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Conserved domains on  [gi|1063704722|ref|NP_001323994|]
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Transcriptional factor B3 family protein [Arabidopsis thaliana]

Protein Classification

B3_DNA domain-containing protein( domain architecture ID 11279088)

B3_DNA domain-containing protein

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 ...
 245-334 3.78e-27

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: 104.69  E-value: 3.78e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  245 FVANVAPSTLRYDTLYLPKRFMRENGVDKRRGEMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSIITF 324
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|
gi 1063704722  325 KLIKKSGTLV 334
Cdd:smart01019  82 ELDGNGEFVV 91
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 138-233 3.06e-24

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: 96.67  E-value: 3.06e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 138 CFSANVAPSSLRYDLMLFPMGFVRENG---VVGSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDI 214
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSglpKRLSKEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|
gi 1063704722 215 YTFKLIKR-GGTLVLRLLPK 233
Cdd:pfam02362  81 LTFKLVGNsGFTPVVGIFRK 100
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 395-492 1.66e-20

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: 86.20  E-value: 1.66e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  395 FVTLNLTPYNILRSALRLPIPFTRMNGINE-ETKMTLLDKHGMKWLTTLRlvdyKRKRLGMV---GGWKGFIQANGVKAN 470
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLkPKEITLLDPDGKSWKVKLK----YRGSSGMFlltGGWKEFVKANGLKAG 76

                           90       100
                   ....*....|....*....|..
gi 1063704722  471 ESIMLELIWEEETscVLKFCSK 492
Cdd:smart01019  77 DSLTFELDGNGEF--VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 6-102 2.88e-14

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: 68.48  E-value: 2.88e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722    6 FFKPLLPGfhtHLVFICMFfqRIPVAFFLKNIEGRyEQKTAELRSDASKiTWEVKIDGQR------LTDGWKEFALSHDL 79
Cdd:smart01019   1 FFKTLTTS---DVSKHGRL--VLPKQFAESNGPPL-KPKEITLLDPDGK-SWKVKLKYRGssgmflLTGGWKEFVKANGL 73

                           90       100
                   ....*....|....*....|...
gi 1063704722   80 RIGDIVVFRQERDMSFHVTMLGP 102
Cdd:smart01019  74 KAGDSLTFELDGNGEFVVSIFRK 96
 
Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 245-334 3.78e-27

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: 104.69  E-value: 3.78e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  245 FVANVAPSTLRYDTLYLPKRFMRENGVDKRRGEMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSIITF 324
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|
gi 1063704722  325 KLIKKSGTLV 334
Cdd:smart01019  82 ELDGNGEFVV 91
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 138-233 3.06e-24

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: 96.67  E-value: 3.06e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 138 CFSANVAPSSLRYDLMLFPMGFVRENG---VVGSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDI 214
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSglpKRLSKEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|
gi 1063704722 215 YTFKLIKR-GGTLVLRLLPK 233
Cdd:pfam02362  81 LTFKLVGNsGFTPVVGIFRK 100
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 244-341 5.12e-24

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: 96.29  E-value: 5.12e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 244 CFVANVAPSTLRYDTLYLPKRFMREN-GVDKRRG-EMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSI 321
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLSkEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|.
gi 1063704722 322 ITFKLIK-KSGTLVLCLLSNE 341
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGIFRKS 101
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 139-227 7.94e-22

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: 89.66  E-value: 7.94e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  139 FSANVAPSSLRYDLMLFPMGFVRENGVV-GSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDIYTF 217
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|
gi 1063704722  218 KLIKRGGTLV 227
Cdd:smart01019  82 ELDGNGEFVV 91
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 244-339 1.12e-20

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: 86.61  E-value: 1.12e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 244 CFVANVAPS-TLRYDTLYLPKRFMRENGVDKRRGEMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSII 322
Cdd:cd10017     2 LFFKVLTPSdVSSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFL 81

                          90
                  ....*....|....*..
gi 1063704722 323 TFKLIKKSGTLVLCLLS 339
Cdd:cd10017    82 VFELDGRNSKFKVRIFR 98
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 395-492 1.66e-20

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: 86.20  E-value: 1.66e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  395 FVTLNLTPYNILRSALRLPIPFTRMNGINE-ETKMTLLDKHGMKWLTTLRlvdyKRKRLGMV---GGWKGFIQANGVKAN 470
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLkPKEITLLDPDGKSWKVKLK----YRGSSGMFlltGGWKEFVKANGLKAG 76

                           90       100
                   ....*....|....*....|..
gi 1063704722  471 ESIMLELIWEEETscVLKFCSK 492
Cdd:smart01019  77 DSLTFELDGNGEF--VVSIFRK 96
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 395-493 1.35e-19

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: 83.58  E-value: 1.35e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 395 FVTLNLTPYNILRSALRLPIPFTRMN-GINEE--TKMTLLDKHGMKWLTTLRlVDYKRKRLGMVGGWKGFIQANGVKANE 471
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRlsKEITLLDEHGKSWTVKLR-YRKKSGRYVLTGGWKEFVKANGLKAGD 79

