Chromo domain-containing protein [Caenorhabditis elegans]
Protein Classification
chromo domain-containing protein( domain architecture ID 1001045)
chromo (chromatin organization modifier) domain-containing protein may bind methylated histone tails
List of domain hits
| Name | Accession | Description | Interval | E-value | ||
| CD_CSD super family | cl28914 | CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains; Members of this ... |
115-167 | 1.17e-21 | ||
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 cd18961: Pssm-ID: 475127 Cd Length: 51 Bit Score: 86.77 E-value: 1.17e-21
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| Name | Accession | Description | Interval | E-value | ||
| CD_CEC-4_like | cd18961 | chromodomain of Caenorhabditis elegans chromodomain protein 4, and similar proteins; CHRomatin ... |
115-167 | 1.17e-21 | ||
chromodomain of Caenorhabditis elegans chromodomain protein 4, and similar proteins; CHRomatin Organization Modifier (chromo) domain of Caenorhabditis elegans CEC-4, and similar proteins. CEC-4 is a perinuclear heterochromatin anchor, it mediates the anchoring of H3K9 methylation-bearing chromatin at the nuclear periphery in early to mid-stage embryos. It is necessary for anchoring, but does not affect transcriptional repression. CEC-4 contributes to the efficiency with which muscle differentiation is induced following ectopic expression of the master regulator, HLH-1 (MyoD in mammals). A 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. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349317 Cd Length: 51 Bit Score: 86.77 E-value: 1.17e-21
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| Chromo | pfam00385 | Chromo (CHRromatin organization MOdifier) domain; |
115-168 | 9.14e-10 | ||
Chromo (CHRromatin organization MOdifier) domain; Pssm-ID: 459793 [Multi-domain] Cd Length: 52 Bit Score: 53.74 E-value: 9.14e-10
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| CHROMO | smart00298 | Chromatin organization modifier domain; |
114-170 | 1.63e-08 | ||
Chromatin organization modifier domain; Pssm-ID: 214605 [Multi-domain] Cd Length: 55 Bit Score: 50.29 E-value: 1.63e-08
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| Name | Accession | Description | Interval | E-value | ||
| CD_CEC-4_like | cd18961 | chromodomain of Caenorhabditis elegans chromodomain protein 4, and similar proteins; CHRomatin ... |
115-167 | 1.17e-21 | ||
chromodomain of Caenorhabditis elegans chromodomain protein 4, and similar proteins; CHRomatin Organization Modifier (chromo) domain of Caenorhabditis elegans CEC-4, and similar proteins. CEC-4 is a perinuclear heterochromatin anchor, it mediates the anchoring of H3K9 methylation-bearing chromatin at the nuclear periphery in early to mid-stage embryos. It is necessary for anchoring, but does not affect transcriptional repression. CEC-4 contributes to the efficiency with which muscle differentiation is induced following ectopic expression of the master regulator, HLH-1 (MyoD in mammals). A 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. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349317 Cd Length: 51 Bit Score: 86.77 E-value: 1.17e-21
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| Chromo | pfam00385 | Chromo (CHRromatin organization MOdifier) domain; |
115-168 | 9.14e-10 | ||
Chromo (CHRromatin organization MOdifier) domain; Pssm-ID: 459793 [Multi-domain] Cd Length: 52 Bit Score: 53.74 E-value: 9.14e-10
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| CHROMO | smart00298 | Chromatin organization modifier domain; |
114-170 | 1.63e-08 | ||
Chromatin organization modifier domain; Pssm-ID: 214605 [Multi-domain] Cd Length: 55 Bit Score: 50.29 E-value: 1.63e-08
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| CD_CSD | cd00024 | CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains; Members of this ... |
115-167 | 1.02e-07 | ||
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. Pssm-ID: 349274 [Multi-domain] Cd Length: 50 Bit Score: 47.86 E-value: 1.02e-07
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| CD_DDE_transposase_like | cd18978 | chromodomain of Rhizopus microsporus putative DDE transposases, and similar proteins; This ... |
112-165 | 3.64e-06 | ||
chromodomain of Rhizopus microsporus putative DDE transposases, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in Rhizopus microsporus putative DDE transposases, and similar proteins. The chromodomain, is a conserved region of about 50 amino acids, found in a variety of chromosomal proteins, and implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349334 Cd Length: 52 Bit Score: 43.84 E-value: 3.64e-06
