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Conserved domains on  [gi|1002282372|ref|XP_015645477|]
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myb-related protein Hv33 [Oryza sativa Japonica Group]

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
 1-129 4.74e-90

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PLN03091:

Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 277.24  E-value: 4.74e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002282372   1 MAKRAGGARKKLRRGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGLERCGKSCRLRWINYLRPDLKRGAFSQEEEDLIIH 80
Cdd:PLN03091    1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1002282372  81 LHSMLGNKWSQIAAQLPGRTDNEVKNFWNSYIKKKLRQRGIDPATHKPL 129
Cdd:PLN03091   81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPL 129
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 1-129 4.74e-90

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 277.24  E-value: 4.74e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002282372   1 MAKRAGGARKKLRRGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGLERCGKSCRLRWINYLRPDLKRGAFSQEEEDLIIH 80
Cdd:PLN03091    1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1002282372  81 LHSMLGNKWSQIAAQLPGRTDNEVKNFWNSYIKKKLRQRGIDPATHKPL 129
Cdd:PLN03091   81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPL 129
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 9-113 1.18e-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: 83.68  E-value: 1.18e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002282372   9 RKKLRRGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGLeRCGKSCRLRWINYLRPDLKRGAFSQEEEDLIIHLHSMLGNK 88
Cdd:COG5147    15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93

                          90       100
                  ....*....|....*....|....*
gi 1002282372  89 WSQIAAQLPGRTDNEVKNFWNSYIK 113
Cdd:COG5147    94 WSTIADYKDRRTAQQCVERYVNTLE 118
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 67-112 5.81e-17

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: 73.69  E-value: 5.81e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002282372  67 RGAFSQEEEDLIIHLHSMLGNKWSQIAAQLPGRTDNEVKNFWNSYI 112
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
67-114 1.76e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 61.09  E-value: 1.76e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1002282372   67 RGAFSQEEEDLIIHLHSMLG-NKWSQIAAQLPGRTDNEVKNFWNSYIKK 114
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 17-61 7.97e-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: 59.13  E-value: 7.97e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002282372  17 WSPEEDEKLMNHIAKYGHGCWSSVPKLAGLeRCGKSCRLRWINYL 61
Cdd:cd00167     2 WTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45
 
Name Accession Description Interval E-value
PLN03091 PLN03091
hypothetical protein; Provisional
 1-129 4.74e-90

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 277.24  E-value: 4.74e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002282372   1 MAKRAGGARKKLRRGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGLERCGKSCRLRWINYLRPDLKRGAFSQEEEDLIIH 80
Cdd:PLN03091    1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1002282372  81 LHSMLGNKWSQIAAQLPGRTDNEVKNFWNSYIKKKLRQRGIDPATHKPL 129
Cdd:PLN03091   81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPL 129
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 12-129 5.47e-54

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 177.58  E-value: 5.47e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002282372  12 LRRGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGLERCGKSCRLRWINYLRPDLKRGAFSQEEEDLIIHLHSMLGNKWSQ 91
Cdd:PLN03212   23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSL 102

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1002282372  92 IAAQLPGRTDNEVKNFWNSYIKKKLRQRGIDPATHKPL 129
Cdd:PLN03212  103 IAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPL 140
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 9-113 1.18e-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: 83.68  E-value: 1.18e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002282372   9 RKKLRRGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGLeRCGKSCRLRWINYLRPDLKRGAFSQEEEDLIIHLHSMLGNK 88
Cdd:COG5147    15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93

                          90       100
                  ....*....|....*....|....*
gi 1002282372  89 WSQIAAQLPGRTDNEVKNFWNSYIK 113
Cdd:COG5147    94 WSTIADYKDRRTAQQCVERYVNTLE 118
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 67-112 5.81e-17

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: 73.69  E-value: 5.81e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002282372  67 RGAFSQEEEDLIIHLHSMLGNKWSQIAAQLPGRTDNEVKNFWNSYI 112
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 14-61 1.22e-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: 64.45  E-value: 1.22e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1002282372  14 RGLWSPEEDEKLMNHIAKYGhGCWSSVPKLAGLeRCGKSCRLRWINYL 61
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAKLLPG-RTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
67-114 1.76e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 61.09  E-value: 1.76e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1002282372   67 RGAFSQEEEDLIIHLHSMLG-NKWSQIAAQLPGRTDNEVKNFWNSYIKK 114
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
14-63 4.56e-12

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 59.93  E-value: 4.56e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 1002282372   14 RGLWSPEEDEKLMNHIAKYGHGCWSSVPKLAGlERCGKSCRLRWINYLRP 63
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWRNLLKP 49
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 17-75 4.72e-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: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 60.40  E-value: 4.72e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1002282372  17 WSPEEDEKLMNHIAKYGHGcWSSVPKLAGlERCGKSCRLRWINYLRPDLKRGAFSQEEE 75
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGND-WKQIAKELG-RRTPKQCFDRWRRKLNPKISRGPWSKEED 57
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 17-61 7.97e-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: 59.13  E-value: 7.97e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002282372  17 WSPEEDEKLMNHIAKYGHGCWSSVPKLAGLeRCGKSCRLRWINYL 61
Cdd:cd00167     2 WTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 69-112 3.73e-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: 57.59  E-value: 3.73e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002282372  69 AFSQEEEDLIIHLHSMLG-NKWSQIAAQLPGRTDNEVKNFWNSYI 112
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, ...
 70-118 9.82e-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: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 51.16  E-value: 9.82e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1002282372  70 FSQEEEDLIIHLHSMLGNKWSQIAAQLPGRTDNEVKNFWNSYIKKKLRQ 118
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWRRKLNPKISR 49
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 63-102 3.26e-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: 3.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1002282372  63 PDLKRGAFSQEEEDLIIHLHSMLGNKWSQIaAQLPGRTDN 102
Cdd:cd11659     1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTI-APIVGRTAQ 39
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 17-38 4.80e-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: 34.85  E-value: 4.80e-03
                          10        20
                  ....*....|....*....|..
gi 1002282372  17 WSPEEDEKLMNHIAKYGHGCWS 38
Cdd:cd11660     3 WTDEEDEALVEGVEKYGVGNWA 24
 
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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