Query 017783
Match_columns 366
No_of_seqs 319 out of 1226
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:24:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017783.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017783hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03106 WRKY: WRKY DNA -bindi 100.0 2E-31 4.4E-36 204.2 1.6 60 188-247 1-60 (60)
2 PF03106 WRKY: WRKY DNA -bindi 100.0 2.1E-31 4.5E-36 204.1 1.1 59 9-67 1-60 (60)
3 smart00774 WRKY DNA binding do 100.0 3.8E-30 8.3E-35 196.9 4.1 58 188-245 1-59 (59)
4 smart00774 WRKY DNA binding do 100.0 5.4E-30 1.2E-34 196.1 4.6 57 9-65 1-59 (59)
5 PF04500 FLYWCH: FLYWCH zinc f 88.9 0.13 2.8E-06 37.5 0.1 48 188-245 12-62 (62)
6 PF04500 FLYWCH: FLYWCH zinc f 86.2 0.22 4.8E-06 36.2 0.0 48 9-65 12-62 (62)
7 PF03101 FAR1: FAR1 DNA-bindin 79.6 2.7 5.8E-05 33.3 3.8 60 8-67 7-89 (91)
8 PF03101 FAR1: FAR1 DNA-bindin 73.0 2.2 4.8E-05 33.7 1.7 30 217-247 60-89 (91)
9 PLN03097 FHY3 Protein FAR-RED 34.4 39 0.00085 38.5 3.7 35 35-69 156-190 (846)
10 PF03859 CG-1: CG-1 domain; I 26.2 24 0.00051 31.2 0.2 8 10-17 52-59 (118)
11 PLN03097 FHY3 Protein FAR-RED 23.9 62 0.0013 37.0 2.9 36 214-250 156-191 (846)
No 1
>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif. The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.
Probab=99.96 E-value=2e-31 Score=204.21 Aligned_cols=60 Identities=68% Similarity=1.347 Sum_probs=52.6
Q ss_pred CCCCchhhhccccccCCCCCCcccccccCCCCCcccchhhccCCCCeEEEEEecccCCCC
Q 017783 188 LDDGYRWRKYGQKVVKGNPNPRSYYKCTHPGCPVRKHVERASHDLRAVITTYEGKHNHDV 247 (366)
Q Consensus 188 ~dDGy~WRKYGQK~ikgn~~pRsYYrCt~~gC~akK~Ver~~~D~~~~~~tY~G~HnH~~ 247 (366)
++|||+|||||||.|+|+++||+||||++.+|+|+|+|||+.+|+.+++|||+|+|||+.
T Consensus 1 ~~Dgy~WRKYGqK~i~g~~~pRsYYrCt~~~C~akK~Vqr~~~d~~~~~vtY~G~H~h~k 60 (60)
T PF03106_consen 1 LDDGYRWRKYGQKNIKGSPYPRSYYRCTHPGCPAKKQVQRSADDPNIVIVTYEGEHNHPK 60 (60)
T ss_dssp --SSS-EEEEEEEEETTTTCEEEEEEEECTTEEEEEEEEEETTCCCEEEEEEES--SS--
T ss_pred CCCCCchhhccCcccCCCceeeEeeeccccChhheeeEEEecCCCCEEEEEEeeeeCCCC
Confidence 589999999999999999999999999999999999999999999999999999999973
No 2
>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif. The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.
Probab=99.96 E-value=2.1e-31 Score=204.13 Aligned_cols=59 Identities=54% Similarity=0.964 Sum_probs=50.7
Q ss_pred CCCCCCcccccCCCCCCCCCCCCcccCCCCCCCccceeeeec-CCceEEEEecCCCCCCC
Q 017783 9 ARCEIGTEKYGQKQVKGSENPRSYYKCTFPSCPTKKKVERSL-DGQITEIVYKGSHNHPK 67 (366)
Q Consensus 9 ~~Dgy~WRKYGQK~IkGs~~pRsYYrCt~~~C~akK~Vers~-Dg~i~~i~Y~G~HnH~~ 67 (366)
+||||+|||||||.|+|+++|||||||++.+|+|+|+|||+. |+.+++|+|+|+|||++
T Consensus 1 ~~Dgy~WRKYGqK~i~g~~~pRsYYrCt~~~C~akK~Vqr~~~d~~~~~vtY~G~H~h~k 60 (60)
T PF03106_consen 1 LDDGYRWRKYGQKNIKGSPYPRSYYRCTHPGCPAKKQVQRSADDPNIVIVTYEGEHNHPK 60 (60)
T ss_dssp --SSS-EEEEEEEEETTTTCEEEEEEEECTTEEEEEEEEEETTCCCEEEEEEES--SS--
T ss_pred CCCCCchhhccCcccCCCceeeEeeeccccChhheeeEEEecCCCCEEEEEEeeeeCCCC
Confidence 689999999999999999999999999999999999999996 78899999999999985
No 3
>smart00774 WRKY DNA binding domain. The WRKY domain is a DNA binding domain found in one or two copies in a superfamily of plant transcription factors. These transcription factors are involved in the regulation of various physiological programs that are unique to plants, including pathogen defense, senescence and trichome development. The domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger-like motif. It binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core is essential for function and WRKY binding.
