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Conserved domains on  [gi|18421985|ref|NP_568582|]
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myb domain protein 22 [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
 49-148 1.47e-18

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: 1.47e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985   49 KSDITKKRWTESEDIKLKEMVALEPKK-WTKVAKHFE-GRTPKQCRERWHNHARPNVKKTTWSEEEDQILIEVHKVIGAK 126
Cdd:PLN03091   9 KQKLRKGLWSPEEDEKLLRHITKYGHGcWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88

                         90       100
                 ....*....|....*....|..
gi 18421985  127 WIQISEQLPGRSYNNVKNHWNT 148
Cdd:PLN03091  89 WSQIAAQLPGRTDNEIKNLWNS 110
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 49-148 1.47e-18

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 84.26  E-value: 1.47e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985   49 KSDITKKRWTESEDIKLKEMVALEPKK-WTKVAKHFE-GRTPKQCRERWHNHARPNVKKTTWSEEEDQILIEVHKVIGAK 126
Cdd:PLN03091   9 KQKLRKGLWSPEEDEKLLRHITKYGHGcWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88

                         90       100
                 ....*....|....*....|..
gi 18421985  127 WIQISEQLPGRSYNNVKNHWNT 148
Cdd:PLN03091  89 WSQIAAQLPGRTDNEIKNLWNS 110
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 42-218 1.92e-17

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: 1.92e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985  42 STSKYLKKSDITKKRWTESEDIKLKEMVA-LEPKKWTKVAKHFEGRTPKQCRERWHNHARPNVKKTTWSEEEDQILIEVH 120
Cdd:COG5147   8 ELQIKLMQTKRKGGSWKRTEDEDLKALVKkLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLD 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985 121 KVIGAKWIQISEQLPGRSYNNVKNHWNTTKRRVQNKSGRTVNRVGNNILENyirsitiNNDDESDGEPTNIENYHDDSed 200
Cdd:COG5147  88 KELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKID-------PFNENSARRPDIYEDELLER-- 158

                       170
                ....*....|....*...
gi 18421985 201 mlygEMNLSPEAITQTTK 218
Cdd:COG5147 159 ----EVNREASYRLRVPR 172
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 54-98 2.06e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 62.91  E-value: 2.06e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 18421985    54 KKRWTESEDIKLKEMVALEPKKWTKVAKHFEGRTPKQCRERWHNH 98
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNY 45
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 56-98 8.91e-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: 55.66  E-value: 8.91e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 18421985  56 RWTESEDIKLKEMVA-LEPKKWTKVAKHFEGRTPKQCRERWHNH 98
Cdd:cd00167   1 PWTEEEDELLLEAVKkYGKNNWEKIAKELPGRTPKQCRERWRNL 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
54-101 9.50e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.69  E-value: 9.50e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 18421985     54 KKRWTESEDIKLKEMVA-LEPKKWTKVAKHFEGRTPKQCRERWHNHARP 101
Cdd:smart00717   1 KGEWTEEEDELLIELVKkYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 49-148 1.47e-18

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 84.26  E-value: 1.47e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985   49 KSDITKKRWTESEDIKLKEMVALEPKK-WTKVAKHFE-GRTPKQCRERWHNHARPNVKKTTWSEEEDQILIEVHKVIGAK 126
Cdd:PLN03091   9 KQKLRKGLWSPEEDEKLLRHITKYGHGcWSSVPKQAGlQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88

                         90       100
                 ....*....|....*....|..
gi 18421985  127 WIQISEQLPGRSYNNVKNHWNT 148
Cdd:PLN03091  89 WSQIAAQLPGRTDNEIKNLWNS 110
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 42-218 1.92e-17

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: 1.92e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985  42 STSKYLKKSDITKKRWTESEDIKLKEMVA-LEPKKWTKVAKHFEGRTPKQCRERWHNHARPNVKKTTWSEEEDQILIEVH 120
Cdd:COG5147   8 ELQIKLMQTKRKGGSWKRTEDEDLKALVKkLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLD 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985 121 KVIGAKWIQISEQLPGRSYNNVKNHWNTTKRRVQNKSGRTVNRVGNNILENyirsitiNNDDESDGEPTNIENYHDDSed 200
Cdd:COG5147  88 KELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKID-------PFNENSARRPDIYEDELLER-- 158

                       170
                ....*....|....*...
gi 18421985 201 mlygEMNLSPEAITQTTK 218
Cdd:COG5147 159 ----EVNREASYRLRVPR 172
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 43-152 3.19e-15

