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Conserved domains on  [gi|1063704732|ref|NP_001325065|]
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B3 domain-containing protein REM13 [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 ...
 147-239 9.49e-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: 93.13  E-value: 9.49e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  147 FVTFTLPPDYARIGKLSLSAPFVRENGIN-KPGEICLLDKHGRKWLTSLLLDSKGTMS-LGKGWKEFVKANSLETG--FT 222
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGdsLT 80

                           90
                   ....*....|....*..
gi 1063704732  223 LKLIWEETTpVLSLCSP 239
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 444-538 1.31e-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: 92.74  E-value: 1.31e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  444 FVTLTITPSSIKKDRLILSPQFARKNNID-KPGMIYLLDTDGTKWLISLQRDKKGTMS-LGKGWKEFAEANDFKLGESFT 521
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063704732  522 MELVWEDTTpMLSLLRT 538
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 2-95 9.14e-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: 90.43  E-value: 9.14e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732    2 AIITALDLTTDTLYLPLHFTSANGLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKL 81
Cdd:smart01019   4 TLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTFEL 83

                           90
                   ....*....|....
gi 1063704732   82 VGKGETlVLSFCPT 95
Cdd:smart01019  84 DGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 616-710 1.38e-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: 1.38e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  616 FVTFTITPTCVGKNRLILSAQFARENNINQ-PGTIYLLDTDGRKWLTTVKRDKKGTMS-LGKGWKEFADTKDLKSGDSFT 693
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLkPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063704732  694 MELIWEDTnPVLSLLRT 710
Cdd:smart01019  81 FELDGNGE-FVVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 300-374 1.56e-17

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: 78.49  E-value: 1.56e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063704732  300 FVTITITPSS---DRLRLPKVFTRENGIN-KPGRITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKTDCSI 374
Cdd:smart01019   1 FFKTLTTSDVskhGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSL 79
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 741-838 2.14e-16

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: 75.02  E-value: 2.14e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  741 FVTLALTPEDVTACKLILPSQFMKANGINNKLGKITLLGENGVEWPGYMLSLD--GTLALGNGWEGFCEANGVKLGQTFT 818
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGssGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90       100
                   ....*....|....*....|
gi 1063704732  819 LEFVNEqdttTTPVLKFSSV 838
Cdd:smart01019  81 FELDGN----GEFVVSIFRK 96
 
Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 147-239 9.49e-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: 93.13  E-value: 9.49e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  147 FVTFTLPPDYARIGKLSLSAPFVRENGIN-KPGEICLLDKHGRKWLTSLLLDSKGTMS-LGKGWKEFVKANSLETG--FT 222
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGdsLT 80

                           90
                   ....*....|....*..
gi 1063704732  223 LKLIWEETTpVLSLCSP 239
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 444-538 1.31e-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: 92.74  E-value: 1.31e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  444 FVTLTITPSSIKKDRLILSPQFARKNNID-KPGMIYLLDTDGTKWLISLQRDKKGTMS-LGKGWKEFAEANDFKLGESFT 521
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063704732  522 MELVWEDTTpMLSLLRT 538
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 2-95 9.14e-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: 90.43  E-value: 9.14e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732    2 AIITALDLTTDTLYLPLHFTSANGLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKL 81
Cdd:smart01019   4 TLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTFEL 83

                           90
                   ....*....|....
gi 1063704732   82 VGKGETlVLSFCPT 95
Cdd:smart01019  84 DGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 616-710 1.38e-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: 1.38e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  616 FVTFTITPTCVGKNRLILSAQFARENNINQ-PGTIYLLDTDGRKWLTTVKRDKKGTMS-LGKGWKEFADTKDLKSGDSFT 693
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLkPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063704732  694 MELIWEDTnPVLSLLRT 710
Cdd:smart01019  81 FELDGNGE-FVVSIFRK 96
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 444-539 3.02e-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: 3.02e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 444 FVTLTITPSSIKKDRLILSPQFARKN---NIDKPGMIYLLDTDGTKWLISLQRDKKGTM-SLGKGWKEFAEANDFKLGES 519
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsglPKRLSKEITLLDEHGKSWTVKLRYRKKSGRyVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|.
gi 1063704732 520 FTMELVW-EDTTPMLSLLRTE 539
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 147-238 3.08e-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: 80.49  E-value: 3.08e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 147 FVTFTLPPDYARIGKLSLSAPFVREN-GINKPG--EICLLDKHGRKWLTSLLLD-SKGTMSLGKGWKEFVKANSLETG-- 220
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLskEITLLDEHGKSWTVKLRYRkKSGRYVLTGGWKEFVKANGLKAGdf 80