                          90       100
                  ....*....|....*....|..
gi 1063704722 472 SIMLELIWEEETSCVLKFCSKV 493
Cdd:pfam02362  80 FLTFKLVGNSGFTPVVGIFRKS 101
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 138-232 3.16e-19

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: 82.38  E-value: 3.16e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 138 CFSANVAPSS-LRYDLMLFPMGFVRENG-VVGSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDIY 215
Cdd:cd10017     2 LFFKVLTPSDvSSLGRLVLPKKFAKAHLpPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFL 81

                          90
                  ....*....|....*..
gi 1063704722 216 TFKLIKRGGTLVLRLLP 232
Cdd:cd10017    82 VFELDGRNSKFKVRIFR 98
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 6-102 2.88e-14

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: 68.48  E-value: 2.88e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722    6 FFKPLLPGfhtHLVFICMFfqRIPVAFFLKNIEGRyEQKTAELRSDASKiTWEVKIDGQR------LTDGWKEFALSHDL 79
Cdd:smart01019   1 FFKTLTTS---DVSKHGRL--VLPKQFAESNGPPL-KPKEITLLDPDGK-SWKVKLKYRGssgmflLTGGWKEFVKANGL 73

                           90       100
                   ....*....|....*....|...
gi 1063704722   80 RIGDIVVFRQERDMSFHVTMLGP 102
Cdd:smart01019  74 KAGDSLTFELDGNGEFVVSIFRK 96
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 5-100 1.72e-12

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: 63.50  E-value: 1.72e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722   5 HFFKPLLPgfhTHLVFICMFfqRIPVAFFLKNIEGRyEQKTAELRSDASKiTWEVKI------DGQRLTDGWKEFALSHD 78
Cdd:cd10017     2 LFFKVLTP---SDVSSLGRL--VLPKKFAKAHLPPK-EGVEVTLEDPDGK-KWTVKLkkrknsGRMVLSGGWKEFVRANG 74

                          90       100
                  ....*....|....*....|...
gi 1063704722  79 LRIGDIVVFRQER-DMSFHVTML 100
Cdd:cd10017    75 LKEGDFLVFELDGrNSKFKVRIF 97
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 400-490 4.61e-12

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: 62.35  E-value: 4.61e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 400 LTPYNILRSA-LRLPIPFTRMNGINEE-TKMTLLDKHGMKWLTTLRlVDYKRKRLGMVGGWKGFIQANGVKANESIMLEL 477
Cdd:cd10017     7 LTPSDVSSLGrLVLPKKFAKAHLPPKEgVEVTLEDPDGKKWTVKLK-KRKNSGRMVLSGGWKEFVRANGLKEGDFLVFEL 85

                          90
                  ....*....|...
gi 1063704722 478 IWEEETSCVLKFC 490
Cdd:cd10017    86 DGRNSKFKVRIFR 98
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 6-95 5.28e-08

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: 50.83  E-value: 5.28e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722   6 FFKPLLPgfhTHLVFICMFfqRIPVAFFLKNIEGRYEQ-KTAELRSDASKiTWEVKIDGQR------LTDGWKEFALSHD 78
Cdd:pfam02362   1 FFKVLVT---SDVLSSGRL--VIPKKFARENSGLPKRLsKEITLLDEHGK-SWTVKLRYRKksgryvLTGGWKEFVKANG 74

                          90
                  ....*....|....*..
gi 1063704722  79 LRIGDIVVFRQERDMSF 95
Cdd:pfam02362  75 LKAGDFLTFKLVGNSGF 91
 
Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 245-334 3.78e-27

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: 104.69  E-value: 3.78e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  245 FVANVAPSTLRYDTLYLPKRFMRENGVDKRRGEMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSIITF 324
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|
gi 1063704722  325 KLIKKSGTLV 334
Cdd:smart01019  82 ELDGNGEFVV 91
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 138-233 3.06e-24

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: 96.67  E-value: 3.06e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 138 CFSANVAPSSLRYDLMLFPMGFVRENG---VVGSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDI 214
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSglpKRLSKEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|
gi 1063704722 215 YTFKLIKR-GGTLVLRLLPK 233
Cdd:pfam02362  81 LTFKLVGNsGFTPVVGIFRK 100
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 244-341 5.12e-24

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: 96.29  E-value: 5.12e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 244 CFVANVAPSTLRYDTLYLPKRFMREN-GVDKRRG-EMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSI 321
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLSkEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|.
gi 1063704722 322 ITFKLIK-KSGTLVLCLLSNE 341
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGIFRKS 101
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 139-227 7.94e-22

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: 89.66  E-value: 7.94e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  139 FSANVAPSSLRYDLMLFPMGFVRENGVV-GSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDIYTF 217
Cdd:smart01019   2 FKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTF 81

                           90
                   ....*....|
gi 1063704722  218 KLIKRGGTLV 227
Cdd:smart01019  82 ELDGNGEFVV 91
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 244-339 1.12e-20

