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Conserved domains on  [gi|937916189|dbj|BAS91108|]
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Os04g0625350, partial [Oryza sativa Japonica Group]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Npa1 super family cl13202
Ribosome 60S biogenesis N-terminal; Npa1p is required for ribosome biogenesis and operates in ...
 95-223 1.21e-07

Ribosome 60S biogenesis N-terminal; Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.


The actual alignment was detected with superfamily member pfam11707:

Pssm-ID: 463325  Cd Length: 332  Bit Score: 51.08  E-value: 1.21e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937916189   95 LVELAEAWRLHREK---PGMAYILSLFATVLGHPGGKL--RRHGLvkksldGVARMILedKEKMGDVYLELNSGEFRRQN 169
Cdd:pfam11707   1 LSEIFQAWSYAAQVnneSLLSAVTAVLALLLRTLSSHLdfRPYGL------GLIKTIL--QNHLKLLYRGLSSSKPSLIS 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 937916189  170 AALDLLAAIVR-RGGGLASEIAKSFDFKMAVLPQLSGVRKKRGGRDGGNRKKGTD 223
Cdd:pfam11707  73 PTLRLLTEIVSfDGGALAREVLSAFDFTLKSLPRLLTPRKREDEEGTEDPKGKPS 127
 
Name Accession Description Interval E-value
Npa1 pfam11707
Ribosome 60S biogenesis N-terminal; Npa1p is required for ribosome biogenesis and operates in ...
 95-223 1.21e-07

Ribosome 60S biogenesis N-terminal; Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.


Pssm-ID: 463325  Cd Length: 332  Bit Score: 51.08  E-value: 1.21e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937916189   95 LVELAEAWRLHREK---PGMAYILSLFATVLGHPGGKL--RRHGLvkksldGVARMILedKEKMGDVYLELNSGEFRRQN 169
Cdd:pfam11707   1 LSEIFQAWSYAAQVnneSLLSAVTAVLALLLRTLSSHLdfRPYGL------GLIKTIL--QNHLKLLYRGLSSSKPSLIS 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 937916189  170 AALDLLAAIVR-RGGGLASEIAKSFDFKMAVLPQLSGVRKKRGGRDGGNRKKGTD 223
Cdd:pfam11707  73 PTLRLLTEIVSfDGGALAREVLSAFDFTLKSLPRLLTPRKREDEEGTEDPKGKPS 127
 
Name Accession Description Interval E-value
Npa1 pfam11707
Ribosome 60S biogenesis N-terminal; Npa1p is required for ribosome biogenesis and operates in ...
 95-223 1.21e-07

Ribosome 60S biogenesis N-terminal; Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.


Pssm-ID: 463325  Cd Length: 332  Bit Score: 51.08  E-value: 1.21e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937916189   95 LVELAEAWRLHREK---PGMAYILSLFATVLGHPGGKL--RRHGLvkksldGVARMILedKEKMGDVYLELNSGEFRRQN 169
Cdd:pfam11707   1 LSEIFQAWSYAAQVnneSLLSAVTAVLALLLRTLSSHLdfRPYGL------GLIKTIL--QNHLKLLYRGLSSSKPSLIS 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 937916189  170 AALDLLAAIVR-RGGGLASEIAKSFDFKMAVLPQLSGVRKKRGGRDGGNRKKGTD 223
Cdd:pfam11707  73 PTLRLLTEIVSfDGGALAREVLSAFDFTLKSLPRLLTPRKREDEEGTEDPKGKPS 127
 
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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