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Conserved domains on  [gi|74201010|dbj|BAE37386|]
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unnamed protein product, partial [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Syo1_like super family cl23709
Fungal symportin 1 (syo1) and similar proteins; This family of eukaryotic proteins includes ...
 1-75 6.32e-20

Fungal symportin 1 (syo1) and similar proteins; This family of eukaryotic proteins includes Saccharomyces cerevisiae Ydl063c and Chaetomium thermophilum Syo1, which mediate the co-import of two ribosomal proteins, Rpl5 and Rpl11 (which both interact with 5S rRNA) into the nucleus. Import precedes their association with rRNA and subsequent ribosome assembly in the nucleolus. The primary structure of syo1 is a mixture of Armadillo- (ARM, N-terminal part of syo1) and HEAT-repeats (C-terminal part of syo1).


The actual alignment was detected with superfamily member cd13394:

Pssm-ID: 474028 [Multi-domain]  Cd Length: 597  Bit Score: 81.97  E-value: 6.32e-20
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 74201010   1 VTGEALDALFDVFADGEAA--EKASVQIKLLAALKEFQPVFKMKIRKEGRGKYsPDQLCVLDNVKMNLRRFIAYQET 75
Cdd:cd13394 521 VLVEALNAIFDIYGDETFDydPPVFVQGGYLKLLEKLVPKLKAMFKKIDKRKD-PELRERADEALINLTRFIKYKKS 596
 
Name Accession Description Interval E-value
Syo1_like cd13394
Fungal symportin 1 (syo1) and similar proteins; This family of eukaryotic proteins includes ...
 1-75 6.32e-20

Fungal symportin 1 (syo1) and similar proteins; This family of eukaryotic proteins includes Saccharomyces cerevisiae Ydl063c and Chaetomium thermophilum Syo1, which mediate the co-import of two ribosomal proteins, Rpl5 and Rpl11 (which both interact with 5S rRNA) into the nucleus. Import precedes their association with rRNA and subsequent ribosome assembly in the nucleolus. The primary structure of syo1 is a mixture of Armadillo- (ARM, N-terminal part of syo1) and HEAT-repeats (C-terminal part of syo1).


Pssm-ID: 240521 [Multi-domain]  Cd Length: 597  Bit Score: 81.97  E-value: 6.32e-20
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 74201010   1 VTGEALDALFDVFADGEAA--EKASVQIKLLAALKEFQPVFKMKIRKEGRGKYsPDQLCVLDNVKMNLRRFIAYQET 75
Cdd:cd13394 521 VLVEALNAIFDIYGDETFDydPPVFVQGGYLKLLEKLVPKLKAMFKKIDKRKD-PELRERADEALINLTRFIKYKKS 596
 
Name Accession Description Interval E-value
Syo1_like cd13394
Fungal symportin 1 (syo1) and similar proteins; This family of eukaryotic proteins includes ...
 1-75 6.32e-20

Fungal symportin 1 (syo1) and similar proteins; This family of eukaryotic proteins includes Saccharomyces cerevisiae Ydl063c and Chaetomium thermophilum Syo1, which mediate the co-import of two ribosomal proteins, Rpl5 and Rpl11 (which both interact with 5S rRNA) into the nucleus. Import precedes their association with rRNA and subsequent ribosome assembly in the nucleolus. The primary structure of syo1 is a mixture of Armadillo- (ARM, N-terminal part of syo1) and HEAT-repeats (C-terminal part of syo1).


Pssm-ID: 240521 [Multi-domain]  Cd Length: 597  Bit Score: 81.97  E-value: 6.32e-20
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 74201010   1 VTGEALDALFDVFADGEAA--EKASVQIKLLAALKEFQPVFKMKIRKEGRGKYsPDQLCVLDNVKMNLRRFIAYQET 75
Cdd:cd13394 521 VLVEALNAIFDIYGDETFDydPPVFVQGGYLKLLEKLVPKLKAMFKKIDKRKD-PELRERADEALINLTRFIKYKKS 596
 
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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