                          90
                  ....*....|....*....
gi 1063704732 221 FTLKLIWEE-TTPVLSLCS 238
Cdd:pfam02362  81 LTFKLVGNSgFTPVVGIFR 99
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 616-709 4.13e-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: 80.11  E-value: 4.13e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 616 FVTFTITPTCVGKNRLILSAQFAREN---NINQPGTIYLLDTDGRKWLTTVKRDKKGTM-SLGKGWKEFADTKDLKSGDS 691
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsglPKRLSKEITLLDEHGKSWTVKLRYRKKSGRyVLTGGWKEFVKANGLKAGDF 80

                          90
                  ....*....|....*....
gi 1063704732 692 FTMELIW-EDTNPVLSLLR 709
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGIFR 99
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 300-374 1.56e-17

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: 78.49  E-value: 1.56e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063704732  300 FVTITITPSS---DRLRLPKVFTRENGIN-KPGRITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKTDCSI 374
Cdd:smart01019   1 FFKTLTTSDVskhGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSL 79
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 442-537 1.93e-17

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: 78.14  E-value: 1.93e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 442 KHFVTlTITPSSI-KKDRLILSPQFARKNNIDK-PGMIYLLDTDGTKWLISLQ-RDKKGTMSLGKGWKEFAEANDFKLGE 518
Cdd:cd10017     1 PLFFK-VLTPSDVsSLGRLVLPKKFAKAHLPPKeGVEVTLEDPDGKKWTVKLKkRKNSGRMVLSGGWKEFVRANGLKEGD 79

                          90
                  ....*....|....*....
gi 1063704732 519 SFTMELVWEDTTPMLSLLR 537
Cdd:cd10017    80 FLVFELDGRNSKFKVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 620-709 2.68e-17

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: 77.75  E-value: 2.68e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 620 TITPTCVG-KNRLILSAQFARENNINQ-PGTIYLLDTDGRKWLTTV-KRDKKGTMSLGKGWKEFADTKDLKSGDSFTMEL 696
Cdd:cd10017     6 VLTPSDVSsLGRLVLPKKFAKAHLPPKeGVEVTLEDPDGKKWTVKLkKRKNSGRMVLSGGWKEFVRANGLKEGDFLVFEL 85

                          90
                  ....*....|...
gi 1063704732 697 IWEDTNPVLSLLR 709
Cdd:cd10017    86 DGRNSKFKVRIFR 98
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 741-838 2.14e-16

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: 75.02  E-value: 2.14e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  741 FVTLALTPEDVTACKLILPSQFMKANGINNKLGKITLLGENGVEWPGYMLSLD--GTLALGNGWEGFCEANGVKLGQTFT 818
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGssGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90       100
                   ....*....|....*....|
gi 1063704732  819 LEFVNEqdttTTPVLKFSSV 838
Cdd:smart01019  81 FELDGN----GEFVVSIFRK 96
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 145-238 2.44e-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: 75.06  E-value: 2.44e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 145 KQFVTFTLPPDYARIGKLSLSAPFVRENGI-NKPGEICLLDKHGRKWLTSLL-LDSKGTMSLGKGWKEFVKANSLETG-- 220
Cdd:cd10017     1 PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPpKEGVEVTLEDPDGKKWTVKLKkRKNSGRMVLSGGWKEFVRANGLKEGdf 80

                          90
                  ....*....|....*...
gi 1063704732 221 FTLKLIWEETTPVLSLCS 238
Cdd:cd10017    81 LVFELDGRNSKFKVRIFR 98
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 8-96 3.42e-15

