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Conserved domains on  [gi|18394106|ref|NP_563948|]
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Duplicated homeodomain-like superfamily protein [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 999994)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PLN03091 super family cl33633
hypothetical protein; Provisional
28-223 1.54e-17

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 84.26  E-value: 1.54e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106   28 WSQEEDVILREQITLHGTENWAIIASKFK-DKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLLCEAQRVFGNRWTEIAKVV 106
Cdd:PLN03091  17 WSPEEDEKLLRHITKYGHGCWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQL 96
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106  107 SGRTDNAVKNRFTTLCKKRAK--------HEAMTKDSNSNTKRMLfldgisTPRKSENETPIAkklkrSHILDLTEISNY 178
Cdd:PLN03091  97 PGRTDNEIKNLWNSCLKKKLRqrgidpntHKPLSEVENGEDKNPP------TDDKSDKASSVV-----SNELNLLKADNS 165
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 18394106  179 gRAEACVNQQIRSPFSVLARNATGIDSLEEQNQTSNVNESDGEGM 223
Cdd:PLN03091 166 -KPLAALQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNL 209
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
28-223 1.54e-17

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 84.26  E-value: 1.54e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106   28 WSQEEDVILREQITLHGTENWAIIASKFK-DKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLLCEAQRVFGNRWTEIAKVV 106
Cdd:PLN03091  17 WSPEEDEKLLRHITKYGHGCWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQL 96
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106  107 SGRTDNAVKNRFTTLCKKRAK--------HEAMTKDSNSNTKRMLfldgisTPRKSENETPIAkklkrSHILDLTEISNY 178
Cdd:PLN03091  97 PGRTDNEIKNLWNSCLKKKLRqrgidpntHKPLSEVENGEDKNPP------TDDKSDKASSVV-----SNELNLLKADNS 165
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 18394106  179 gRAEACVNQQIRSPFSVLARNATGIDSLEEQNQTSNVNESDGEGM 223
Cdd:PLN03091 166 -KPLAALQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNL 209
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
19-157 2.08e-16

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 80.99  E-value: 2.08e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106  19 KKKERHIVTWSQEEDVILREQITLHGTENWAIIASKFKDKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLLCEAQRVFGNR 98
Cdd:COG5147  14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93
                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18394106  99 WTEIAKVVSGRTDNAVKNRFTTLCKKR-AKHEAMTKDSNSNTKRMLFLDGIST-PRKSENE 157
Cdd:COG5147  94 WSTIADYKDRRTAQQCVERYVNTLEDLsSTHDSKLQRRNEFDKIDPFNENSARrPDIYEDE 154
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
28-88 4.28e-13

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


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 63.87  E-value: 4.28e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18394106    28 WSQEEDVILREQITLHGtENWAIIASKFKDKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLL 88
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
27-71 2.06e-11

'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: 58.36  E-value: 2.06e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 18394106  27 TWSQEEDVILREQITLHGTENWAIIASKFKDKSTRQCRRRWYTYL 71
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
27-73 5.68e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 57.23  E-value: 5.68e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 18394106     27 TWSQEEDVILREQITLHGTENWAIIASKFKDKSTRQCRRRWYTYLNS 73
Cdd:smart00717   3 EWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
28-223 1.54e-17

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 84.26  E-value: 1.54e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106   28 WSQEEDVILREQITLHGTENWAIIASKFK-DKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLLCEAQRVFGNRWTEIAKVV 106
Cdd:PLN03091  17 WSPEEDEKLLRHITKYGHGCWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQL 96
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106  107 SGRTDNAVKNRFTTLCKKRAK--------HEAMTKDSNSNTKRMLfldgisTPRKSENETPIAkklkrSHILDLTEISNY 178
Cdd:PLN03091  97 PGRTDNEIKNLWNSCLKKKLRqrgidpntHKPLSEVENGEDKNPP------TDDKSDKASSVV-----SNELNLLKADNS 165
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 18394106  179 gRAEACVNQQIRSPFSVLARNATGIDSLEEQNQTSNVNESDGEGM 223
Cdd:PLN03091 166 -KPLAALQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNL 209
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
19-157 2.08e-16

