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Conserved domains on  [gi|15237801|ref|NP_197754|]
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Homeodomain-like transcriptional regulator [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 10074108)

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:0006355|GO:0003677|GO:0003700
PubMed:  8882580|15040448|16877755
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 ...
 117-168 6.26e-10

'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 TIGR01557:

Pssm-ID: 473887 [Multi-domain]  Cd Length: 57  Bit Score: 54.33  E-value: 6.26e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 15237801   117 RRGVPWKPFEHRQFLHGLKKYGKGDW---RSISRHCVVTR-TSTQVASHAQKYFAH 168
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGPDWatpKRILELMVVDGlTRDQVASHLQKYRLK 56
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 12-56 6.83e-09

'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: 51.04  E-value: 6.83e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15237801  12 SWSKDDDIAFEKALAIYNdktEIRWKKIATVVPGKTLEQVIEHYN 56
Cdd:cd00167   1 PWTEEEDELLLEAVKKYG---KNNWEKIAKELPGRTPKQCRERWR 42
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 117-168 6.26e-10

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 54.33  E-value: 6.26e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 15237801   117 RRGVPWKPFEHRQFLHGLKKYGKGDW---RSISRHCVVTR-TSTQVASHAQKYFAH 168
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGPDWatpKRILELMVVDGlTRDQVASHLQKYRLK 56
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 12-56 6.83e-09

'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: 51.04  E-value: 6.83e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15237801  12 SWSKDDDIAFEKALAIYNdktEIRWKKIATVVPGKTLEQVIEHYN 56
Cdd:cd00167   1 PWTEEEDELLLEAVKKYG---KNNWEKIAKELPGRTPKQCRERWR 42
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
10-56 4.15e-08

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 48.76  E-value: 4.15e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 15237801     10 GSSWSKDDDIAFEKALAIYndkTEIRWKKIATVVPGKTLEQVIEHYN 56
Cdd:smart00717   1 KGEWTEEEDELLIELVKKY---GKNNWEKIAKELPGRTAEQCRERWR 44
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 121-166 7.01e-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.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 48.34  E-value: 7.01e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15237801 121 PWKPFEHRQFLHGLKKYGKGDWRSISRHcVVTRTSTQVASHAQKYF 166
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKE-LPGRTPKQCRERWRNLL 45
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 12-56 4.03e-07

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: 45.96  E-value: 4.03e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15237801    12 SWSKDDDIAFEKALAIYNDkteiRWKKIATVVPGKTLEQVIEHYN 56
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLGN----RWKKIAKLLPGRTDNQCKNRWQ 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
119-166 4.05e-07

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 46.06  E-value: 4.05e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 15237801    119 GVPWKPFEHRQFLHGLKKYGKGDWRSISRHcVVTRTSTQVASHAQKYF 166
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKE-LPGRTAEQCRERWRNLL 47
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 120-166 1.47e-06

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: 44.42  E-value: 1.47e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15237801   120 VPWKPFEHRQFLHGLKKYGkGDWRSISRHcVVTRTSTQVASHAQKYF 166
Cdd:pfam00249   2 GPWTPEEDELLLEAVEKLG-NRWKKIAKL-LPGRTDNQCKNRWQNYL 46
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 117-168 6.26e-10

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 54.33  E-value: 6.26e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 15237801   117 RRGVPWKPFEHRQFLHGLKKYGKGDW---RSISRHCVVTR-TSTQVASHAQKYFAH 168
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGPDWatpKRILELMVVDGlTRDQVASHLQKYRLK 56
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 12-56 6.83e-09

'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: 51.04  E-value: 6.83e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15237801  12 SWSKDDDIAFEKALAIYNdktEIRWKKIATVVPGKTLEQVIEHYN 56
Cdd:cd00167   1 PWTEEEDELLLEAVKKYG---KNNWEKIAKELPGRTPKQCRERWR 42
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
10-56 4.15e-08

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 48.76  E-value: 4.15e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 15237801     10 GSSWSKDDDIAFEKALAIYndkTEIRWKKIATVVPGKTLEQVIEHYN 56
Cdd:smart00717   1 KGEWTEEEDELLIELVKKY---GKNNWEKIAKELPGRTAEQCRERWR 44
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 121-166 7.01e-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.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 48.34  E-value: 7.01e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15237801 121 PWKPFEHRQFLHGLKKYGKGDWRSISRHcVVTRTSTQVASHAQKYF 166
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKE-LPGRTPKQCRERWRNLL 45
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 12-56 4.03e-07

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: 45.96  E-value: 4.03e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15237801    12 SWSKDDDIAFEKALAIYNDkteiRWKKIATVVPGKTLEQVIEHYN 56
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLGN----RWKKIAKLLPGRTDNQCKNRWQ 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
119-166 4.05e-07

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 46.06  E-value: 4.05e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 15237801    119 GVPWKPFEHRQFLHGLKKYGKGDWRSISRHcVVTRTSTQVASHAQKYF 166
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKE-LPGRTAEQCRERWRNLL 47
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 120-166 1.47e-06

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: 44.42  E-value: 1.47e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15237801   120 VPWKPFEHRQFLHGLKKYGkGDWRSISRHcVVTRTSTQVASHAQKYF 166
Cdd:pfam00249   2 GPWTPEEDELLLEAVEKLG-NRWKKIAKL-LPGRTDNQCKNRWQNYL 46
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 120-157 3.59e-03

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 34.85  E-value: 3.59e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 15237801 120 VPWKPFEHRQFLHGLKKYGKGDWRSISRHC--VVTRTSTQ 157
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYffVNNRTSVD 40
 
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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