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: 72.02  E-value: 3.42e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732   8 DLTTDTLYLPLHFTSAN--GLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKLVG-K 84
Cdd:pfam02362  10 VLSSGRLVIPKKFARENsgLPKRLSKEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDFLTFKLVGnS 89

                          90
                  ....*....|..
gi 1063704732  85 GETLVLSFCPTE 96
Cdd:pfam02362  90 GFTPVVGIFRKS 101
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 9-94 6.36e-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: 71.20  E-value: 6.36e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732   9 LTTDTLYLPLHFTSANGLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKLVGKGETL 88
Cdd:cd10017    13 SSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFLVFELDGRNSKF 92


                  ....*.
gi 1063704732  89 VLSFCP 94
Cdd:cd10017    93 KVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 746-824 8.15e-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: 67.74  E-value: 8.15e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 746 LTPEDV-TACKLILPSQFMKANGINNKLGKITLLGENGVEWPGYML--SLDGTLALGNGWEGFCEANGVKLGQTFTLEFV 822
Cdd:cd10017     7 LTPSDVsSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKkrKNSGRMVLSGGWKEFVRANGLKEGDFLVFELD 86


                  ..
gi 1063704732 823 NE 824
Cdd:cd10017    87 GR 88
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 301-370 8.56e-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: 67.74  E-value: 8.56e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1063704732 301 VTITITPSSDRLRLPKVFTRENGINKPGR-ITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKT 370
Cdd:cd10017     7 LTPSDVSSLGRLVLPKKFAKAHLPPKEGVeVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKE 77
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 741-839 3.55e-13

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: 66.24  E-value: 3.55e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 741 FVTLALTPEDVTACKLILPSQFMKANGINNKLG--KITLLGENGVEWPGYMLSL--DGTLALGNGWEGFCEANGVKLGQT 816
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSGLPKRLskEITLLDEHGKSWTVKLRYRkkSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|...
gi 1063704732 817 FTLEFVneQDTTTTPVLKFSSVE 839
Cdd:pfam02362  81 LTFKLV--GNSGFTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 300-370 1.61e-11

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: 61.62  E-value: 1.61e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063704732 300 FVTITITPS---SDRLRLPKVFTREN-GINKPGR--ITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKT 370
Cdd:pfam02362   1 FFKVLVTSDvlsSGRLVIPKKFARENsGLPKRLSkeITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKA 77
 
Name Accession Description Interval E-value
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 147-239 9.49e-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: 93.13  E-value: 9.49e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  147 FVTFTLPPDYARIGKLSLSAPFVRENGIN-KPGEICLLDKHGRKWLTSLLLDSKGTMS-LGKGWKEFVKANSLETG--FT 222
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGdsLT 80

                           90
                   ....*....|....*..
gi 1063704732  223 LKLIWEETTpVLSLCSP 239
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 444-538 1.31e-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: 92.74  E-value: 1.31e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  444 FVTLTITPSSIKKDRLILSPQFARKNNID-KPGMIYLLDTDGTKWLISLQRDKKGTMS-LGKGWKEFAEANDFKLGESFT 521
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063704732  522 MELVWEDTTpMLSLLRT 538
Cdd:smart01019  81 FELDGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 2-95 9.14e-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: 90.43  E-value: 9.14e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732    2 AIITALDLTTDTLYLPLHFTSANGLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKL 81
Cdd:smart01019   4 TLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTFEL 83

                           90
                   ....*....|....
gi 1063704732   82 VGKGETlVLSFCPT 95
Cdd:smart01019  84 DGNGEF-VVSIFRK 96
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 616-710 1.38e-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: 1.38e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  616 FVTFTITPTCVGKNRLILSAQFARENNINQ-PGTIYLLDTDGRKWLTTVKRDKKGTMS-LGKGWKEFADTKDLKSGDSFT 693
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLkPKEITLLDPDGKSWKVKLKYRGSSGMFlLTGGWKEFVKANGLKAGDSLT 80

