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Conserved domains on  [gi|1063699060|ref|NP_001318284|]
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transcriptional factor B3 family protein [Arabidopsis thaliana]

Protein Classification

B3 domain-containing protein( domain architecture ID 10659976)

B3 DNA-binding domain-containing protein such as Arabidopsis thaliana REM1 that may play a role in flower development

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 57-153 3.32e-25

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


:

Pssm-ID: 214977  Cd Length: 96  Bit Score: 99.68  E-value: 3.32e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060   57 FVALVTASNLRKDALYLPQDLTSSVGLERKYREIVVTDERERrSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGGVFV 136
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGK-SWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063699060  137 FKLVGNRETpVLSFCST 153
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 193-287 1.91e-23

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


:

Pssm-ID: 214977  Cd Length: 96  Bit Score: 94.67  E-value: 1.91e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  193 FMTLTLTHDNLIKSRRQLPLPFMRENGLV-KPGIINLLGKDGTKWEVNLRREANGTMY-LGKGWKDFTIANGLKTGESFT 270
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063699060  271 LEAVlENGTRMLSLVST 287
Cdd:smart01019  81 FELD-GNGEFVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 338-432 1.00e-21

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


:

Pssm-ID: 214977  Cd Length: 96  Bit Score: 90.05  E-value: 1.00e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  338 VTLKLTHDNLIKSRRYLPLSFTRDNGLD-KPGMIFLLGKTGRKWEANLLREASGRIVLTGKGWKEFAMANGLKSGELFTL 416
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|....*.
gi 1063699060  417 EAIlEKGTPMLSLVNT 432
Cdd:smart01019  82 ELD-GNGEFVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 485-579 1.63e-19

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


:

Pssm-ID: 214977  Cd Length: 96  Bit Score: 83.50  E-value: 1.63e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  485 YVTLTLTPEDVRACTLILPSQFMKANGINKLGKK-TLLGQNRKKWFAYLLS--KSGFVALGSGWKGFCEANGVKTGESFN 561
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEiTLLDPDGKSWKVKLKYrgSSGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*...
gi 1063699060  562 LEYIdeQDTTPVFKFCSN 579
Cdd:smart01019  81 FELD--GNGEFVVSIFRK 96
 
Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 57-153 3.32e-25

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 99.68  E-value: 3.32e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060   57 FVALVTASNLRKDALYLPQDLTSSVGLERKYREIVVTDERERrSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGGVFV 136
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGK-SWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063699060  137 FKLVGNRETpVLSFCST 153
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 193-287 1.91e-23

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 94.67  E-value: 1.91e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  193 FMTLTLTHDNLIKSRRQLPLPFMRENGLV-KPGIINLLGKDGTKWEVNLRREANGTMY-LGKGWKDFTIANGLKTGESFT 270
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063699060  271 LEAVlENGTRMLSLVST 287
Cdd:smart01019  81 FELD-GNGEFVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 338-432 1.00e-21

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 90.05  E-value: 1.00e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  338 VTLKLTHDNLIKSRRYLPLSFTRDNGLD-KPGMIFLLGKTGRKWEANLLREASGRIVLTGKGWKEFAMANGLKSGELFTL 416
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|....*.
gi 1063699060  417 EAIlEKGTPMLSLVNT 432
Cdd:smart01019  82 ELD-GNGEFVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 485-579 1.63e-19

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 83.50  E-value: 1.63e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  485 YVTLTLTPEDVRACTLILPSQFMKANGINKLGKK-TLLGQNRKKWFAYLLS--KSGFVALGSGWKGFCEANGVKTGESFN 561
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEiTLLDPDGKSWKVKLKYrgSSGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*...
gi 1063699060  562 LEYIdeQDTTPVFKFCSN 579
Cdd:smart01019  81 FELD--GNGEFVVSIFRK 96
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 485-580 1.09e-18

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 81.65  E-value: 1.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 485 YVTLTLTPEDVRACTLILPSQFMKAN-GINKLGKK--TLLGQNRKKWFAYLLS--KSGFVALGSGWKGFCEANGVKTGES 559
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLSKeiTLLDEHGKSWTVKLRYrkKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|.
gi 1063699060 560 FNLEYIDEQDTTPVFKFCSNS 580
Cdd:pfam02362  81 LTFKLVGNSGFTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 56-154 2.13e-17

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 77.80  E-value: 2.13e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  56 CFVALVTASNLRKDALYLPQDLTSSV--GLERKYREIVVTDErERRSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGG 133
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsgLPKRLSKEITLLDE-HGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGD 79

                          90       100
                  ....*....|....*....|..
gi 1063699060 134 VFVFKLVGNRE-TPVLSFCSTE 154
Cdd:pfam02362  80 FLTFKLVGNSGfTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 193-282 4.01e-17