Probab=99.96 E-value=3.8e-30 Score=196.90 Aligned_cols=58 Identities=64% Similarity=1.261 Sum_probs=56.6
Q ss_pred CCCCchhhhccccccCCCCCCcccccccC-CCCCcccchhhccCCCCeEEEEEecccCC
Q 017783 188 LDDGYRWRKYGQKVVKGNPNPRSYYKCTH-PGCPVRKHVERASHDLRAVITTYEGKHNH 245 (366)
Q Consensus 188 ~dDGy~WRKYGQK~ikgn~~pRsYYrCt~-~gC~akK~Ver~~~D~~~~~~tY~G~HnH 245 (366)
++|||+|||||||.|+|+++||+|||||+ ++|+|+|+|||+++|+.+++|||+|+|||
T Consensus 1 ~~DGy~WRKYGQK~ikgs~~pRsYYrCt~~~~C~a~K~Vq~~~~d~~~~~vtY~g~H~h 59 (59)
T smart00774 1 LDDGYQWRKYGQKVIKGSPFPRSYYRCTYSQGCPAKKQVQRSDDDPSVVEVTYEGEHTH 59 (59)
T ss_pred CCCcccccccCcEecCCCcCcceEEeccccCCCCCcccEEEECCCCCEEEEEEeeEeCC
Confidence 47999999999999999999999999999 99999999999999999999999999998
No 4
>smart00774 WRKY DNA binding domain. The WRKY domain is a DNA binding domain found in one or two copies in a superfamily of plant transcription factors. These transcription factors are involved in the regulation of various physiological programs that are unique to plants, including pathogen defense, senescence and trichome development. The domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger-like motif. It binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core is essential for function and WRKY binding.
Probab=99.96 E-value=5.4e-30 Score=196.07 Aligned_cols=57 Identities=49% Similarity=0.890 Sum_probs=55.0
Q ss_pred CCCCCCcccccCCCCCCCCCCCCcccCCC-CCCCccceeeeec-CCceEEEEecCCCCC
Q 017783 9 ARCEIGTEKYGQKQVKGSENPRSYYKCTF-PSCPTKKKVERSL-DGQITEIVYKGSHNH 65 (366)
Q Consensus 9 ~~Dgy~WRKYGQK~IkGs~~pRsYYrCt~-~~C~akK~Vers~-Dg~i~~i~Y~G~HnH 65 (366)
++|||+|||||||.|+|+++||+|||||+ ++|+|+|+||++. |+.+++|||+|+|||
T Consensus 1 ~~DGy~WRKYGQK~ikgs~~pRsYYrCt~~~~C~a~K~Vq~~~~d~~~~~vtY~g~H~h 59 (59)
T smart00774 1 LDDGYQWRKYGQKVIKGSPFPRSYYRCTYSQGCPAKKQVQRSDDDPSVVEVTYEGEHTH 59 (59)
T ss_pred CCCcccccccCcEecCCCcCcceEEeccccCCCCCcccEEEECCCCCEEEEEEeeEeCC
Confidence 58999999999999999999999999999 9999999999996 789999999999998
No 5
>PF04500 FLYWCH: FLYWCH zinc finger domain; InterPro: IPR007588 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a potential FLYWCH Zn-finger domain found in a number of eukaryotic proteins. FLYWCH is a C2H2-type zinc finger characterised by five conserved hydrophobic residues, containing the conserved sequence motif: F/Y-X(n)-L-X(n)-F/Y-X(n)-WXCX(6-12)CX(17-22)HXH where X indicates any amino acid. This domain was first characterised in Drosophila Modifier of mdg4 proteins, Mod(mgd4), putative chromatin modulators involved in higher order chromatin domains. Mod(mdg4) proteins share a common N-terminal BTB/POZ domain, but differ in their C-terminal region, most containing C-terminal FLYWCH zinc finger motifs []. The FLYWCH domain in Mod(mdg4) proteins has a putative role in protein-protein interactions; for example, Mod(mdg4)-67.2 interacts with DNA-binding protein Su(Hw) via its FLYWCH domain. FLYWCH domains have been described in other proteins as well, including suppressor of killer of prune, Su(Kpn), which contains 4 terminal FLYWCH zinc finger motifs in a tandem array and a C-terminal glutathione SH-transferase (GST) domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2RPR_A.
