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Conserved domains on  [gi|79324967|ref|NP_001031568|]
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Homeodomain-like superfamily protein [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 229385)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein binds DNA and may function as a transcription factor; similar to Arabidopsis thaliana protein CCA1 and protein REVEILLE

CATH:  1.20.58.1880
Gene Ontology:  GO:0006355|GO:0003677|GO:0003700
PubMed:  8882580
SCOP:  4000317

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SANT super family cl21498
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 57-107 7.57e-15

'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.


The actual alignment was detected with superfamily member TIGR01557:

Pssm-ID: 473887 [Multi-domain]  Cd Length: 57  Bit Score: 67.81  E-value: 7.57e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 79324967    57 KSRENWTDQEHDKFLEALHLFDR-DW---KKI-EAFVGSK-TVVQIRSHAQKYFLKV 107
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGpDWatpKRIlELMVVDGlTRDQVASHLQKYRLKQ 57
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 57-107 7.57e-15

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 67.81  E-value: 7.57e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 79324967    57 KSRENWTDQEHDKFLEALHLFDR-DW---KKI-EAFVGSK-TVVQIRSHAQKYFLKV 107
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGpDWatpKRIlELMVVDGlTRDQVASHLQKYRLKQ 57
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 59-104 4.83e-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: 59.82  E-value: 4.83e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 79324967    59 RENWTDQEHDKFLEALHLFDRDWKKIEAFVGSKTVVQIRSHAQKYF 104
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
59-104 1.14e-08

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 50.30  E-value: 1.14e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 79324967     59 RENWTDQEHDKFLEALHLFD-RDWKKIEAFVGSKTVVQIRSHAQKYF 104
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLL 47
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 61-104 1.97e-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: 49.50  E-value: 1.97e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 79324967  61 NWTDQEHDKFLEALHLFD-RDWKKIEAFVGSKTVVQIRSHAQKYF 104
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
 60-113 5.42e-04

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 41.41  E-value: 5.42e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 79324967  60 ENWTDQEHDKFLEALHLFDRDWKKIEAFVGSKTVVQIRSH------AQKYFLKVQKSGAN 113
Cdd:COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHflqlpiEDNYLSKGDGKGDN 339
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 57-107 7.57e-15

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 67.81  E-value: 7.57e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 79324967    57 KSRENWTDQEHDKFLEALHLFDR-DW---KKI-EAFVGSK-TVVQIRSHAQKYFLKV 107
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGpDWatpKRIlELMVVDGlTRDQVASHLQKYRLKQ 57
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 59-104 4.83e-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: 59.82  E-value: 4.83e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 79324967    59 RENWTDQEHDKFLEALHLFDRDWKKIEAFVGSKTVVQIRSHAQKYF 104
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
59-104 1.14e-08

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 50.30  E-value: 1.14e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 79324967     59 RENWTDQEHDKFLEALHLFD-RDWKKIEAFVGSKTVVQIRSHAQKYF 104
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLL 47
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 61-104 1.97e-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: 49.50  E-value: 1.97e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 79324967  61 NWTDQEHDKFLEALHLFD-RDWKKIEAFVGSKTVVQIRSHAQKYF 104
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
 60-113 5.42e-04

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 41.41  E-value: 5.42e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 79324967  60 ENWTDQEHDKFLEALHLFDRDWKKIEAFVGSKTVVQIRSH------AQKYFLKVQKSGAN 113
Cdd:COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHflqlpiEDNYLSKGDGKGDN 339
 
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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