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Conserved domains on  [gi|15238535|ref|NP_198405|]
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Duplicated homeodomain-like superfamily protein [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 1000535)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein may be involved in the regulation of gene expression

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03212 super family cl31985
Transcription repressor MYB5; Provisional
 1-126 3.49e-53

Transcription repressor MYB5; Provisional


The actual alignment was detected with superfamily member PLN03212:

Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 172.57  E-value: 3.49e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535    1 MGKRATTSVRREELNRGAWTDHEDKILRDYITTHGEGKWSTLPNQAGLKRCGKSCRLRWKNYLRPGIKRGNISSDEEELI 80
Cdd:PLN03212  10 VSKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLI 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 15238535   81 IRLHNLLGNRWSLIAGRLPGRTDNEIKNHWNSNLRKRLPKT----QTKQP 126
Cdd:PLN03212  90 LRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQgidpQTHKP 139
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 1-126 3.49e-53

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 172.57  E-value: 3.49e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535    1 MGKRATTSVRREELNRGAWTDHEDKILRDYITTHGEGKWSTLPNQAGLKRCGKSCRLRWKNYLRPGIKRGNISSDEEELI 80
Cdd:PLN03212  10 VSKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLI 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 15238535   81 IRLHNLLGNRWSLIAGRLPGRTDNEIKNHWNSNLRKRLPKT----QTKQP 126
Cdd:PLN03212  90 LRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQgidpQTHKP 139
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 13-138 6.82e-15

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: 73.67  E-value: 6.82e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535  13 ELNRGAWTDHEDKILRDYITTHGEGKWSTLPNQAGlKRCGKSCRLRWKNYLRPGIKRGNISSDEEELIIRLHNLLGNRWS 92
Cdd:COG5147  17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWS 95

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 15238535  93 LIAGRLPGRTDNEIKNHWNSNLRKRLPKTQTKQPKRIKHSTNNENN 138
Cdd:COG5147  96 TIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKIDPFN 141
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 69-114 8.01e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 66.76  E-value: 8.01e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15238535    69 RGNISSDEEELIIRLHNLLGNRWSLIAGRLPGRTDNEIKNHWNSNL 114
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
69-116 1.21e-10

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.31  E-value: 1.21e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15238535     69 RGNISSDEEELIIRLHNLLG-NRWSLIAGRLPGRTDNEIKNHWNSNLRK 116
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 73-114 4.50e-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: 53.73  E-value: 4.50e-10
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 15238535  73 SSDEEELIIRLHNLLG-NRWSLIAGRLPGRTDNEIKNHWNSNL 114
Cdd:cd00167   3 TEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 1-126 3.49e-53

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 172.57  E-value: 3.49e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535    1 MGKRATTSVRREELNRGAWTDHEDKILRDYITTHGEGKWSTLPNQAGLKRCGKSCRLRWKNYLRPGIKRGNISSDEEELI 80
Cdd:PLN03212  10 VSKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLI 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 15238535   81 IRLHNLLGNRWSLIAGRLPGRTDNEIKNHWNSNLRKRLPKT----QTKQP 126
Cdd:PLN03212  90 LRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQgidpQTHKP 139
PLN03091 PLN03091
hypothetical protein; Provisional
 11-118 1.27e-50

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 171.70  E-value: 1.27e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535   11 REELNRGAWTDHEDKILRDYITTHGEGKWSTLPNQAGLKRCGKSCRLRWKNYLRPGIKRGNISSDEEELIIRLHNLLGNR 90
Cdd:PLN03091   9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88

                         90       100
                 ....*....|....*....|....*...
gi 15238535   91 WSLIAGRLPGRTDNEIKNHWNSNLRKRL 118
Cdd:PLN03091  89 WSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 13-138 6.82e-15

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: 73.67  E-value: 6.82e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535  13 ELNRGAWTDHEDKILRDYITTHGEGKWSTLPNQAGlKRCGKSCRLRWKNYLRPGIKRGNISSDEEELIIRLHNLLGNRWS 92
Cdd:COG5147  17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWS 95

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 15238535  93 LIAGRLPGRTDNEIKNHWNSNLRKRLPKTQTKQPKRIKHSTNNENN 138
Cdd:COG5147  96 TIADYKDRRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKIDPFN 141
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 69-114 8.01e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 66.76  E-value: 8.01e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15238535    69 RGNISSDEEELIIRLHNLLGNRWSLIAGRLPGRTDNEIKNHWNSNL 114
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
69-116 1.21e-10

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.31  E-value: 1.21e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 15238535     69 RGNISSDEEELIIRLHNLLG-NRWSLIAGRLPGRTDNEIKNHWNSNLRK 116
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 73-114 4.50e-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: 53.73  E-value: 4.50e-10
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 15238535  73 SSDEEELIIRLHNLLG-NRWSLIAGRLPGRTDNEIKNHWNSNL 114
Cdd:cd00167   3 TEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 16-63 1.41e-09

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: 52.51  E-value: 1.41e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15238535    16 RGAWTDHEDKILRDYITTHGeGKWSTLPNQAGlKRCGKSCRLRWKNYL 63
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLP-GRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
16-65 8.92e-09

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 50.30  E-value: 8.92e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 15238535     16 RGAWTDHEDKILRDYITTHGEGKWSTLPNQAGlKRCGKSCRLRWKNYLRP 65
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 18-63 2.65e-08

'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: 48.73  E-value: 2.65e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 15238535  18 AWTDHEDKILRDYITTHGEGKWSTLPNQAGlKRCGKSCRLRWKNYL 63
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 19-78 8.27e-08

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: 48.08  E-value: 8.27e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 15238535    19 WTDHEDKILRDYITTHGeGKWSTLPNQAGlKRCGKSCRLRWKNYLRPGIKRGNISSDEEE 78
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEEDQ 58
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 73-115 1.93e-04

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: 38.45  E-value: 1.93e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15238535    73 SSDEEELIIRLHNLLGNRWSLIAGRLPGRTDNEIKNHWNSNLR 115
Cdd:pfam13921   2 TEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLN 44
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 65-111 9.15e-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: 33.82  E-value: 9.15e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 15238535  65 PGIKRGNISSDEEELIIRLHNLLGNRWSLIAgRLPGRTDNEIKNHWN 111
Cdd:cd11659   1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIA-PIVGRTAQQCLERYN 46
 
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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