Plant-specific transcription factor YABBY family protein [Arabidopsis thaliana]
Protein Classification
YABBY transcription factor( domain architecture ID 10520082)
YABBY transcription factor is involved in the initiation of outgrowth of the lamina, the maintenance of polarity, and establishment of the leaf margin
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||
| YABBY | pfam04690 | YABBY protein; YABBY proteins are a group of plant-specific transcription involved in the ... |
20-189 | 5.56e-93 | ||||
YABBY protein; YABBY proteins are a group of plant-specific transcription involved in the specification of abaxial polarity in lateral organs. : Pssm-ID: 461393 Cd Length: 163 Bit Score: 269.55 E-value: 5.56e-93
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| Name | Accession | Description | Interval | E-value | ||||
| YABBY | pfam04690 | YABBY protein; YABBY proteins are a group of plant-specific transcription involved in the ... |
20-189 | 5.56e-93 | ||||
YABBY protein; YABBY proteins are a group of plant-specific transcription involved in the specification of abaxial polarity in lateral organs. Pssm-ID: 461393 Cd Length: 163 Bit Score: 269.55 E-value: 5.56e-93
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| HMG-box_SF | cd00084 | high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ... |
143-179 | 1.30e-05 | ||||
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenetically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4, and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions. Pssm-ID: 438789 [Multi-domain] Cd Length: 59 Bit Score: 41.74 E-value: 1.30e-05
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| Name | Accession | Description | Interval | E-value | ||||
| YABBY | pfam04690 | YABBY protein; YABBY proteins are a group of plant-specific transcription involved in the ... |
20-189 | 5.56e-93 | ||||
YABBY protein; YABBY proteins are a group of plant-specific transcription involved in the specification of abaxial polarity in lateral organs. Pssm-ID: 461393 Cd Length: 163 Bit Score: 269.55 E-value: 5.56e-93
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| HMG-box_SF | cd00084 | high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ... |
143-179 | 1.30e-05 | ||||
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenetically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4, and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions. Pssm-ID: 438789 [Multi-domain] Cd Length: 59 Bit Score: 41.74 E-value: 1.30e-05
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| HMG_box_2 | pfam09011 | HMG-box domain; This short 71 residue domain is an HMG-box domain. HMG-box domains mediate ... |
138-180 | 5.13e-04 | ||||
HMG-box domain; This short 71 residue domain is an HMG-box domain. HMG-box domains mediate re-modelling of chromatin-structure. Mammalian HMG-box proteins are of two types: those that are non-sequence-specific DNA-binding proteins with two HMG-box domains and a long highly acidic C-tail; and a diverse group of sequence-specific transcription factor-proteins with either a single HMG-box or up to six copies, and no acidic C-tail. Pssm-ID: 430369 [Multi-domain] Cd Length: 72 Bit Score: 37.39 E-value: 5.13e-04
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| HMG-box_UBF1_rpt4 | cd22001 | fourth high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar ... |
139-183 | 2.66e-03 | ||||
fourth high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar proteins; UBF1, also called UBTF, nucleolar transcription factor 1, or auto-antigen NOR-90, is a nucleolar transcription factor that recognizes the ribosomal RNA gene promoter and activates transcription mediated by RNA polymerase I through cooperative interactions with the transcription factor SL1/TIF-IB complex. It binds specifically to the upstream control element. UBF1 contains six HMG-box domains. This model corresponds to the fourth one. Pssm-ID: 438817 [Multi-domain] Cd Length: 66 Bit Score: 35.35 E-value: 2.66e-03
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