NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|28973231|gb|AAO63940|]
View 

unknown protein [Arabidopsis thaliana]

Protein Classification

myb/SANT-like DNA-binding domain-containing protein( domain architecture ID 10619758)

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

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

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Myb_DNA-bind_4 pfam13837
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb ...
 23-122 4.65e-19

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


:

Pssm-ID: 463994  Cd Length: 84  Bit Score: 80.00  E-value: 4.65e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    23 EDCWSEEATFTLIQAWGNRYVD-LSRGNLRQKH-WQEVANAVNDRHYNtgrnvsaaksqpyRTDVQCKNRIDTLKKKYKV 100
Cdd:pfam13837   1 RNKWTEEETLALIEIWGERLELrFQESKKRNKKlWEEIAEKMAELGYN-------------RSPEQCKEKWENLKKKYRK 67

                          90       100
                  ....*....|....*....|..
gi 28973231   101 EKARVSESNpgayiSPWPFFSA 122
Cdd:pfam13837  68 EKEGNNGSG-----SSWPFFEE 84
 
Name Accession Description Interval E-value
Myb_DNA-bind_4 pfam13837
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb ...
 23-122 4.65e-19

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


Pssm-ID: 463994  Cd Length: 84  Bit Score: 80.00  E-value: 4.65e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    23 EDCWSEEATFTLIQAWGNRYVD-LSRGNLRQKH-WQEVANAVNDRHYNtgrnvsaaksqpyRTDVQCKNRIDTLKKKYKV 100
Cdd:pfam13837   1 RNKWTEEETLALIEIWGERLELrFQESKKRNKKlWEEIAEKMAELGYN-------------RSPEQCKEKWENLKKKYRK 67

                          90       100
                  ....*....|....*....|..
gi 28973231   101 EKARVSESNpgayiSPWPFFSA 122
Cdd:pfam13837  68 EKEGNNGSG-----SSWPFFEE 84
MADF smart00595
subfamily of SANT domain;
34-124 1.71e-05

subfamily of SANT domain;


Pssm-ID: 214738  Cd Length: 89  Bit Score: 42.73  E-value: 1.71e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231     34 LIQA-------WGNRYVDLSRGNLRQKHWQEVANAVNdrhyntgrnvsaaksqpyRTDVQCKNRIDTLKKKYKVEKARVS 106
Cdd:smart00595   2 LIELvrerpclWDRRHPDYRNKEEKRKAWEEIAEELG------------------LSVEECKKRWKNLRDRYRRELKRLQ 63

                           90
                   ....*....|....*....
gi 28973231    107 ESNPGAYI-SPWPFFSALD 124
Cdd:smart00595  64 NGKSGGGKkSKWEYFDRLS 82
GT1 cd12203
GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription ...
 25-102 3.48e-03

GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcription pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resembles the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members 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 the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 213402  Cd Length: 66  Bit Score: 35.33  E-value: 3.48e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 28973231  25 CWSEEATFTLIQAWGNRYVDLSRGNLRQKHWQEVANAVNDRHYNtgrnvsaaksqpyRTDVQCKNRIDTLKKKYKVEK 102
Cdd:cd12203   2 RWPREETLSLIRLRREMESRFQETKSKKALWEEIAAKMRELGYN-------------RSAKQCKEKWENLNKYYKKVK 66
 
Name Accession Description Interval E-value
Myb_DNA-bind_4 pfam13837
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb ...
 23-122 4.65e-19

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


Pssm-ID: 463994  Cd Length: 84  Bit Score: 80.00  E-value: 4.65e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    23 EDCWSEEATFTLIQAWGNRYVD-LSRGNLRQKH-WQEVANAVNDRHYNtgrnvsaaksqpyRTDVQCKNRIDTLKKKYKV 100
Cdd:pfam13837   1 RNKWTEEETLALIEIWGERLELrFQESKKRNKKlWEEIAEKMAELGYN-------------RSPEQCKEKWENLKKKYRK 67

                          90       100
                  ....*....|....*....|..
gi 28973231   101 EKARVSESNpgayiSPWPFFSA 122
Cdd:pfam13837  68 EKEGNNGSG-----SSWPFFEE 84
MADF smart00595
subfamily of SANT domain;
34-124 1.71e-05

subfamily of SANT domain;


