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Conserved domains on  [gi|1002227207|ref|XP_015630688|]
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transcription factor MYB1 [Oryza sativa Japonica Group]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 1001130)

SANT/Myb-like DNA-binding domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REB1 super family cl34920
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 106-211 5.97e-25

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


The actual alignment was detected with superfamily member COG5147:

Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 106.41  E-value: 5.97e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 106 MEERVKGPWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHGNKW 185
Cdd:COG5147    15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                          90       100
                  ....*....|....*....|....*.
gi 1002227207 186 AAIAKLLVGRTDNAIKNHWNSTLRRR 211
Cdd:COG5147    95 STIADYKDRRTAQQCVERYVNTLEDL 120
 
Name Accession Description Interval E-value
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 106-211 5.97e-25

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: 106.41  E-value: 5.97e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 106 MEERVKGPWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHGNKW 185
Cdd:COG5147    15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                          90       100
                  ....*....|....*....|....*.
gi 1002227207 186 AAIAKLLVGRTDNAIKNHWNSTLRRR 211
Cdd:COG5147    95 STIADYKDRRTAQQCVERYVNTLEDL 120
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 111-211 1.50e-24

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 101.31  E-value: 1.50e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 111 KGPWSSDEDTLLSNLVEKLGPRNW-TLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHGNKWAAIA 189
Cdd:PLN03212   25 RGPWTVEEDEILVSFIKKEGEGRWrSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIA 104

                          90       100
                  ....*....|....*....|..
gi 1002227207 190 KLLVGRTDNAIKNHWNSTLRRR 211
Cdd:PLN03212  105 GRIPGRTDNEIKNYWNTHLRKK 126
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 163-208 2.81e-16

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: 72.15  E-value: 2.81e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002227207 163 RKPFTEEEDRIIMAAHAIHGNKWAAIAKLLVGRTDNAIKNHWNSTL 208
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
111-159 2.11e-14

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 66.86  E-value: 2.11e-14
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1002227207  111 KGPWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCNQLDP 159
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 113-155 1.19e-13

'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: 64.90  E-value: 1.19e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1002227207 113 PWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCN 155
Cdd:cd00167     1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
 
Name Accession Description Interval E-value
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 106-211 5.97e-25

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: 106.41  E-value: 5.97e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 106 MEERVKGPWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHGNKW 185
Cdd:COG5147    15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94

                          90       100
                  ....*....|....*....|....*.
gi 1002227207 186 AAIAKLLVGRTDNAIKNHWNSTLRRR 211
Cdd:COG5147    95 STIADYKDRRTAQQCVERYVNTLEDL 120
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 111-211 1.50e-24

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 101.31  E-value: 1.50e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 111 KGPWSSDEDTLLSNLVEKLGPRNW-TLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHGNKWAAIA 189
Cdd:PLN03212   25 RGPWTVEEDEILVSFIKKEGEGRWrSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIA 104

                          90       100
                  ....*....|....*....|..
gi 1002227207 190 KLLVGRTDNAIKNHWNSTLRRR 211
Cdd:PLN03212  105 GRIPGRTDNEIKNYWNTHLRKK 126
PLN03091 PLN03091
hypothetical protein; Provisional
 111-211 2.62e-24

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 104.29  E-value: 2.62e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 111 KGPWSSDEDTLLSNLVEKLGPRNWTLIAR--GIPgRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHGNKWAAI 188
Cdd:PLN03091   14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKqaGLQ-RCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQI 92

                          90       100
                  ....*....|....*....|...
gi 1002227207 189 AKLLVGRTDNAIKNHWNSTLRRR 211
Cdd:PLN03091   93 AAQLPGRTDNEIKNLWNSCLKKK 115
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 163-208 2.81e-16

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: 72.15  E-value: 2.81e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002227207 163 RKPFTEEEDRIIMAAHAIHGNKWAAIAKLLVGRTDNAIKNHWNSTL 208
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 114-172 2.07e-15

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: 70.03  E-value: 2.07e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1002227207 114 WSSDEDTLLSNLVEKLGpRNWTLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDR 172
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQ 58
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 111-157 1.29e-14

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: 67.53  E-value: 1.29e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1002227207 111 KGPWSSDEDTLLSNLVEKLGpRNWTLIARGIPGRSGKSCRLRWCNQL 157
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
111-159 2.11e-14

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 66.86  E-value: 2.11e-14
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1002227207  111 KGPWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCNQLDP 159
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 113-155 1.19e-13

'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: 64.90  E-value: 1.19e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1002227207 113 PWSSDEDTLLSNLVEKLGPRNWTLIARGIPGRSGKSCRLRWCN 155
Cdd:cd00167     1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRN 43
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
163-210 1.33e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 61.86  E-value: 1.33e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1002227207  163 RKPFTEEEDRIIMAAHAIHG-NKWAAIAKLLVGRTDNAIKNHWNSTLRR 210
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 165-208 9.14e-12

'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: 59.51  E-value: 9.14e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002227207 165 PFTEEEDRIIMAAHAIHG-NKWAAIAKLLVGRTDNAIKNHWNSTL 208
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, ...
 166-209 7.39e-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: 46.15  E-value: 7.39e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1002227207 166 FTEEEDRIIMAAHAIHGNKWAAIAKLLVGRTDNAIKNHWNSTLR 209
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLN 44
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 111-230 2.56e-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: 43.24  E-value: 2.56e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002227207 111 KGPWSSDEDTLLSNLVEKLGPRnWTLIARGIPGRSGKSCRLRWCNQLDPQVKRKPFTEEEDRIIMAAHAIHgNKWAAIAK 190
Cdd:COG5147    72 KKNWSEEEDEQLIDLDKELGTQ-WSTIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKIDPFN-ENSARRPD 149

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1002227207 191 LLVGRTDNAIKNHWNStLRRRHCTGGRCTqggVMKRAIPE 230
Cdd:COG5147   150 IYEDELLEREVNREAS-YRLRVPRVSKAD---VKPREKGE 185
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 159-198 1.90e-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: 36.13  E-value: 1.90e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1002227207 159 PQVKRKPFTEEEDRIIMAAHAIHGNKWAAIAKlLVGRTDN 198
Cdd:cd11659     1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAP-IVGRTAQ 39
 
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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