Probab=88.87 E-value=0.13 Score=37.51 Aligned_cols=48 Identities=29% Similarity=0.712 Sum_probs=24.4
Q ss_pred CCCCchhhhccccccCCCCCCcccccccCC---CCCcccchhhccCCCCeEEEEEecccCC
Q 017783 188 LDDGYRWRKYGQKVVKGNPNPRSYYKCTHP---GCPVRKHVERASHDLRAVITTYEGKHNH 245 (366)
Q Consensus 188 ~dDGy~WRKYGQK~ikgn~~pRsYYrCt~~---gC~akK~Ver~~~D~~~~~~tY~G~HnH 245 (366)
+-|||.-.+.... ....|++|+.. +|+|+-.+. .++ ..++...++|||
T Consensus 12 ~~~Gy~y~~~~~~------~~~~~WrC~~~~~~~C~a~~~~~--~~~--~~~~~~~~~HnH 62 (62)
T PF04500_consen 12 VYDGYRYYFNKRN------DGKTYWRCSRRRSHGCRARLITD--AGD--GRVVRTNGEHNH 62 (62)
T ss_dssp EETTEEEEEEEE-------SS-EEEEEGGGTTS----EEEEE----T--TEEEE-S---SS
T ss_pred EECCeEEECcCCC------CCcEEEEeCCCCCCCCeEEEEEE--CCC--CEEEECCCccCC
Confidence 3488887765544 45689999873 899988776 222 333455599999
No 6
>PF04500 FLYWCH: FLYWCH zinc finger domain; InterPro: IPR007588 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a potential FLYWCH Zn-finger domain found in a number of eukaryotic proteins. FLYWCH is a C2H2-type zinc finger characterised by five conserved hydrophobic residues, containing the conserved sequence motif: F/Y-X(n)-L-X(n)-F/Y-X(n)-WXCX(6-12)CX(17-22)HXH where X indicates any amino acid. This domain was first characterised in Drosophila Modifier of mdg4 proteins, Mod(mgd4), putative chromatin modulators involved in higher order chromatin domains. Mod(mdg4) proteins share a common N-terminal BTB/POZ domain, but differ in their C-terminal region, most containing C-terminal FLYWCH zinc finger motifs []. The FLYWCH domain in Mod(mdg4) proteins has a putative role in protein-protein interactions; for example, Mod(mdg4)-67.2 interacts with DNA-binding protein Su(Hw) via its FLYWCH domain. FLYWCH domains have been described in other proteins as well, including suppressor of killer of prune, Su(Kpn), which contains 4 terminal FLYWCH zinc finger motifs in a tandem array and a C-terminal glutathione SH-transferase (GST) domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2RPR_A.
Probab=86.25 E-value=0.22 Score=36.23 Aligned_cols=48 Identities=15% Similarity=0.293 Sum_probs=21.1
Q ss_pred CCCCCCcccccCCCCCCCCCCCCcccCCCC---CCCccceeeeecCCceEEEEecCCCCC
Q 017783 9 ARCEIGTEKYGQKQVKGSENPRSYYKCTFP---SCPTKKKVERSLDGQITEIVYKGSHNH 65 (366)
Q Consensus 9 ~~Dgy~WRKYGQK~IkGs~~pRsYYrCt~~---~C~akK~Vers~Dg~i~~i~Y~G~HnH 65 (366)
.=|||.-++.... ..+.|++|+.. +|+|+=.+. .++.. .+...++|||
T Consensus 12 ~~~Gy~y~~~~~~------~~~~~WrC~~~~~~~C~a~~~~~--~~~~~-~~~~~~~HnH 62 (62)
T PF04500_consen 12 VYDGYRYYFNKRN------DGKTYWRCSRRRSHGCRARLITD--AGDGR-VVRTNGEHNH 62 (62)
T ss_dssp EETTEEEEEEEE-------SS-EEEEEGGGTTS----EEEEE----TTE-EEE-S---SS
T ss_pred EECCeEEECcCCC------CCcEEEEeCCCCCCCCeEEEEEE--CCCCE-EEECCCccCC
Confidence 3456655554443 55789999864 799965554 22222 3444599999
No 7
>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants. It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.
