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Conserved domains on  [gi|15221922|ref|NP_173334|]
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Homeodomain-like superfamily protein [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 229385)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein binds DNA and may function as a transcription factor; similar to Arabidopsis thaliana protein CCA1 and protein REVEILLE

CATH:  1.20.58.1880
Gene Ontology:  GO:0006355|GO:0003677|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 ...
 99-148 2.59e-15

'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: 68.58  E-value: 2.59e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 15221922    99 KRGVPWTENEHKRFLIGLQKVGKGDW---KGISRNFVKSR-TPTQVASHAQKYF 148
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGPDWatpKRILELMVVDGlTRDQVASHLQKYR 54
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 99-148 2.59e-15

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: 68.58  E-value: 2.59e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 15221922    99 KRGVPWTENEHKRFLIGLQKVGKGDW---KGISRNFVKSR-TPTQVASHAQKYF 148
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGPDWatpKRILELMVVDGlTRDQVASHLQKYR 54
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 102-148 2.89e-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: 43.26  E-value: 2.89e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15221922   102 VPWTENEHKRFLIGLQKVGkGDWKGISRnFVKSRTPTQVASHAQKYF 148
Cdd:pfam00249   2 GPWTPEEDELLLEAVEKLG-NRWKKIAK-LLPGRTDNQCKNRWQNYL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 103-148 4.45e-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: 42.95  E-value: 4.45e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15221922 103 PWTENEHKRFLIGLQKVGKGDWKGISRNfVKSRTPTQVASHAQKYF 148
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKE-LPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
101-148 6.57e-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: 6.57e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 15221922    101 GVPWTENEHKRFLIGLQKVGKGDWKGISRNFvKSRTPTQVASHAQKYF 148
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL-PGRTAEQCRERWRNLL 47
COG5114 COG5114
Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];
104-148 7.36e-03

Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];


Pssm-ID: 227445 [Multi-domain]  Cd Length: 432  Bit Score: 37.74  E-value: 7.36e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15221922 104 WTENEHKRFLIGLQKVGKGDWKGISRnFVKSRTPTQVASHAQKYF 148
Cdd:COG5114  66 WGADEELLLIECLDTLGLGNWEDIAD-YIGSRAKEEIKSHYLKMY 109
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 99-148 2.59e-15

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: 68.58  E-value: 2.59e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 15221922    99 KRGVPWTENEHKRFLIGLQKVGKGDW---KGISRNFVKSR-TPTQVASHAQKYF 148
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGPDWatpKRILELMVVDGlTRDQVASHLQKYR 54
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 102-148 2.89e-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: 43.26  E-value: 2.89e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15221922   102 VPWTENEHKRFLIGLQKVGkGDWKGISRnFVKSRTPTQVASHAQKYF 148
Cdd:pfam00249   2 GPWTPEEDELLLEAVEKLG-NRWKKIAK-LLPGRTDNQCKNRWQNYL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 103-148 4.45e-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: 42.95  E-value: 4.45e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15221922 103 PWTENEHKRFLIGLQKVGKGDWKGISRNfVKSRTPTQVASHAQKYF 148
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKE-LPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
101-148 6.57e-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: 6.57e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 15221922    101 GVPWTENEHKRFLIGLQKVGKGDWKGISRNFvKSRTPTQVASHAQKYF 148
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL-PGRTAEQCRERWRNLL 47
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 102-139 5.79e-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: 34.08  E-value: 5.79e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 15221922 102 VPWTENEHKRFLIGLQKVGKGDWKGISR--NFVKSRTPTQ 139
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKdyFFVNNRTSVD 40
COG5114 COG5114
Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];
104-148 7.36e-03

Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];


Pssm-ID: 227445 [Multi-domain]  Cd Length: 432  Bit Score: 37.74  E-value: 7.36e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15221922 104 WTENEHKRFLIGLQKVGKGDWKGISRnFVKSRTPTQVASHAQKYF 148
Cdd:COG5114  66 WGADEELLLIECLDTLGLGNWEDIAD-YIGSRAKEEIKSHYLKMY 109
 
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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