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 77.03  E-value: 4.01e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 193 FMTLTLTHDNLIKSRRQLPLPFMREN-GLVKPG--IINLLGKDGTKWEVNLRREANGTMY-LGKGWKDFTIANGLKTGES 268
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLskEITLLDEHGKSWTVKLRYRKKSGRYvLTGGWKEFVKANGLKAGDF 80

                          90
                  ....*....|....
gi 1063699060 269 FTLEAVLENGTRML 282
Cdd:pfam02362  81 LTFKLVGNSGFTPV 94
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 337-429 4.74e-17

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 76.64  E-value: 4.74e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 337 CVTLKLTHDNLIKSRRYLPLSFTRDN-GLDKPG--MIFLLGKTGRKWEANLLREASGRIVLTGKGWKEFAMANGLKSGEL 413
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLskEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90
                  ....*....|....*..
gi 1063699060 414 FTLEAIL-EKGTPMLSL 429
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGI 97
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 192-279 3.94e-16

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 73.90  E-value: 3.94e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 192 RFMTLTLTHDNLIKSRRQLPLPFMRENGLVKPGI-INLLGKDGTKWEVNLR-REANGTMYLGKGWKDFTIANGLKTGESF 269
Cdd:cd10017     2 LFFKVLTPSDVSSLGRLVLPKKFAKAHLPPKEGVeVTLEDPDGKKWTVKLKkRKNSGRMVLSGGWKEFVRANGLKEGDFL 81

                          90
                  ....*....|
gi 1063699060 270 TLEAVLENGT 279
Cdd:cd10017    82 VFELDGRNSK 91
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 484-578 1.49e-15

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 72.36  E-value: 1.49e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 484 RYVTLTLTPEDV-RACTLILPSQFMKANGINKLGKK-TLLGQNRKKWFAYLL--SKSGFVALGSGWKGFCEANGVKTGES 559
Cdd:cd10017     1 PLFFKVLTPSDVsSLGRLVLPKKFAKAHLPPKEGVEvTLEDPDGKKWTVKLKkrKNSGRMVLSGGWKEFVRANGLKEGDF 80

                          90
                  ....*....|....*....
gi 1063699060 560 FNLEYIDEqDTTPVFKFCS 578
Cdd:cd10017    81 LVFELDGR-NSKFKVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 56-152 2.05e-14

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 69.28  E-value: 2.05e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  56 CFVALVTASN-LRKDALYLPQDLTSSVGLERKYREIVVTDErERRSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGGV 134
Cdd:cd10017     2 LFFKVLTPSDvSSLGRLVLPKKFAKAHLPPKEGVEVTLEDP-DGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDF 80

                          90
                  ....*....|....*...
gi 1063699060 135 FVFKLVGNRETPVLSFCS 152
Cdd:cd10017    81 LVFELDGRNSKFKVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 336-429 3.78e-14

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 68.51  E-value: 3.78e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 336 RCVTLKLTH-DNLIKSRRYLPLSFTRDNGLDK-PGMIFLLGKTGRKWEANLL-REASGRIVLTGkGWKEFAMANGLKSGE 412
Cdd:cd10017     1 PLFFKVLTPsDVSSLGRLVLPKKFAKAHLPPKeGVEVTLEDPDGKKWTVKLKkRKNSGRMVLSG-GWKEFVRANGLKEGD 79

                          90
                  ....*....|....*..
gi 1063699060 413 LFTLEAILEKGTPMLSL 429
Cdd:cd10017    80 FLVFELDGRNSKFKVRI 96
 
Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 57-153 3.32e-25

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 99.68  E-value: 3.32e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060   57 FVALVTASNLRKDALYLPQDLTSSVGLERKYREIVVTDERERrSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGGVFV 136
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGK-SWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063699060  137 FKLVGNRETpVLSFCST 153
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 193-287 1.91e-23

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 94.67  E-value: 1.91e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  193 FMTLTLTHDNLIKSRRQLPLPFMRENGLV-KPGIINLLGKDGTKWEVNLRREANGTMY-LGKGWKDFTIANGLKTGESFT 270
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063699060  271 LEAVlENGTRMLSLVST 287
Cdd:smart01019  81 FELD-GNGEFVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 338-432 1.00e-21

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 90.05  E-value: 1.00e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  338 VTLKLTHDNLIKSRRYLPLSFTRDNGLD-KPGMIFLLGKTGRKWEANLLREASGRIVLTGKGWKEFAMANGLKSGELFTL 416
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|....*.
gi 1063699060  417 EAIlEKGTPMLSLVNT 432
Cdd:smart01019  82 ELD-GNGEFVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 485-579 1.63e-19

B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations.