Pssm-ID: 214738  Cd Length: 89  Bit Score: 42.73  E-value: 1.71e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231     34 LIQA-------WGNRYVDLSRGNLRQKHWQEVANAVNdrhyntgrnvsaaksqpyRTDVQCKNRIDTLKKKYKVEKARVS 106
Cdd:smart00595   2 LIELvrerpclWDRRHPDYRNKEEKRKAWEEIAEELG------------------LSVEECKKRWKNLRDRYRRELKRLQ 63

                           90
                   ....*....|....*....
gi 28973231    107 ESNPGAYI-SPWPFFSALD 124
Cdd:smart00595  64 NGKSGGGKkSKWEYFDRLS 82
DUF5585 pfam17823
Family of unknown function (DUF5585); This is a family of unknown function found in chordata.
 11-177 6.19e-05

Family of unknown function (DUF5585); This is a family of unknown function found in chordata.


Pssm-ID: 465521 [Multi-domain]  Cd Length: 506  Bit Score: 44.57  E-value: 6.19e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    11 GSSRPSPATLSREDCWSEEATFTLIQAwgnryvdlsrgnlrqkHWQEVANAVNDrhYNTG----RNVSAAKSQPyrTDVQ 86
Cdd:pfam17823 232 GNSSPAAGTVTAAVGTVTPAALATLAA----------------AAGTVASAAGT--INMGdphaRRLSPAKHMP--SDTM 291

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    87 CKNRIDTLKKKYKVEKARVSESNPGAYISPWPFFSALDDLLRESFPTS-SNPDSTDNIPHQRLSLPMSINPVPVAPRSAI 165
Cdd:pfam17823 292 ARNPAAPMGAQAQGPIIQVSTDQPVHNTAGEPTPSPSNTTLEPNTPKSvASTNLAVVTTTKAQAKEPSASPVPVLHTSMI 371

                         170
                  ....*....|..
gi 28973231   166 PRRPATSPAIIP 177
Cdd:pfam17823 372 PEVEATSPTTQP 383
MADF_DNA_bdg pfam10545
Alcohol dehydrogenase transcription factor Myb/SANT-like; The myb/SANT-like domain in Adf-1 ...
 38-124 1.01e-04

Alcohol dehydrogenase transcription factor Myb/SANT-like; The myb/SANT-like domain in Adf-1 (MADF) is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains.


Pssm-ID: 463144  Cd Length: 84  Bit Score: 40.35  E-value: 1.01e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    38 WGNRYVDLSRGNLRQKHWQEVAnavndRHYNTGRNVSaaksqpyrtdvQCKNRIDTLKKKYKVEKARVSESNPGAYISPW 117
Cdd:pfam10545  12 WDRSHPDYRNRDARERAWEEIA-----EELGSDVPVE-----------DCKKRWKNLRDQYRRELRRKRTNSGELYKSRW 75


                  ....*..
gi 28973231   118 PFFSALD 124
Cdd:pfam10545  76 YYYEELS 82
GT1 cd12203
GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription ...
 25-102 3.48e-03

GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcription pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resembles the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members 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 the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 213402  Cd Length: 66  Bit Score: 35.33  E-value: 3.48e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 28973231  25 CWSEEATFTLIQAWGNRYVDLSRGNLRQKHWQEVANAVNDRHYNtgrnvsaaksqpyRTDVQCKNRIDTLKKKYKVEK 102
Cdd:cd12203   2 RWPREETLSLIRLRREMESRFQETKSKKALWEEIAAKMRELGYN-------------RSAKQCKEKWENLNKYYKKVK 66
Myb_DNA-bind_3 pfam12776
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT ...
 26-100 8.82e-03

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


Pssm-ID: 432776  Cd Length: 96  Bit Score: 34.98  E-value: 8.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28973231    26 WSEEATFTLIQAW------GNRYVDlsrGNLRQKHWQEVANAVNDRHYNtgrnvsaaksqpYRTDVQCKNRIDTLKKKYK 99
Cdd:pfam12776   2 WTPEMDRYFVDLLleqvnrGNRIEG---HTFNKEAWKEILAAFNAKTGA------------QYTKDQLKNRWDNLRKQYR 66


                  .
gi 28973231   100 V 100
Cdd:pfam12776  67 L 67
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH