs, in that it lacks the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain.


Pssm-ID: 350846  Cd Length: 57  Bit Score: 67.47  E-value: 2.39e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1958807623  29 IIDVIIGKDEkgrkiPEYLIHFNGWNSSsWDRWAAEDHVLHDTDENRR 76
Cdd:cd18983    16 ILDVIPDKKE-----WKYFIHYNGWNKS-WDEWVPEDRVLKYTDENLR 57
CBD cd18643
chromo barrel domain of MOF acetyltransferase, and similar proteins; This group includes the ...
 29-73 8.26e-12

chromo barrel domain of MOF acetyltransferase, and similar proteins; This group includes the chromo barrel domains found in human Tat-interactive protein 60 (TIP60, (also known as KAT5 or HTATIP), Drosophila melanogaster males-absent on the first (MOF) protein, human male-specific lethal (MSL) complex subunit 3 (MSL3), and retinoblastoma binding protein 1. SH3-fold-beta-barrel domains of the chromo-like superfamily include chromodomains, chromo shadow domains, and chromo barrel domains, and are implicated in the recognition of lysine-methylated histone tails and nucleic acids. The chromodomain differs, in that it lacks the first strand of the SH3-fold-beta-barrel. This first strand is altered by insertion in the chromo shadow domains, and chromo barrel domains are typical SH3-fold-beta-barrel domains with sequence similarity to the canonical chromo domain. The chromobarrel domains include a MOF-like subgroup which may be may be auto-inhibited, i.e. they seem to have occluded peptide binding sites.


Pssm-ID: 350845 [Multi-domain]  Cd Length: 61  Bit Score: 60.27  E-value: 8.26e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1958807623  29 IIDVIIGKDekGRKIPEYLIHFNGWNsSSWDRWAAEDHVLHDTDE 73
Cdd:cd18643    20 ILSVITGKD--GRAPPEYLVHYVGWN-RRLDEWVAEDRVLPDLDE 61
CHROMO smart00298
Chromatin organization modifier domain;
30-73 2.19e-04

Chromatin organization modifier domain;


Pssm-ID: 214605 [Multi-domain]  Cd Length: 55  Bit Score: 39.12  E-value: 2.19e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1958807623   30 IDVIIGKDEKGRKIPEYLIHFNGWNsSSWDRWAAEDHVLHDTDE 73
Cdd:smart00298   4 VEKILDHRWKKKGELEYLVKWKGYS-YSEDTWEPEENLLNCSKK 46
MBT_PHF20L1-like cd20104
malignant brain tumor (MBT) repeat found in PHD finger protein 20-like protein 1 (PHF20L1) and ...
 33-61 6.65e-03

malignant brain tumor (MBT) repeat found in PHD finger protein 20-like protein 1 (PHF20L1) and similar domains; PHF20L1 associates with SOX2, antagonizes SOX2 ubiquitination and the sequential degradation induced by MLL1/WDR5 complexes. It binds both monomethylated Lys-42 and Lys-117 in SOX2 and thereby prevents SOX2 proteolysis. PHF20L1 also reads and controls enzyme levels of methylated DNMT1 in cells, thus representing a novel antagonist of DNMT1 degradation. PHF20L1 contains one MBT (malignant brain tumor) repeat. The MBT repeat is a protein module that recognizes methylated lysine residues on histones. MBT repeats contain a semi-aromatic cage to accommodate methyllysine and show specificity towards the lower methylation states of lysine. This model corresponds to the MBT repeat of PHF20L1 and similar domains that contains the semi-aromatic cage that may bind methylated lysine residues.


Pssm-ID: 439094 [Multi-domain]  Cd Length: 60  Bit Score: 35.29  E-value: 6.65e-03
                          10        20
                  ....*....|....*....|....*....
gi 1958807623  33 IIGKDEKGRKipeYLIHFNGWNsSSWDRW 61
Cdd:cd20104    21 IVEVDEEENK---VLVHYDGWS-SRYDEW 45
 
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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