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: 86.61  E-value: 1.12e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 244 CFVANVAPS-TLRYDTLYLPKRFMRENGVDKRRGEMILMNEKGKSWTLDLKLKKSCGTSLIRRGWRSFCSANGLRAGSII 322
Cdd:cd10017     2 LFFKVLTPSdVSSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFL 81

                          90
                  ....*....|....*..
gi 1063704722 323 TFKLIKKSGTLVLCLLS 339
Cdd:cd10017    82 VFELDGRNSKFKVRIFR 98
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 395-492 1.66e-20

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: 86.20  E-value: 1.66e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722  395 FVTLNLTPYNILRSALRLPIPFTRMNGINE-ETKMTLLDKHGMKWLTTLRlvdyKRKRLGMV---GGWKGFIQANGVKAN 470
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLkPKEITLLDPDGKSWKVKLK----YRGSSGMFlltGGWKEFVKANGLKAG 76

                           90       100
                   ....*....|....*....|..
gi 1063704722  471 ESIMLELIWEEETscVLKFCSK 492
Cdd:smart01019  77 DSLTFELDGNGEF--VVSIFRK 96
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 395-493 1.35e-19

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: 83.58  E-value: 1.35e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 395 FVTLNLTPYNILRSALRLPIPFTRMN-GINEE--TKMTLLDKHGMKWLTTLRlVDYKRKRLGMVGGWKGFIQANGVKANE 471
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRlsKEITLLDEHGKSWTVKLR-YRKKSGRYVLTGGWKEFVKANGLKAGD 79

                          90       100
                  ....*....|....*....|..
gi 1063704722 472 SIMLELIWEEETSCVLKFCSKV 493
Cdd:pfam02362  80 FLTFKLVGNSGFTPVVGIFRKS 101
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 138-232 3.16e-19

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: 82.38  E-value: 3.16e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 138 CFSANVAPSS-LRYDLMLFPMGFVRENG-VVGSGKIVLMNEKGRSWNFNLRQKPSCGTVYVRGGWVSFCDANGLQAGDIY 215
Cdd:cd10017     2 LFFKVLTPSDvSSLGRLVLPKKFAKAHLpPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFL 81

                          90
                  ....*....|....*..
gi 1063704722 216 TFKLIKRGGTLVLRLLP 232
Cdd:cd10017    82 VFELDGRNSKFKVRIFR 98
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 6-102 2.88e-14

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: 68.48  E-value: 2.88e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722    6 FFKPLLPGfhtHLVFICMFfqRIPVAFFLKNIEGRyEQKTAELRSDASKiTWEVKIDGQR------LTDGWKEFALSHDL 79
Cdd:smart01019   1 FFKTLTTS---DVSKHGRL--VLPKQFAESNGPPL-KPKEITLLDPDGK-SWKVKLKYRGssgmflLTGGWKEFVKANGL 73

                           90       100
                   ....*....|....*....|...
gi 1063704722   80 RIGDIVVFRQERDMSFHVTMLGP 102
Cdd:smart01019  74 KAGDSLTFELDGNGEFVVSIFRK 96
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 5-100 1.72e-12

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: 63.50  E-value: 1.72e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722   5 HFFKPLLPgfhTHLVFICMFfqRIPVAFFLKNIEGRyEQKTAELRSDASKiTWEVKI------DGQRLTDGWKEFALSHD 78
Cdd:cd10017     2 LFFKVLTP---SDVSSLGRL--VLPKKFAKAHLPPK-EGVEVTLEDPDGK-KWTVKLkkrknsGRMVLSGGWKEFVRANG 74

                          90       100
                  ....*....|....*....|...
gi 1063704722  79 LRIGDIVVFRQER-DMSFHVTML 100
Cdd:cd10017    75 LKEGDFLVFELDGrNSKFKVRIF 97
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 400-490 4.61e-12

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: 62.35  E-value: 4.61e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722 400 LTPYNILRSA-LRLPIPFTRMNGINEE-TKMTLLDKHGMKWLTTLRlVDYKRKRLGMVGGWKGFIQANGVKANESIMLEL 477
Cdd:cd10017     7 LTPSDVSSLGrLVLPKKFAKAHLPPKEgVEVTLEDPDGKKWTVKLK-KRKNSGRMVLSGGWKEFVRANGLKEGDFLVFEL 85

                          90
                  ....*....|...
gi 1063704722 478 IWEEETSCVLKFC 490
Cdd:cd10017    86 DGRNSKFKVRIFR 98
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 6-95 5.28e-08

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: 50.83  E-value: 5.28e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704722   6 FFKPLLPgfhTHLVFICMFfqRIPVAFFLKNIEGRYEQ-KTAELRSDASKiTWEVKIDGQR------LTDGWKEFALSHD 78
Cdd:pfam02362   1 FFKVLVT---SDVLSSGRL--VIPKKFARENSGLPKRLsKEITLLDEHGK-SWTVKLRYRKksgryvLTGGWKEFVKANG 74

                          90
                  ....*....|....*..
gi 1063704722  79 LRIGDIVVFRQERDMSF 95
Cdd:pfam02362  75 LKAGDFLTFKLVGNSGF 91
 
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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