                           90
                   ....*....|....*..
gi 1063704732  694 MELIWEDTnPVLSLLRT 710
Cdd:smart01019  81 FELDGNGE-FVVSIFRK 96
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 444-539 3.02e-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: 3.02e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 444 FVTLTITPSSIKKDRLILSPQFARKN---NIDKPGMIYLLDTDGTKWLISLQRDKKGTM-SLGKGWKEFAEANDFKLGES 519
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsglPKRLSKEITLLDEHGKSWTVKLRYRKKSGRyVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|.
gi 1063704732 520 FTMELVW-EDTTPMLSLLRTE 539
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 147-238 3.08e-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: 80.49  E-value: 3.08e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 147 FVTFTLPPDYARIGKLSLSAPFVREN-GINKPG--EICLLDKHGRKWLTSLLLD-SKGTMSLGKGWKEFVKANSLETG-- 220
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsGLPKRLskEITLLDEHGKSWTVKLRYRkKSGRYVLTGGWKEFVKANGLKAGdf 80

                          90
                  ....*....|....*....
gi 1063704732 221 FTLKLIWEE-TTPVLSLCS 238
Cdd:pfam02362  81 LTFKLVGNSgFTPVVGIFR 99
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 616-709 4.13e-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: 80.11  E-value: 4.13e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 616 FVTFTITPTCVGKNRLILSAQFAREN---NINQPGTIYLLDTDGRKWLTTVKRDKKGTM-SLGKGWKEFADTKDLKSGDS 691
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENsglPKRLSKEITLLDEHGKSWTVKLRYRKKSGRyVLTGGWKEFVKANGLKAGDF 80

                          90
                  ....*....|....*....
gi 1063704732 692 FTMELIW-EDTNPVLSLLR 709
Cdd:pfam02362  81 LTFKLVGnSGFTPVVGIFR 99
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 300-374 1.56e-17

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: 78.49  E-value: 1.56e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063704732  300 FVTITITPSS---DRLRLPKVFTRENGIN-KPGRITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKTDCSI 374
Cdd:smart01019   1 FFKTLTTSDVskhGRLVLPKQFAESNGPPlKPKEITLLDPDGKSWKVKLKYRGSSGMFLLTGGWKEFVKANGLKAGDSL 79
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 442-537 1.93e-17

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: 78.14  E-value: 1.93e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 442 KHFVTlTITPSSI-KKDRLILSPQFARKNNIDK-PGMIYLLDTDGTKWLISLQ-RDKKGTMSLGKGWKEFAEANDFKLGE 518
Cdd:cd10017     1 PLFFK-VLTPSDVsSLGRLVLPKKFAKAHLPPKeGVEVTLEDPDGKKWTVKLKkRKNSGRMVLSGGWKEFVRANGLKEGD 79

                          90
                  ....*....|....*....
gi 1063704732 519 SFTMELVWEDTTPMLSLLR 537
Cdd:cd10017    80 FLVFELDGRNSKFKVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 620-709 2.68e-17

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: 77.75  E-value: 2.68e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 620 TITPTCVG-KNRLILSAQFARENNINQ-PGTIYLLDTDGRKWLTTV-KRDKKGTMSLGKGWKEFADTKDLKSGDSFTMEL 696
Cdd:cd10017     6 VLTPSDVSsLGRLVLPKKFAKAHLPPKeGVEVTLEDPDGKKWTVKLkKRKNSGRMVLSGGWKEFVRANGLKEGDFLVFEL 85

                          90
                  ....*....|...
gi 1063704732 697 IWEDTNPVLSLLR 709
Cdd:cd10017    86 DGRNSKFKVRIFR 98
B3 smart01019
B3 DNA binding domain; Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana ...
 741-838 2.14e-16

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: 75.02  E-value: 2.14e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732  741 FVTLALTPEDVTACKLILPSQFMKANGINNKLGKITLLGENGVEWPGYMLSLD--GTLALGNGWEGFCEANGVKLGQTFT 818
Cdd:smart01019   1 FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGssGMFLLTGGWKEFVKANGLKAGDSLT 80