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 72.80  E-value: 3.19e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985   43 TSKYLKKSDITKKRWTESEDIKLKEMVALEPK-KWTKVAKHfEG--RTPKQCRERWHNHARPNVKKTTWSEEEDQILIEV 119
Cdd:PLN03212  14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEgRWRSLPKR-AGllRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92

                         90       100       110
                 ....*....|....*....|....*....|...
gi 18421985  120 HKVIGAKWIQISEQLPGRSYNNVKNHWNTTKRR 152
Cdd:PLN03212  93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRK 125
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 54-98 2.06e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 62.91  E-value: 2.06e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 18421985    54 KKRWTESEDIKLKEMVALEPKKWTKVAKHFEGRTPKQCRERWHNH 98
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNY 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 57-116 2.37e-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: 63.10  E-value: 2.37e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985    57 WTESEDIKLKEMVALEPKKWTKVAKHFEGRTPKQCRERWHNHARPNVKKTTWSEEEDQIL 116
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 56-98 8.91e-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: 55.66  E-value: 8.91e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 18421985  56 RWTESEDIKLKEMVA-LEPKKWTKVAKHFEGRTPKQCRERWHNH 98
Cdd:cd00167   1 PWTEEEDELLLEAVKkYGKNNWEKIAKELPGRTPKQCRERWRNL 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
54-101 9.50e-11

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.69  E-value: 9.50e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 18421985     54 KKRWTESEDIKLKEMVA-LEPKKWTKVAKHFEGRTPKQCRERWHNHARP 101
Cdd:smart00717   1 KGEWTEEEDELLIELVKkYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 105-150 6.77e-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: 53.28  E-value: 6.77e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 18421985   105 KTTWSEEEDQILIEVHKVIGAKWIQISEQLPGRSYNNVKNHWNTTK 150
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
105-152 5.13e-08

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 48.37  E-value: 5.13e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 18421985    105 KTTWSEEEDQILIEVHKVIGAK-WIQISEQLPGRSYNNVKNHWNTTKRR 152
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNnWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 107-150 3.38e-07

'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: 45.64  E-value: 3.38e-07
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 18421985 107 TWSEEEDQILIEVHKVIGAK-WIQISEQLPGRSYNNVKNHWNTTK 150
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNnWEKIAKELPGRTPKQCRERWRNLL 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 108-157 8.94e-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: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 44.99  E-value: 8.94e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18421985   108 WSEEEDQILIEVHKVIGAKWIQISEQLPGRSYNNVKNHWNTTKRRVQNKS 157
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKISRG 50
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 11-119 1.90e-04

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: 42.08  E-value: 1.90e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18421985  11 VLEGIKNTTNEIMNQLEDDKMKKTYENKKeaSTSKYLKKS-DITKKR--WTESEDIKLKEMVALEPKKWTKVAKHFeGRT 87
Cdd:COG5147 247 FCERIWSTDRDEDKFWPNIYKKLPYRDKK--SIYKHLRRKyNIFEQRgkWTKEEEQELAKLVVEHGGSWTEIGKLL-GRM 323

                        90       100       110
                ....*....|....*....|....*....|....
gi 18421985  88 PKQCRERWHNHARP--NVKKTTWSEEEDQILIEV 119
Cdd:COG5147 324 PNDCRDRWRDYVKCgdTLKRNRWSIEEEELLDKV 357
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 52-95 2.84e-04

SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, cell division cycle 5-like protein (CDC5) functions in pre-mRNA splicing in cell cycle control. The DNA-binding, myb-like domain of CDC5 is a member 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 DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212557 [Multi-domain]  Cd Length: 53  Bit Score: 38.06  E-value: 2.84e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 18421985  52 ITKKRWTESEDIKLKEMVALEPKKWTKVAKhFEGRTPKQCRERW 95
Cdd:cd11659   3 IKKTEWTREEDEKLLHLAKLLPTQWRTIAP-IVGRTAQQCLERY 45
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 101-132 2.08e-03

SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, cell division cycle 5-like protein (CDC5) functions in pre-mRNA splicing in cell cycle control. The DNA-binding, myb-like domain of CDC5 is a member 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 DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212557 [Multi-domain]  Cd Length: 53  Bit Score: 35.36  E-value: 2.08e-03
                        10        20        30
                ....*....|....*....|....*....|..
gi 18421985 101 PNVKKTTWSEEEDQILIEVHKVIGAKWIQISE 132
Cdd:cd11659   1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAP 32
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 55-97 3.74e-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: 34.47  E-value: 3.74e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 18421985  55 KRWTESEDIKLKEMVA-LEPKKWTKVAKHF---EGRTPKQCRERWHN 97
Cdd:cd11660   1 RKWTDEEDEALVEGVEkYGVGNWAKILKDYffvNNRTSVDLKDKWRN 47
 
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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