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Conserved domains on  [gi|568932184|ref|XP_006539380|]
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protein lin-28 homolog A isoform X1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
S1_like super family cl09927
S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of ...
 60-96 5.02e-07

S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.


The actual alignment was detected with superfamily member pfam00313:

Pssm-ID: 471952  Cd Length: 66  Bit Score: 45.31  E-value: 5.02e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 568932184   60 QSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGP 96
Cdd:pfam00313  30 FSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVTKP 66
AIR1 super family cl34894
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 104-167 8.30e-03

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


The actual alignment was detected with superfamily member COG5082:

Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 35.60  E-value: 8.30e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568932184 104 SERRPKGKNMQKRRSKgdRCYNCGGLDHHAKECKLP---------------PQPKKCHFCQSINHMVASCPLKAQQGPS 167
Cdd:COG5082   46 EDRSVEDVSAIREENP--VCFNCGQNGHLRRDCPHSicyncswdghrsnhcPKPKKCYNCGETGHLSRDCNPSKDQQKS 122
 
Name Accession Description Interval E-value
CSD pfam00313
'Cold-shock' DNA-binding domain;
60-96 5.02e-07

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 45.31  E-value: 5.02e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 568932184   60 QSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGP 96
Cdd:pfam00313  30 FSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVTKP 66
CspC COG1278
Cold shock protein, CspA family [Transcription];
61-94 1.59e-04

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 38.25  E-value: 1.59e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 568932184  61 SKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 94
Cdd:COG1278   32 SALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVR 65
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 104-167 8.30e-03

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 35.60  E-value: 8.30e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568932184 104 SERRPKGKNMQKRRSKgdRCYNCGGLDHHAKECKLP---------------PQPKKCHFCQSINHMVASCPLKAQQGPS 167
Cdd:COG5082   46 EDRSVEDVSAIREENP--VCFNCGQNGHLRRDCPHSicyncswdghrsnhcPKPKKCYNCGETGHLSRDCNPSKDQQKS 122
 
Name Accession Description Interval E-value
CSD pfam00313
'Cold-shock' DNA-binding domain;
60-96 5.02e-07

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 45.31  E-value: 5.02e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 568932184   60 QSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGP 96
Cdd:pfam00313  30 FSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVTKP 66
CspC COG1278
Cold shock protein, CspA family [Transcription];
61-94 1.59e-04

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 38.25  E-value: 1.59e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 568932184  61 SKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 94
Cdd:COG1278   32 SALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVR 65
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 104-167 8.30e-03

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 35.60  E-value: 8.30e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568932184 104 SERRPKGKNMQKRRSKgdRCYNCGGLDHHAKECKLP---------------PQPKKCHFCQSINHMVASCPLKAQQGPS 167
Cdd:COG5082   46 EDRSVEDVSAIREENP--VCFNCGQNGHLRRDCPHSicyncswdghrsnhcPKPKKCYNCGETGHLSRDCNPSKDQQKS 122
 
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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