Probab=79.65 E-value=2.7 Score=33.25 Aligned_cols=60 Identities=25% Similarity=0.423 Sum_probs=40.0
Q ss_pred cCCCCCCcccccCCCC-CCCCCCCCcccCCC----------------------CCCCccceeeeecCCceEEEEecCCCC
Q 017783 8 KARCEIGTEKYGQKQV-KGSENPRSYYKCTF----------------------PSCPTKKKVERSLDGQITEIVYKGSHN 64 (366)
Q Consensus 8 ~~~Dgy~WRKYGQK~I-kGs~~pRsYYrCt~----------------------~~C~akK~Vers~Dg~i~~i~Y~G~Hn 64 (366)
-..-||.+|+-=.+.- ++...-+-+|.|.. -+|+|+=.|-+..+|....+.+..+||
T Consensus 7 A~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~~~~w~v~~~~~~HN 86 (91)
T PF03101_consen 7 ARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRKDGKWRVTSFVLEHN 86 (91)
T ss_pred cCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEccCCEEEEEECcCCcC
Confidence 3455666666543332 44445556666652 369998777777777777778999999
Q ss_pred CCC
Q 017783 65 HPK 67 (366)
Q Consensus 65 H~~ 67 (366)
|+-
T Consensus 87 H~L 89 (91)
T PF03101_consen 87 HPL 89 (91)
T ss_pred CCC
Confidence 975
No 8
>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants. It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.
Probab=73.00 E-value=2.2 Score=33.72 Aligned_cols=30 Identities=33% Similarity=0.575 Sum_probs=25.9
Q ss_pred CCCCcccchhhccCCCCeEEEEEecccCCCC
Q 017783 217 PGCPVRKHVERASHDLRAVITTYEGKHNHDV 247 (366)
Q Consensus 217 ~gC~akK~Ver~~~D~~~~~~tY~G~HnH~~ 247 (366)
.+|+|+=.|.+.. +..-+++.+..+|||+.
T Consensus 60 tgC~a~i~v~~~~-~~~w~v~~~~~~HNH~L 89 (91)
T PF03101_consen 60 TGCKARINVKRRK-DGKWRVTSFVLEHNHPL 89 (91)
T ss_pred cCCCEEEEEEEcc-CCEEEEEECcCCcCCCC
Confidence 6999999888765 77788889999999986
No 9
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=34.41 E-value=39 Score=38.47 Aligned_cols=35 Identities=26% Similarity=0.432 Sum_probs=29.4
Q ss_pred CCCCCCCccceeeeecCCceEEEEecCCCCCCCCC
Q 017783 35 CTFPSCPTKKKVERSLDGQITEIVYKGSHNHPKPQ 69 (366)
Q Consensus 35 Ct~~~C~akK~Vers~Dg~i~~i~Y~G~HnH~~P~ 69 (366)
|+--+|+|+=.|-+..+|....+-+..+|||+--.
T Consensus 156 ~tRtGC~A~m~Vk~~~~gkW~V~~fv~eHNH~L~p 190 (846)
T PLN03097 156 CAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELLP 190 (846)
T ss_pred ccCCCCceEEEEEEcCCCeEEEEEEecCCCCCCCC
Confidence 77789999999988778876667799999998753
No 10
>PF03859 CG-1: CG-1 domain; InterPro: IPR005559 CG-1 domains are highly conserved domains of about 130 amino-acid residues containing a predicted bipartite NLS and named after a partial cDNA clone isolated from parsley encoding a sequence-specific DNA-binding protein []. CG-1 domains are associated with CAMTA proteins (for CAlModulin -binding Transcription Activator) that are transcription factors containing a calmodulin-binding domain and ankyrins [].; GO: 0005516 calmodulin binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=26.21 E-value=24 Score=31.24 Aligned_cols=8 Identities=13% Similarity=-0.122 Sum_probs=7.0
Q ss_pred CCCCCccc
Q 017783 10 RCEIGTEK 17 (366)
Q Consensus 10 ~Dgy~WRK 17 (366)
-|||+|||
T Consensus 52 kDG~~WrK 59 (118)
T PF03859_consen 52 KDGHNWRK 59 (118)
T ss_pred cccceeEE
Confidence 49999987
No 11
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=23.90 E-value=62 Score=36.96 Aligned_cols=36 Identities=33% Similarity=0.629 Sum_probs=29.6
Q ss_pred ccCCCCCcccchhhccCCCCeEEEEEecccCCCCCCC
Q 017783 214 CTHPGCPVRKHVERASHDLRAVITTYEGKHNHDVPAA 250 (366)
Q Consensus 214 Ct~~gC~akK~Ver~~~D~~~~~~tY~G~HnH~~p~~ 250 (366)
|+-.||+|+=.|.+. .|..-+++.+..+|||+.-..
T Consensus 156 ~tRtGC~A~m~Vk~~-~~gkW~V~~fv~eHNH~L~p~ 191 (846)
T PLN03097 156 CAKTDCKASMHVKRR-PDGKWVIHSFVKEHNHELLPA 191 (846)
T ss_pred ccCCCCceEEEEEEc-CCCeEEEEEEecCCCCCCCCc
Confidence 788899999999874 456778888999999988543
Done!