pumilio 6 [Arabidopsis thaliana]
Protein Classification
pumilio/puf RNA-binding domain-containing protein( domain architecture ID 13417614)
pumilio/puf RNA-binding domain-containing protein family members are identified by the presence of eight tandem copies of an imperfectly repeated, 36 amino acid sequence motif, the PUM repeat, and contain evolutionarily conserved sequences that are amino- and carboxy-terminal to the repeated region of the protein. The eight repeats, together with the terminal conserved sequences, form a sequence-specific RNA binding domain.
List of domain hits
| Name | Accession | Description | Interval | E-value | |||||||||||
| Pumilio | cd07920 | Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ... |
527-842 | 4.98e-152 | |||||||||||
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats. : Pssm-ID: 153420 [Multi-domain] Cd Length: 322 Bit Score: 448.58 E-value: 4.98e-152
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| COG5099 super family | cl34901 | RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ... |
71-844 | 6.66e-84 | |||||||||||
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]; The actual alignment was detected with superfamily member COG5099: Pssm-ID: 227430 [Multi-domain] Cd Length: 777 Bit Score: 285.10 E-value: 6.66e-84
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| Name | Accession | Description | Interval | E-value | |||||||||||
| Pumilio | cd07920 | Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ... |
527-842 | 4.98e-152 | |||||||||||
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats. Pssm-ID: 153420 [Multi-domain] Cd Length: 322 Bit Score: 448.58 E-value: 4.98e-152
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| COG5099 | COG5099 | RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ... |
71-844 | 6.66e-84 | |||||||||||
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]; Pssm-ID: 227430 [Multi-domain] Cd Length: 777 Bit Score: 285.10 E-value: 6.66e-84
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
747-781 | 1.52e-09 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 53.84 E-value: 1.52e-09
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
562-595 | 6.10e-08 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 49.35 E-value: 6.10e-08
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| Name | Accession | Description | Interval | E-value | |||||||||||
| Pumilio | cd07920 | Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ... |
527-842 | 4.98e-152 | |||||||||||
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats. Pssm-ID: 153420 [Multi-domain] Cd Length: 322 Bit Score: 448.58 E-value: 4.98e-152
|
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| COG5099 | COG5099 | RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ... |
71-844 | 6.66e-84 | |||||||||||
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]; Pssm-ID: 227430 [Multi-domain] Cd Length: 777 Bit Score: 285.10 E-value: 6.66e-84
|
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
747-781 | 1.52e-09 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 53.84 E-value: 1.52e-09
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
674-709 | 2.68e-09 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 53.07 E-value: 2.68e-09
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
562-595 | 6.10e-08 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 49.35 E-value: 6.10e-08
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
602-635 | 1.16e-07 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 48.45 E-value: 1.16e-07
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
743-778 | 1.43e-07 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 48.20 E-value: 1.43e-07
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
793-819 | 1.52e-07 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 48.20 E-value: 1.52e-07
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
791-822 | 3.40e-07 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 46.91 E-value: 3.40e-07
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
566-600 | 4.65e-07 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 46.52 E-value: 4.65e-07
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
707-740 | 3.59e-06 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 44.35 E-value: 3.59e-06
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
712-740 | 4.80e-06 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 43.83 E-value: 4.80e-06
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
670-704 | 1.43e-05 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 42.42 E-value: 1.43e-05
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| PUF | pfam00806 | Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ... |
536-564 | 1.35e-04 | |||||||||||
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure. Pssm-ID: 459944 [Multi-domain] Cd Length: 35 Bit Score: 39.59 E-value: 1.35e-04
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
634-668 | 2.33e-04 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 38.95 E-value: 2.33e-04
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| Pumilio | smart00025 | Pumilio-like repeats; Pumilio-like repeats that bind RNA. |
601-628 | 5.22e-04 | |||||||||||
Pumilio-like repeats; Pumilio-like repeats that bind RNA. Pssm-ID: 214475 [Multi-domain] Cd Length: 36 Bit Score: 38.18 E-value: 5.22e-04
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