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Conserved domains on  [gi|159163134|pdb|1UG8|A]
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Chain A, Poly(A)-specific Ribonuclease

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
R3H_PARN cd02637
R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease ...
 13-78 1.58e-25

R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease from the RNase D family that, in Xenopus, deadenylates a specific class of maternal mRNAs which results in their translational repression. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.


:

Pssm-ID: 100066 [Multi-domain]  Cd Length: 65  Bit Score: 89.69  E-value: 1.58e-25
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*.
1UG8_A      13 IDQVIEKIEDFLQSEEKrSLELDPCTGFQRKLIYQTLSWKYPKGIHVETLETDKKERHIVISKVDE 78
Cdd:cd02637  1 IDEVIERIEAFLESEED-DLELEPCNGFQRKLIYQTLEQKYPKGIHVETLETEKKERLIVIEKGDK 65
 
Name Accession Description Interval E-value
R3H_PARN cd02637
R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease ...
 13-78 1.58e-25

R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease from the RNase D family that, in Xenopus, deadenylates a specific class of maternal mRNAs which results in their translational repression. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.


Pssm-ID: 100066 [Multi-domain]  Cd Length: 65  Bit Score: 89.69  E-value: 1.58e-25
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*.
1UG8_A      13 IDQVIEKIEDFLQSEEKrSLELDPCTGFQRKLIYQTLSWKYPKGIHVETLETDKKERHIVISKVDE 78
Cdd:cd02637  1 IDEVIERIEAFLESEED-DLELEPCNGFQRKLIYQTLEQKYPKGIHVETLETEKKERLIVIEKGDK 65
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 11-75 6.53e-06

R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.


Pssm-ID: 460206  Cd Length: 60  Bit Score: 39.78  E-value: 6.53e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
1UG8_A        11 KFIDQVIEKIEDFLQSEeKRSLELDPCTGFQRKLIYQTLSwKYPkgihVETLETDK-KERHIVISK 75
Cdd:pfam01424  1 EFLEQLAEKLAEFVKDT-GKSLELPPMSSYERRIIHELAQ-KYG----LESESEGEePNRRVVVYK 60
 
Name Accession Description Interval E-value
R3H_PARN cd02637
R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease ...
 13-78 1.58e-25

R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease from the RNase D family that, in Xenopus, deadenylates a specific class of maternal mRNAs which results in their translational repression. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.


Pssm-ID: 100066 [Multi-domain]  Cd Length: 65  Bit Score: 89.69  E-value: 1.58e-25
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*.
1UG8_A      13 IDQVIEKIEDFLQSEEKrSLELDPCTGFQRKLIYQTLSWKYPKGIHVETLETDKKERHIVISKVDE 78
Cdd:cd02637  1 IDEVIERIEAFLESEED-DLELEPCNGFQRKLIYQTLEQKYPKGIHVETLETEKKERLIVIEKGDK 65
R3H cd02325
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 13-75 7.85e-11

R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100064  Cd Length: 59  Bit Score: 52.23  E-value: 7.85e-11
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|...
1UG8_A      13 IDQVIEKIEDFLQSEEKRSLELDPCTGFQRKLIYQTLSWkypKGIHVETLETDKKeRHIVISK 75
Cdd:cd02325  1 REEREEELEAFAKDAAGKSLELPPMNSYERKLIHDLAEY---YGLKSESEGEGPN-RRVVITK 59
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 11-75 6.53e-06

R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.


Pssm-ID: 460206  Cd Length: 60  Bit Score: 39.78  E-value: 6.53e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
1UG8_A        11 KFIDQVIEKIEDFLQSEeKRSLELDPCTGFQRKLIYQTLSwKYPkgihVETLETDK-KERHIVISK 75
Cdd:pfam01424  1 EFLEQLAEKLAEFVKDT-GKSLELPPMSSYERRIIHELAQ-KYG----LESESEGEePNRRVVVYK 60
R3H_encore_like cd02642
R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the ...
 9-47 2.79e-03

R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100071  Cd Length: 63  Bit Score: 32.96  E-value: 2.79e-03
                       10        20        30
               ....*....|....*....|....*....|....*....
1UG8_A       9 QKKFIDQVIEKIEDFLQSEEKRSLELDPCTGFQRKLIYQ 47
Cdd:cd02642  1 DRLFVLKLEKDLLAFIKDSTRQSLELPPMNSYYRLLAHR 39
 
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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