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Conserved domains on  [gi|1063707100|ref|NP_001323962|]
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myb-like transcription factor family protein [Arabidopsis thaliana]

Protein Classification

SWR1-complex 4 family protein( domain architecture ID 11242154)

SWR1-complex 4 (SWC4) family protein is a component of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling

CATH:  1.20.58.1880
Gene Ontology:  GO:0003714|GO:0003677|GO:0006355|GO:0003700|GO:0000812
PubMed:  8882580
SCOP:  4000317

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SANT_DAMP1_like pfam16282
SANT/Myb-like domain of DAMP1; This domain, approximately 90 residues, is mainly found in DNA ...
 102-177 5.52e-43

SANT/Myb-like domain of DAMP1; This domain, approximately 90 residues, is mainly found in DNA methyltransferase 1-associated protein 1 (DAMP1) that plays an important role in development and maintenace of genome integrity in various mammalia species. It mainly consists of tandem repeats of three alpha-helices that are arranged in a helix-turn-helix motif and shows a structual similarity with SANT domain and Myb DNA-binding domain, indicating it contains a putative DNA binding site.


:

Pssm-ID: 465084  Cd Length: 80  Bit Score: 145.69  E-value: 5.52e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063707100 102 YSFAKYNKSVDILKYTDEEYENHLTDSVWTKEETDQLFEFCQNFDLRFVVIADRF----PVSRTVEELKDRYYSVNRALL 177
Cdd:pfam16282   1 YPFAKFNKKVDIPTYTDEEYERHLKDDDWTKEETDYLFDLCRRYDLRFIVIADRYdfppGKKRSVEDLKERYYSVCRKLL 80
DMAP1 super family cl05191
DNA methyltransferase 1-associated protein 1 (DMAP1); DNA methylation can contribute to ...
 267-376 8.45e-04

DNA methyltransferase 1-associated protein 1 (DMAP1); DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic amino terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication.


The actual alignment was detected with superfamily member pfam05499:

Pssm-ID: 398903  Cd Length: 163  Bit Score: 39.96  E-value: 8.45e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063707100 267 SVSPTSNSQLPATAVAPSTLTMADYASTLASLRMLHVYLrtygleqmvqaaSSAVGLRTIKRVEQTLQDLGVNLKPkVPT 346
Cdd:pfam05499  52 PQQRSKESSVSPEPVLTAGIKFPDFKSSGVSLRSQRMKL------------PASVGQKKTKAIEQLLEELKIDLNP-MPT 118

                          90       100       110
                  ....*....|....*....|....*....|
gi 1063707100 347 KTVCDEHLELRKEILTLLNLQKQLQYKESE 376
Cdd:pfam05499 119 EEICQHFNELRSDIVLLYELKQALANCEFE 148
 
Name Accession Description Interval E-value
SANT_DAMP1_like pfam16282
SANT/Myb-like domain of DAMP1; This domain, approximately 90 residues, is mainly found in DNA ...
 102-177 5.52e-43

SANT/Myb-like domain of DAMP1; This domain, approximately 90 residues, is mainly found in DNA methyltransferase 1-associated protein 1 (DAMP1) that plays an important role in development and maintenace of genome integrity in various mammalia species. It mainly consists of tandem repeats of three alpha-helices that are arranged in a helix-turn-helix motif and shows a structual similarity with SANT domain and Myb DNA-binding domain, indicating it contains a putative DNA binding site.


Pssm-ID: 465084  Cd Length: 80  Bit Score: 145.69  E-value: 5.52e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063707100 102 YSFAKYNKSVDILKYTDEEYENHLTDSVWTKEETDQLFEFCQNFDLRFVVIADRF----PVSRTVEELKDRYYSVNRALL 177
Cdd:pfam16282   1 YPFAKFNKKVDIPTYTDEEYERHLKDDDWTKEETDYLFDLCRRYDLRFIVIADRYdfppGKKRSVEDLKERYYSVCRKLL 80
SANT_DMAP1_like cd11658
SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like; These ...
 130-173 4.64e-19

SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like; These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212556  Cd Length: 46  Bit Score: 80.14  E-value: 4.64e-19
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063707100 130 WTKEETDQLFEFCQNFDLRFVVIADRFPV--SRTVEELKDRYYSVN 173
Cdd:cd11658     1 WTKEETDYLFDLVKRFDLRWNVILDRYPFqkGRSVEDLKEKYYHLC 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
130-174 9.56e-06

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 42.60  E-value: 9.56e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 1063707100  130 WTKEETDQLFEFCQNFDL-RFVVIADRFPvSRTVEELKDRYYSVNR 174
Cdd:smart00717   4 WTEEEDELLIELVKKYGKnNWEKIAKELP-GRTAEQCRERWRNLLK 48
DMAP1 pfam05499
DNA methyltransferase 1-associated protein 1 (DMAP1); DNA methylation can contribute to ...
 267-376 8.45e-04

DNA methyltransferase 1-associated protein 1 (DMAP1); DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic amino terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication.