Pssm-ID: 214977  Cd Length: 96  Bit Score: 83.50  E-value: 1.63e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  485 YVTLTLTPEDVRACTLILPSQFMKANGINKLGKK-TLLGQNRKKWFAYLLS--KSGFVALGSGWKGFCEANGVKTGESFN 561
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEiTLLDPDGKSWKVKLKYrgSSGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*...
gi 1063699060  562 LEYIdeQDTTPVFKFCSN 579
Cdd:smart01019  81 FELD--GNGEFVVSIFRK 96
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 485-580 1.09e-18

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 81.65  E-value: 1.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 485 YVTLTLTPEDVRACTLILPSQFMKAN-GINKLGKK--TLLGQNRKKWFAYLLS--KSGFVALGSGWKGFCEANGVKTGES 559
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLSKeiTLLDEHGKSWTVKLRYrkKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|.
gi 1063699060 560 FNLEYIDEQDTTPVFKFCSNS 580
Cdd:pfam02362  81 LTFKLVGNSGFTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 56-154 2.13e-17

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 77.80  E-value: 2.13e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  56 CFVALVTASNLRKDALYLPQDLTSSV--GLERKYREIVVTDErERRSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGG 133
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsgLPKRLSKEITLLDE-HGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGD 79

                          90       100
                  ....*....|....*....|..
gi 1063699060 134 VFVFKLVGNRE-TPVLSFCSTE 154
Cdd:pfam02362  80 FLTFKLVGNSGfTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 193-282 4.01e-17

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 77.03  E-value: 4.01e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 193 FMTLTLTHDNLIKSRRQLPLPFMREN-GLVKPG--IINLLGKDGTKWEVNLRREANGTMY-LGKGWKDFTIANGLKTGES 268
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLskEITLLDEHGKSWTVKLRYRKKSGRYvLTGGWKEFVKANGLKAGDF 80

                          90
                  ....*....|....
gi 1063699060 269 FTLEAVLENGTRML 282
Cdd:pfam02362  81 LTFKLVGNSGFTPV 94
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 337-429 4.74e-17

B3 DNA binding domain; This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by.


Pssm-ID: 396783 [Multi-domain]  Cd Length: 101  Bit Score: 76.64  E-value: 4.74e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 337 CVTLKLTHDNLIKSRRYLPLSFTRDN-GLDKPG--MIFLLGKTGRKWEANLLREASGRIVLTGKGWKEFAMANGLKSGEL 413
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLskEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90
                  ....*....|....*..
gi 1063699060 414 FTLEAIL-EKGTPMLSL 429
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGI 97
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 192-279 3.94e-16

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 73.90  E-value: 3.94e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 192 RFMTLTLTHDNLIKSRRQLPLPFMRENGLVKPGI-INLLGKDGTKWEVNLR-REANGTMYLGKGWKDFTIANGLKTGESF 269
Cdd:cd10017     2 LFFKVLTPSDVSSLGRLVLPKKFAKAHLPPKEGVeVTLEDPDGKKWTVKLKkRKNSGRMVLSGGWKEFVRANGLKEGDFL 81

                          90
                  ....*....|
gi 1063699060 270 TLEAVLENGT 279
Cdd:cd10017    82 VFELDGRNSK 91
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 484-578 1.49e-15

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 72.36  E-value: 1.49e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 484 RYVTLTLTPEDV-RACTLILPSQFMKANGINKLGKK-TLLGQNRKKWFAYLL--SKSGFVALGSGWKGFCEANGVKTGES 559
Cdd:cd10017     1 PLFFKVLTPSDVsSLGRLVLPKKFAKAHLPPKEGVEvTLEDPDGKKWTVKLKkrKNSGRMVLSGGWKEFVRANGLKEGDF 80

                          90
                  ....*....|....*....
gi 1063699060 560 FNLEYIDEqDTTPVFKFCS 578
Cdd:cd10017    81 LVFELDGR-NSKFKVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 56-152 2.05e-14

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 69.28  E-value: 2.05e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060  56 CFVALVTASN-LRKDALYLPQDLTSSVGLERKYREIVVTDErERRSWALDLRFNKSSDTFYISRGWRSFCDENGKKPGGV 134
Cdd:cd10017     2 LFFKVLTPSDvSSLGRLVLPKKFAKAHLPPKEGVEVTLEDP-DGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDF 80

                          90
                  ....*....|....*...
gi 1063699060 135 FVFKLVGNRETPVLSFCS 152
Cdd:cd10017    81 LVFELDGRNSKFKVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 336-429 3.78e-14

Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies.


Pssm-ID: 197383  Cd Length: 98  Bit Score: 68.51  E-value: 3.78e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063699060 336 RCVTLKLTH-DNLIKSRRYLPLSFTRDNGLDK-PGMIFLLGKTGRKWEANLL-REASGRIVLTGkGWKEFAMANGLKSGE 412
Cdd:cd10017     1 PLFFKVLTPsDVSSLGRLVLPKKFAKAHLPPKeGVEVTLEDPDGKKWTVKLKkRKNSGRMVLSG-GWKEFVRANGLKEGD 79

                          90
                  ....*....|....*..
gi 1063699060 413 LFTLEAILEKGTPMLSL 429
Cdd:cd10017    80 FLVFELDGRNSKFKVRI 96
 
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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