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Conserved domains on  [gi|18398995|ref|NP_566381|]
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Single-stranded nucleic acid binding R3H protein [Arabidopsis thaliana]

Protein Classification

R3H and SUZ domain-containing protein( domain architecture ID 10119061)

R3H and SUZ domain-containing protein may bind single-stranded nucleic acids through its R3H domain and RNA through its SUZ domain, similar to Zea mays DBF1-interactor protein 1 that is a potential regulator of DBF1 activity in stress responses

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
R3H_encore_like cd02642
R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the ...
 24-94 4.42e-19

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: 79.57  E-value: 4.42e-19
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18398995  24 HRLTILRMELDIQKFFQNPEQLQFEFPPfPTSYLRLAAHRVAQHYGLVTMALDNGtgagdgsDNRILVTKT 94
Cdd:cd02642   1 DRLFVLKLEKDLLAFIKDSTRQSLELPP-MNSYYRLLAHRVAQYYGLDHNVDNSG-------GKCVIVNKT 63
SUZ pfam12752
SUZ domain; The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched ...
 121-165 3.48e-07

SUZ domain; The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids. It was first characterized in the C.elegans protein Szy-20 where it has been shown to bind RNA and allow their localization to the centrosome. Warning- the domain has a compositionally biased character.


:

Pssm-ID: 463689 [Multi-domain]  Cd Length: 56  Bit Score: 46.55  E-value: 3.48e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18398995   121 KIAIKPRPK-----RGSGCGGSGSGVQQNLLRSVEERKEEYDKARARIFN 165
Cdd:pfam12752   4 KMKILRRPSsgsssSSSAGSSGASSSSGSDSKTLEEREAEYAEARARIFG 53
 
Name Accession Description Interval E-value
R3H_encore_like cd02642
R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the ...
 24-94 4.42e-19

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: 79.57  E-value: 4.42e-19
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18398995  24 HRLTILRMELDIQKFFQNPEQLQFEFPPfPTSYLRLAAHRVAQHYGLVTMALDNGtgagdgsDNRILVTKT 94
Cdd:cd02642   1 DRLFVLKLEKDLLAFIKDSTRQSLELPP-MNSYYRLLAHRVAQYYGLDHNVDNSG-------GKCVIVNKT 63
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 27-93 4.70e-09

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: 51.72  E-value: 4.70e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18398995    27 TILRMELDIQKFFQNPEQlQFEFPPFpTSYLRLAAHRVAQHYGLVTMAldngtgAGDGSDNRILVTK 93
Cdd:pfam01424   2 FLEQLAEKLAEFVKDTGK-SLELPPM-SSYERRIIHELAQKYGLESES------EGEEPNRRVVVYK 60
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
11-94 4.70e-09

Putative single-stranded nucleic acids-binding domain;


Pssm-ID: 214647  Cd Length: 79  Bit Score: 52.30  E-value: 4.70e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18398995     11 VDPFLVEAL-QNPRHRLTILRMELDIQKFfQNPEQLQFEFPPfPTSYLRLAAHRVAQHYGLVTMAldngtgAGDGSDNRI 89
Cdd:smart00393   3 FLPVTLDALsYRPRRREELIELELEIARF-VKSTKESVELPP-MNSYERKIVHELAEKYGLESES------FGEGPKRRV 74


                   ....*
gi 18398995     90 LVTKT 94
Cdd:smart00393  75 VISKK 79
SUZ pfam12752
SUZ domain; The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched ...
 121-165 3.48e-07

SUZ domain; The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids. It was first characterized in the C.elegans protein Szy-20 where it has been shown to bind RNA and allow their localization to the centrosome. Warning- the domain has a compositionally biased character.


Pssm-ID: 463689 [Multi-domain]  Cd Length: 56  Bit Score: 46.55  E-value: 3.48e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18398995   121 KIAIKPRPK-----RGSGCGGSGSGVQQNLLRSVEERKEEYDKARARIFN 165
Cdd:pfam12752   4 KMKILRRPSsgsssSSSAGSSGASSSSGSDSKTLEEREAEYAEARARIFG 53
 
Name Accession Description Interval E-value
R3H_encore_like cd02642
R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the ...
 24-94 4.42e-19

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: 79.57  E-value: 4.42e-19
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18398995  24 HRLTILRMELDIQKFFQNPEQLQFEFPPfPTSYLRLAAHRVAQHYGLVTMALDNGtgagdgsDNRILVTKT 94
Cdd:cd02642   1 DRLFVLKLEKDLLAFIKDSTRQSLELPP-MNSYYRLLAHRVAQYYGLDHNVDNSG-------GKCVIVNKT 63
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 27-93 4.70e-09

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: 51.72  E-value: 4.70e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18398995    27 TILRMELDIQKFFQNPEQlQFEFPPFpTSYLRLAAHRVAQHYGLVTMAldngtgAGDGSDNRILVTK 93
Cdd:pfam01424   2 FLEQLAEKLAEFVKDTGK-SLELPPM-SSYERRIIHELAQKYGLESES------EGEEPNRRVVVYK 60
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
11-94 4.70e-09

Putative single-stranded nucleic acids-binding domain;


Pssm-ID: 214647  Cd Length: 79  Bit Score: 52.30  E-value: 4.70e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18398995     11 VDPFLVEAL-QNPRHRLTILRMELDIQKFfQNPEQLQFEFPPfPTSYLRLAAHRVAQHYGLVTMAldngtgAGDGSDNRI 89
Cdd:smart00393   3 FLPVTLDALsYRPRRREELIELELEIARF-VKSTKESVELPP-MNSYERKIVHELAEKYGLESES------FGEGPKRRV 74


                   ....*
gi 18398995     90 LVTKT 94
Cdd:smart00393  75 VISKK 79
R3H cd02325
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 28-93 1.80e-07

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: 47.22  E-value: 1.80e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18398995  28 ILRMELDIQKFFQNPEQLQFEFPPfPTSYLRLAAHRVAQHYGLVTMALdngtgaGDGSDNRILVTK 93
Cdd:cd02325   1 REEREEELEAFAKDAAGKSLELPP-MNSYERKLIHDLAEYYGLKSESE------GEGPNRRVVITK 59
SUZ pfam12752
SUZ domain; The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched ...
 121-165 3.48e-07

SUZ domain; The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids. It was first characterized in the C.elegans protein Szy-20 where it has been shown to bind RNA and allow their localization to the centrosome. Warning- the domain has a compositionally biased character.


Pssm-ID: 463689 [Multi-domain]  Cd Length: 56  Bit Score: 46.55  E-value: 3.48e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 18398995   121 KIAIKPRPK-----RGSGCGGSGSGVQQNLLRSVEERKEEYDKARARIFN 165
Cdd:pfam12752   4 KMKILRRPSsgsssSSSAGSSGASSSSGSDSKTLEEREAEYAEARARIFG 53
 
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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