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Conserved domains on  [gi|755510178|ref|XP_011248663|]
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protein lin-28 homolog A isoform X2 [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 ...
 2-62 4.12e-13

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: 60.72  E-value: 4.12e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 755510178    2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGP 62
Cdd:pfam00313  13 GFGFITPE-------DGDKDVFVHFSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVTKP 66
AIR1 super family cl34894
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 70-133 1.02e-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: 37.91  E-value: 1.02e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178  70 SERRPKGKNMQKRRSKgdRCYNCGGLDHHAKEC--------------KLP-PQPKKCHFCQSINHMVASCPLKAQQGPS 133
Cdd:COG5082   46 EDRSVEDVSAIREENP--VCFNCGQNGHLRRDCphsicyncswdghrSNHcPKPKKCYNCGETGHLSRDCNPSKDQQKS 122
 
Name Accession Description Interval E-value
CSD pfam00313
'Cold-shock' DNA-binding domain;
2-62 4.12e-13

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 60.72  E-value: 4.12e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 755510178    2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGP 62
Cdd:pfam00313  13 GFGFITPE-------DGDKDVFVHFSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVTKP 66
CspC COG1278
Cold shock protein, CspA family [Transcription];
2-60 6.45e-11

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 54.82  E-value: 6.45e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 60
Cdd:COG1278   14 GFGFITPD-------DGGEDVFVHISALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVR 65
cspE PRK09507
cold shock-like protein CspE;
2-60 5.36e-08

cold shock-like protein CspE;


Pssm-ID: 169931  Cd Length: 69  Bit Score: 47.34  E-value: 5.36e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 60
Cdd:PRK09507  16 GFGFITPE-------DGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGAKGPSAANVI 67
CSP smart00357
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ...
 2-62 1.52e-05

Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.


Pssm-ID: 214633 [Multi-domain]  Cd Length: 64  Bit Score: 40.66  E-value: 1.52e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 755510178     2 GFGFLSMtaragvaLDPPVDVFVHQSKLHMeGFRSLKEGEAVEF--TFKKSAKGLESIRVTGP 62
Cdd:smart00357  10 GFGFIRP-------DDGGKDVFVHPSQIQG-GLKSLREGDEVEFkvVSPEGGEKPEAENVVKL 64
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 70-133 1.02e-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: 37.91  E-value: 1.02e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178  70 SERRPKGKNMQKRRSKgdRCYNCGGLDHHAKEC--------------KLP-PQPKKCHFCQSINHMVASCPLKAQQGPS 133
Cdd:COG5082   46 EDRSVEDVSAIREENP--VCFNCGQNGHLRRDCphsicyncswdghrSNHcPKPKKCYNCGETGHLSRDCNPSKDQQKS 122
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 84-125 1.22e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 37.09  E-value: 1.22e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 755510178  84 SKGDRCYNCGGLDHHAKECKLPPQ----PKKCHFCQSINHMVASCP 125
Cdd:PTZ00368  75 SGPRSCYNCGQTGHISRECPNRAKggaaRRACYNCGGEGHISRDCP 120
 
Name Accession Description Interval E-value
CSD pfam00313
'Cold-shock' DNA-binding domain;
2-62 4.12e-13

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 60.72  E-value: 4.12e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 755510178    2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGP 62
Cdd:pfam00313  13 GFGFITPE-------DGDKDVFVHFSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVTKP 66
CspC COG1278
Cold shock protein, CspA family [Transcription];
2-60 6.45e-11

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 54.82  E-value: 6.45e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 60
Cdd:COG1278   14 GFGFITPD-------DGGEDVFVHISALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVR 65
cspE PRK09507
cold shock-like protein CspE;
2-60 5.36e-08

cold shock-like protein CspE;


Pssm-ID: 169931  Cd Length: 69  Bit Score: 47.34  E-value: 5.36e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 60
Cdd:PRK09507  16 GFGFITPE-------DGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGAKGPSAANVI 67
PRK10354 PRK10354
RNA chaperone/antiterminator CspA;
2-60 1.38e-07