Pssm-ID: 398903  Cd Length: 163  Bit Score: 39.96  E-value: 8.45e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063707100 267 SVSPTSNSQLPATAVAPSTLTMADYASTLASLRMLHVYLrtygleqmvqaaSSAVGLRTIKRVEQTLQDLGVNLKPkVPT 346
Cdd:pfam05499  52 PQQRSKESSVSPEPVLTAGIKFPDFKSSGVSLRSQRMKL------------PASVGQKKTKAIEQLLEELKIDLNP-MPT 118

                          90       100       110
                  ....*....|....*....|....*....|
gi 1063707100 347 KTVCDEHLELRKEILTLLNLQKQLQYKESE 376
Cdd:pfam05499 119 EEICQHFNELRSDIVLLYELKQALANCEFE 148
 
Name Accession Description Interval E-value
SANT_DAMP1_like pfam16282
SANT/Myb-like domain of DAMP1; This domain, approximately 90 residues, is mainly found in DNA ...
 102-177 5.52e-43

SANT/Myb-like domain of DAMP1; This domain, approximately 90 residues, is mainly found in DNA methyltransferase 1-associated protein 1 (DAMP1) that plays an important role in development and maintenace of genome integrity in various mammalia species. It mainly consists of tandem repeats of three alpha-helices that are arranged in a helix-turn-helix motif and shows a structual similarity with SANT domain and Myb DNA-binding domain, indicating it contains a putative DNA binding site.


Pssm-ID: 465084  Cd Length: 80  Bit Score: 145.69  E-value: 5.52e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063707100 102 YSFAKYNKSVDILKYTDEEYENHLTDSVWTKEETDQLFEFCQNFDLRFVVIADRF----PVSRTVEELKDRYYSVNRALL 177
Cdd:pfam16282   1 YPFAKFNKKVDIPTYTDEEYERHLKDDDWTKEETDYLFDLCRRYDLRFIVIADRYdfppGKKRSVEDLKERYYSVCRKLL 80
SANT_DMAP1_like cd11658
SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like; These ...
 130-173 4.64e-19

SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like; These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212556  Cd Length: 46  Bit Score: 80.14  E-value: 4.64e-19
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063707100 130 WTKEETDQLFEFCQNFDLRFVVIADRFPV--SRTVEELKDRYYSVN 173
Cdd:cd11658     1 WTKEETDYLFDLVKRFDLRWNVILDRYPFqkGRSVEDLKEKYYHLC 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 130-172 4.40e-06

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 43.33  E-value: 4.40e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1063707100 130 WTKEETDQLFEFCQNFDL-RFVVIADRFPvSRTVEELKDRYYSV 172
Cdd:cd00167     2 WTEEEDELLLEAVKKYGKnNWEKIAKELP-GRTPKQCRERWRNL 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
130-174 9.56e-06

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 42.60  E-value: 9.56e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 1063707100  130 WTKEETDQLFEFCQNFDL-RFVVIADRFPvSRTVEELKDRYYSVNR 174
Cdd:smart00717   4 WTEEEDELLIELVKKYGKnNWEKIAKELP-GRTAEQCRERWRNLLK 48
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 130-172 3.94e-04

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 37.87  E-value: 3.94e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1063707100 130 WTKEETDQLFEFCQNFDLRFVVIADRFPvSRTVEELKDRYYSV 172
Cdd:pfam00249   4 WTPEEDELLLEAVEKLGNRWKKIAKLLP-GRTDNQCKNRWQNY 45
DMAP1 pfam05499
DNA methyltransferase 1-associated protein 1 (DMAP1); DNA methylation can contribute to ...
 267-376 8.45e-04

DNA methyltransferase 1-associated protein 1 (DMAP1); DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic amino terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication.


Pssm-ID: 398903  Cd Length: 163  Bit Score: 39.96  E-value: 8.45e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063707100 267 SVSPTSNSQLPATAVAPSTLTMADYASTLASLRMLHVYLrtygleqmvqaaSSAVGLRTIKRVEQTLQDLGVNLKPkVPT 346
Cdd:pfam05499  52 PQQRSKESSVSPEPVLTAGIKFPDFKSSGVSLRSQRMKL------------PASVGQKKTKAIEQLLEELKIDLNP-MPT 118

                          90       100       110
                  ....*....|....*....|....*....|
gi 1063707100 347 KTVCDEHLELRKEILTLLNLQKQLQYKESE 376
Cdd:pfam05499 119 EEICQHFNELRSDIVLLYELKQALANCEFE 148
 
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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