                           90       100
                   ....*....|....*....|
gi 1063704732  819 LEFVNEqdttTTPVLKFSSV 838
Cdd:smart01019  81 FELDGN----GEFVVSIFRK 96
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 145-238 2.44e-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: 75.06  E-value: 2.44e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 145 KQFVTFTLPPDYARIGKLSLSAPFVRENGI-NKPGEICLLDKHGRKWLTSLL-LDSKGTMSLGKGWKEFVKANSLETG-- 220
Cdd:cd10017     1 PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPpKEGVEVTLEDPDGKKWTVKLKkRKNSGRMVLSGGWKEFVRANGLKEGdf 80

                          90
                  ....*....|....*...
gi 1063704732 221 FTLKLIWEETTPVLSLCS 238
Cdd:cd10017    81 LVFELDGRNSKFKVRIFR 98
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 8-96 3.42e-15

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: 72.02  E-value: 3.42e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732   8 DLTTDTLYLPLHFTSAN--GLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKLVG-K 84
Cdd:pfam02362  10 VLSSGRLVIPKKFARENsgLPKRLSKEITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKAGDFLTFKLVGnS 89

                          90
                  ....*....|..
gi 1063704732  85 GETLVLSFCPTE 96
Cdd:pfam02362  90 GFTPVVGIFRKS 101
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 9-94 6.36e-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: 71.20  E-value: 6.36e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732   9 LTTDTLYLPLHFTSANGLTRKNREIILTDGGERSRVLDLRFDESSGTFYISRGWRNFCDENGQKAGGFFLFKLVGKGETL 88
Cdd:cd10017    13 SSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFLVFELDGRNSKF 92


                  ....*.
gi 1063704732  89 VLSFCP 94
Cdd:cd10017    93 KVRIFR 98
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 746-824 8.15e-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: 67.74  E-value: 8.15e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 746 LTPEDV-TACKLILPSQFMKANGINNKLGKITLLGENGVEWPGYML--SLDGTLALGNGWEGFCEANGVKLGQTFTLEFV 822
Cdd:cd10017     7 LTPSDVsSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKkrKNSGRMVLSGGWKEFVRANGLKEGDFLVFELD 86


                  ..
gi 1063704732 823 NE 824
Cdd:cd10017    87 GR 88
B3_DNA cd10017
Plant-specific B3-DNA binding domain; The plant-specific B3 DNA binding domain superfamily ...
 301-370 8.56e-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: 67.74  E-value: 8.56e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1063704732 301 VTITITPSSDRLRLPKVFTRENGINKPGR-ITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKT 370
Cdd:cd10017     7 LTPSDVSSLGRLVLPKKFAKAHLPPKEGVeVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKE 77
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 741-839 3.55e-13

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: 66.24  E-value: 3.55e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063704732 741 FVTLALTPEDVTACKLILPSQFMKANGINNKLG--KITLLGENGVEWPGYMLSL--DGTLALGNGWEGFCEANGVKLGQT 816
Cdd:pfam02362   1 FFKVLVTSDVLSSGRLVIPKKFARENSGLPKRLskEITLLDEHGKSWTVKLRYRkkSGRYVLTGGWKEFVKANGLKAGDF 80

                          90       100
                  ....*....|....*....|...
gi 1063704732 817 FTLEFVneQDTTTTPVLKFSSVE 839
Cdd:pfam02362  81 LTFKLV--GNSGFTPVVGIFRKS 101
B3 pfam02362
B3 DNA binding domain; This is a family of plant transcription factors with various roles in ...
 300-370 1.61e-11

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: 61.62  E-value: 1.61e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063704732 300 FVTITITPS---SDRLRLPKVFTREN-GINKPGR--ITLLGKDGIKQQTNLLFDKANGAMSLGHGWKDFVKDNGLKT 370
Cdd:pfam02362   1 FFKVLVTSDvlsSGRLVIPKKFARENsGLPKRLSkeITLLDEHGKSWTVKLRYRKKSGRYVLTGGWKEFVKANGLKA 77
 
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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