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| CD_Swi6_like | cd18637 | chromodomain of fission yeast Swi6, and similar proteins; Fission yeast Swi6 protein is a ... |
114-165 | 2.01e-05 | ||
chromodomain of fission yeast Swi6, and similar proteins; Fission yeast Swi6 protein is a structural and functional homolog of mammalian HP1 (heterochromatin protein 1) and is involved in the chromatin structure by binding to centromeres, telomeres, and the silent mating-type locus. Swi6 contains a N-terminal chromo (CHRromatin Organization MOdifier) domain and a C-terminal chromo shadow domain (CSD). Swi6 binds histone H3 tails methylated at Lys- and the cohesion subunit Psc3, leading to silencing the genes and sister chromatid cohesion. It is also involved in the repression of the silent mating-type loci MAT2 and MAT3. Swi6 may compact MAT2/3 into a heterochromatin-like conformation which represses the transcription of these silent cassettes. chromodomains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g. Drosophila and human heterochromatin protein (HP1) and mammalian modifier 1 and modifier 2). CSDs have only been found in proteins that also possess a chromodomain. Pssm-ID: 349287 Cd Length: 54 Bit Score: 41.73 E-value: 2.01e-05
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| CD_Chro-like | cd18640 | chromodomain of Drosophila melanogaster chromator chromodomain protein, and similar proteins; ... |
115-166 | 2.66e-04 | ||
chromodomain of Drosophila melanogaster chromator chromodomain protein, and similar proteins; This subgroup includes the CHROMO (CHRromatin Organization Modifier) domain found in chromodomain of Drosophila melanogaster chromator (also known as Chriz/Chro) chromodomain protein, and similar proteins. Chromator is a nuclear protein that plays a role in proper spindle dynamics during mitosis. The chromodomain is implicated in the binding, of the proteins in which it is found, to methylated histone tails and maybe RNA. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349290 Cd Length: 52 Bit Score: 38.43 E-value: 2.66e-04
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| CD_Clr4_like | cd18632 | N-terminal chromodomain of the fission yeast histone methyltransferase Clr4, and similar ... |
114-166 | 4.95e-04 | ||
N-terminal chromodomain of the fission yeast histone methyltransferase Clr4, and similar proteins; N-terminal CHRomatin Organization Modifier (chromo) domain of cryptic loci regulator 4 (Clr4), a histone H3 lysine methyltransferase which targets H3K9. Clr4 regulates silencing and switching at the mating-type loci and affects chromatin structure at centromeres. Clr4 is a catalytic component of the rik1-associated E3 ubiquitin ligase complex that shows ubiquitin ligase activity and is required for histone H3K9 methylation. H3K9me represents a specific tag for epigenetic transcriptional repression by recruiting swi6/HP1 to methylated histones which leads to transcriptional silencing within centromeric heterochromatin, telomeric regions and at the silent mating-type loci. A 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. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349282 Cd Length: 55 Bit Score: 37.87 E-value: 4.95e-04
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| CD_Rhino | cd18630 | chromodomain of Drosophila melanogaster Rhino, and similar proteins; N-terminal CHRomatin ... |
114-166 | 1.02e-03 | ||
chromodomain of Drosophila melanogaster Rhino, and similar proteins; N-terminal CHRomatin Organization Modifier (chromo) domain of Drosophila melanogaster Rhino (also known as heterochromatin protein 1-like), and similar proteins. Rhino is a female-specific protein that affects chromosome structure and egg polarity that is required for germline PIWI-interacting RNA (piRNA) production. In Drosophila the RDC (rhino, deadlock, and cutoff) complex, composed of rhino, the protein deadlock (Del) and the Rai1-like transcription termination cofactor cutoff (Cuff) binds to chromatin of dual-strand piRNA clusters, special genomic regions, which encode piRNA precursors. The RDC complex is anchored to H3K9me3-marked chromatin in part via the H3K9me3-binding activity of Rhino, and is required for transcription of piRNA precursors. A 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. A chromodomain may occur as a single instance, in a tandem arrangement, or followed by a related chromo shadow domain. Pssm-ID: 349280 Cd Length: 51 Bit Score: 36.73 E-value: 1.02e-03
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