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Conserved domains on  [gi|2047931982|gb|KAG6602324|]
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Nuclear receptor corepressor 1, partial [Cucurbita argyrosperma subsp. sororia]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 10412582)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein binds DNA and may function as a transcription factor

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SANT super family cl21498
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 766-805 3.42e-08

'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.


The actual alignment was detected with superfamily member cd11661:

Pssm-ID: 473887 [Multi-domain]  Cd Length: 46  Bit Score: 50.69  E-value: 3.42e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 2047931982  766 WTSEEKDVFMEKLEYFGKDFGKI-ASFLDHKTTADCIEFYY 805
Cdd:cd11661      2 WSESEAKLFEEGLRKYGKDFHDIrQDFLPWKSVGELVEFYY 42
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 977-1015 1.78e-05

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: 43.26  E-value: 1.78e-05
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 2047931982  977 WTDGEKSLFIEAVTVYGKNFSMISTHVGSKSMDQCKVFF 1015
Cdd:pfam00249    4 WTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRW 42
 
Name Accession Description Interval E-value
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
 766-805 3.42e-08

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 50.69  E-value: 3.42e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 2047931982  766 WTSEEKDVFMEKLEYFGKDFGKI-ASFLDHKTTADCIEFYY 805
Cdd:cd11661      2 WSESEAKLFEEGLRKYGKDFHDIrQDFLPWKSVGELVEFYY 42
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 977-1015 1.78e-05

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: 43.26  E-value: 1.78e-05
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 2047931982  977 WTDGEKSLFIEAVTVYGKNFSMISTHVGSKSMDQCKVFF 1015
Cdd:pfam00249    4 WTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRW 42
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 764-807 2.74e-05

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: 42.49  E-value: 2.74e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 2047931982  764 NPWTSEEKDVFMEKLEYFGKDFGKIASFLDHKTTADCIEFYYKN 807
Cdd:pfam00249    2 GPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNY 45
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 977-1015 4.04e-05

'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: 42.18  E-value: 4.04e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 2047931982  977 WTDGEKSLFIEAVTVYG-KNFSMISTHVGSKSMDQCKVFF 1015
Cdd:cd00167      2 WTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERW 41
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
976-1015 1.16e-04

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 41.06  E-value: 1.16e-04
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|.
gi 2047931982   976 YWTDGEKSLFIEAVTVYG-KNFSMISTHVGSKSMDQCKVFF 1015
Cdd:smart00717    3 EWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERW 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
764-810 2.51e-04

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 39.90  E-value: 2.51e-04
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*...
gi 2047931982   764 NPWTSEEKDVFMEKLEYFG-KDFGKIASFLDHKTTADCIEFYYKNHKS 810
Cdd:smart00717    2 GEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
 
Name Accession Description Interval E-value
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
 766-805 3.42e-08

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 50.69  E-value: 3.42e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 2047931982  766 WTSEEKDVFMEKLEYFGKDFGKI-ASFLDHKTTADCIEFYY 805
Cdd:cd11661      2 WSESEAKLFEEGLRKYGKDFHDIrQDFLPWKSVGELVEFYY 42
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 977-1015 1.78e-05

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: 43.26  E-value: 1.78e-05
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 2047931982  977 WTDGEKSLFIEAVTVYGKNFSMISTHVGSKSMDQCKVFF 1015
Cdd:pfam00249    4 WTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRW 42
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 764-807 2.74e-05

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: 42.49  E-value: 2.74e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 2047931982  764 NPWTSEEKDVFMEKLEYFGKDFGKIASFLDHKTTADCIEFYYKN 807
Cdd:pfam00249    2 GPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNY 45
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 977-1015 4.04e-05

'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: 42.18  E-value: 4.04e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 2047931982  977 WTDGEKSLFIEAVTVYG-KNFSMISTHVGSKSMDQCKVFF 1015
Cdd:cd00167      2 WTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERW 41
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
976-1015 1.16e-04

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 41.06  E-value: 1.16e-04
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|.
gi 2047931982   976 YWTDGEKSLFIEAVTVYG-KNFSMISTHVGSKSMDQCKVFF 1015
Cdd:smart00717    3 EWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERW 43
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 765-807 2.24e-04

'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: 39.87  E-value: 2.24e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 2047931982  765 PWTSEEKDVFMEKLEYFG-KDFGKIASFLDHKTTADCIEFYYKN 807
Cdd:cd00167      1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNL 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
764-810 2.51e-04

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 39.90  E-value: 2.51e-04
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*...
gi 2047931982   764 NPWTSEEKDVFMEKLEYFG-KDFGKIASFLDHKTTADCIEFYYKNHKS 810
Cdd:smart00717    2 GEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
 
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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