RNA chaperone/antiterminator CspA;


Pssm-ID: 182402  Cd Length: 70  Bit Score: 46.51  E-value: 1.38e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 60
Cdd:PRK10354  17 GFGFITPD-------DGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIESGAKGPAAGNVT 68
PRK10943 PRK10943
cold shock-like protein CspC; Provisional
 2-60 6.03e-06

cold shock-like protein CspC; Provisional


Pssm-ID: 170841  Cd Length: 69  Bit Score: 41.98  E-value: 6.03e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVT 60
Cdd:PRK10943  16 GFGFITPA-------DGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQDGQKGPAAVNVT 67
CSP smart00357
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ...
 2-62 1.52e-05

Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.


Pssm-ID: 214633 [Multi-domain]  Cd Length: 64  Bit Score: 40.66  E-value: 1.52e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 755510178     2 GFGFLSMtaragvaLDPPVDVFVHQSKLHMeGFRSLKEGEAVEF--TFKKSAKGLESIRVTGP 62
Cdd:smart00357  10 GFGFIRP-------DDGGKDVFVHPSQIQG-GLKSLREGDEVEFkvVSPEGGEKPEAENVVKL 64
PRK09937 PRK09937
cold shock-like protein CspD;
21-53 7.77e-05

cold shock-like protein CspD;


Pssm-ID: 77494  Cd Length: 74  Bit Score: 38.94  E-value: 7.77e-05
                         10        20        30
                 ....*....|....*....|....*....|...
gi 755510178  21 DVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKG 53
Cdd:PRK09937  26 DIFAHYSTIQMDGYRTLKAGQSVQFDVHQGPKG 58
PRK14998 PRK14998
cold shock-like protein CspD; Provisional
 21-53 1.52e-04

cold shock-like protein CspD; Provisional


Pssm-ID: 184960  Cd Length: 73  Bit Score: 38.11  E-value: 1.52e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 755510178  21 DVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKG 53
Cdd:PRK14998  26 DIFAHYSTIQMDGYRTLKAGQSVRFDVHQGPKG 58
PRK09890 PRK09890
cold shock protein CspG; Provisional
 2-53 8.96e-04

cold shock protein CspG; Provisional


Pssm-ID: 77467  Cd Length: 70  Bit Score: 36.28  E-value: 8.96e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 755510178   2 GFGFLSMTaragvalDPPVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKG 53
Cdd:PRK09890  17 GFGFITPD-------DGSKDVFVHFTAIQSNEFRTLNENQKVEFSIEQGQRG 61
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 70-133 1.02e-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: 37.91  E-value: 1.02e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 755510178  70 SERRPKGKNMQKRRSKgdRCYNCGGLDHHAKEC--------------KLP-PQPKKCHFCQSINHMVASCPLKAQQGPS 133
Cdd:COG5082   46 EDRSVEDVSAIREENP--VCFNCGQNGHLRRDCphsicyncswdghrSNHcPKPKKCYNCGETGHLSRDCNPSKDQQKS 122
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 84-125 1.22e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 37.09  E-value: 1.22e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 755510178  84 SKGDRCYNCGGLDHHAKECKLPPQ----PKKCHFCQSINHMVASCP 125
Cdd:PTZ00368  75 SGPRSCYNCGQTGHISRECPNRAKggaaRRACYNCGGEGHISRDCP 120
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 78-127 1.88e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 36.71  E-value: 1.88e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 755510178  78 NMQKRRSKGDRCYNCGGLDHHAKEC----KLPPQPKKCHFCQSINHMVASCPLK 127
Cdd:PTZ00368  95 NRAKGGAARRACYNCGGEGHISRDCpnagKRPGGDKTCYNCGQTGHLSRDCPDK 148
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 82-125 6.66e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 35.17  E-value: 6.66e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 755510178  82 RRSKGDR-CYNCGGLDHHAKEC---KLPPQPKKCHFCQSINHMVASCP 125
Cdd:PTZ00368  47 PGGRGERsCYNCGKTGHLSRECpeaPPGSGPRSCYNCGQTGHISRECP 94
 
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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