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 80.99  E-value: 2.08e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106  19 KKKERHIVTWSQEEDVILREQITLHGTENWAIIASKFKDKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLLCEAQRVFGNR 98
Cdd:COG5147  14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93
                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18394106  99 WTEIAKVVSGRTDNAVKNRFTTLCKKR-AKHEAMTKDSNSNTKRMLFLDGIST-PRKSENE 157
Cdd:COG5147  94 WSTIADYKDRRTAQQCVERYVNTLEDLsSTHDSKLQRRNEFDKIDPFNENSARrPDIYEDE 154
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
28-186 1.34e-14

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 73.19  E-value: 1.34e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106   28 WSQEEDVILREQITLHGTENWAIIASKFKD-KSTRQCRRRWYTYLNSDFKRGGWSPEEDMLLCEAQRVFGNRWTEIAKVV 106
Cdd:PLN03212  28 WTVEEDEILVSFIKKEGEGRWRSLPKRAGLlRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIAGRI 107
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394106  107 SGRTDNAVKNRFTTLCKKRAKHEAMtkdsNSNTKRMLFLDGISTPRK--SENETPIAKKLKRSHILDLTEISNYGRAEAC 184
Cdd:PLN03212 108 PGRTDNEIKNYWNTHLRKKLLRQGI----DPQTHKPLDANNIHKPEEevSGGQKYPIEPISSSHTDDTTVNGGDGDSKNS 183

                 ..
gi 18394106  185 VN 186
Cdd:PLN03212 184 IN 185
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
28-88 4.28e-13

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


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 63.87  E-value: 4.28e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18394106    28 WSQEEDVILREQITLHGtENWAIIASKFKDKSTRQCRRRWYTYLNSDFKRGGWSPEEDMLL 88
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
77-121 5.05e-12

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: 60.21  E-value: 5.05e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 18394106    77 RGGWSPEEDMLLCEAQRVFGNRWTEIAKVVSGRTDNAVKNRFTTL 121
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNY 45
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
27-71 2.06e-11

'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: 58.36  E-value: 2.06e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 18394106  27 TWSQEEDVILREQITLHGTENWAIIASKFKDKSTRQCRRRWYTYL 71
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
27-73 5.68e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 57.23  E-value: 5.68e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 18394106     27 TWSQEEDVILREQITLHGTENWAIIASKFKDKSTRQCRRRWYTYLNS 73
Cdd:smart00717   3 EWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
80-121 4.06e-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.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 54.89  E-value: 4.06e-10
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 18394106  80 WSPEEDMLLCEAQRVFG-NRWTEIAKVVSGRTDNAVKNRFTTL 121
Cdd:cd00167   2 WTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNL 44
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
28-71 5.16e-10

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: 54.43  E-value: 5.16e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 18394106    28 WSQEEDVILREQITLHGTeNWAIIASKFKDKSTRQCRRRWYTYL 71
Cdd:pfam00249   4 WTPEEDELLLEAVEKLGN-RWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
77-124 1.23e-09

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 53.77  E-value: 1.23e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 18394106     77 RGGWSPEEDMLLCEAQRVFG-NRWTEIAKVVSGRTDNAVKNRFTTLCKK 124
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
80-133 7.92e-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: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 43.07  E-value: 7.92e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 18394106    80 WSPEEDMLLCEAQRVFGNRWTEIAKVVSGRTDNAVKNRFTTLCKKRAKHEAMTK 133
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSK 54
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
28-69 5.72e-05

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: 40.24  E-value: 5.72e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 18394106  28 WSQEEDVILREQITLHGTENWAIIASKFKDKSTR---QCRRRWYT 69
Cdd:cd11660   3 WTDEEDEALVEGVEKYGVGNWAKILKDYFFVNNRtsvDLKDKWRN 47
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
80-123 9.74e-04

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: 36.78  E-value: 9.74e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*...
gi 18394106  80 WSPEEDMLLCEAQRVFGN-RWTEIAK---VVSGRTDNAVKNRFTTLCK 123
Cdd:cd11660   3 WTDEEDEALVEGVEKYGVgNWAKILKdyfFVNNRTSVDLKDKWRNLKK 50
 
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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