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Conserved domains on  [gi|2048971456|ref|NP_001009466|]
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gem-associated protein 6 isoform 1 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gemin6_C pfam20417
Gemin6 C-terminal domain; This entry corresponds to a putative domain found at the C-terminus ...
 87-166 1.24e-49

Gemin6 C-terminal domain; This entry corresponds to a putative domain found at the C-terminus of several mammalian Gemin6 proteins. This domain appears to be distantly related to pfam09793 suggesting it may have an RNA-binding function. The exact function of Gemin6 is unknown but it has been found to form part of the pfam06003 complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.


:

Pssm-ID: 466566  Cd Length: 80  Bit Score: 154.46  E-value: 1.24e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2048971456  87 SADCKGYSPEDLEKKKTSLKKWLEKNHIPVTEEGDTQRTLCVAGVLTIDPPYAPENCSSSNEIILSRIQDLIQGHLSASQ 166
Cdd:pfam20417   1 QGDAKGHSPEDLEEKKSNLKKWLEKNHIPVTEEGDADELLCVAGVLCIDPPYAPENCRSSNEIILQRIQDLIQGHLSAEE 80
Gemin6 pfam06372
Gemin6 Sm-like domain; This entry represents the N-terminal Sm-like domain from mammalian ...
 1-85 1.35e-44

Gemin6 Sm-like domain; This entry represents the N-terminal Sm-like domain from mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the pfam06003 complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.


:

Pssm-ID: 461887  Cd Length: 86  Bit Score: 141.63  E-value: 1.35e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2048971456   1 MSEWTKKSPLEWEDYVYKEVRVIASE-KEYKGWLLTTDPVSANIVLVNFLEDGRLCVTGIMGHSVQTVETVSEGDHRVRE 79
Cdd:pfam06372   1 MSEWMKKSPLEWTDYTYKEVRVLASEnREYKGWVLTTDPVSANIVLVNFLEDGAWSVTGIMGHAVQTVETQQEGDHRVRE 80


                  ....*.
gi 2048971456  80 KLMHLF 85
Cdd:pfam06372  81 KLMHPF 86
 
Name Accession Description Interval E-value
Gemin6_C pfam20417
Gemin6 C-terminal domain; This entry corresponds to a putative domain found at the C-terminus ...
 87-166 1.24e-49

Gemin6 C-terminal domain; This entry corresponds to a putative domain found at the C-terminus of several mammalian Gemin6 proteins. This domain appears to be distantly related to pfam09793 suggesting it may have an RNA-binding function. The exact function of Gemin6 is unknown but it has been found to form part of the pfam06003 complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.


Pssm-ID: 466566  Cd Length: 80  Bit Score: 154.46  E-value: 1.24e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2048971456  87 SADCKGYSPEDLEKKKTSLKKWLEKNHIPVTEEGDTQRTLCVAGVLTIDPPYAPENCSSSNEIILSRIQDLIQGHLSASQ 166
Cdd:pfam20417   1 QGDAKGHSPEDLEEKKSNLKKWLEKNHIPVTEEGDADELLCVAGVLCIDPPYAPENCRSSNEIILQRIQDLIQGHLSAEE 80
Gemin6 pfam06372
Gemin6 Sm-like domain; This entry represents the N-terminal Sm-like domain from mammalian ...
 1-85 1.35e-44

Gemin6 Sm-like domain; This entry represents the N-terminal Sm-like domain from mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the pfam06003 complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.


Pssm-ID: 461887  Cd Length: 86  Bit Score: 141.63  E-value: 1.35e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2048971456   1 MSEWTKKSPLEWEDYVYKEVRVIASE-KEYKGWLLTTDPVSANIVLVNFLEDGRLCVTGIMGHSVQTVETVSEGDHRVRE 79
Cdd:pfam06372   1 MSEWMKKSPLEWTDYTYKEVRVLASEnREYKGWVLTTDPVSANIVLVNFLEDGAWSVTGIMGHAVQTVETQQEGDHRVRE 80


                  ....*.
gi 2048971456  80 KLMHLF 85
Cdd:pfam06372  81 KLMHPF 86
Gemin6 cd11676
Gemin 6; Gemins 6, together with the survival motor neuron (SMN) protein, other Gemins, and ...
 9-70 2.44e-25

Gemin 6; Gemins 6, together with the survival motor neuron (SMN) protein, other Gemins, and Unr-interacting protein (UNRIP) form the SMN complex, which plays an important role in the Sm core assembly reaction, by binding directly to the Sm proteins, as well as UsnRNAs. Gemin 6 forms a heterodimer with Gemin 7, which serve as a surrogate for the SmB-SmD3 dimer during the formation of the heptameric Sm ring.


Pssm-ID: 212487  Cd Length: 63  Bit Score: 91.94  E-value: 2.44e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2048971456   9 PLEWEDYVYKEVRVIASE-KEYKGWLLTTDPVSANIVLVNFLEDGRLCVTGIMGHSVQTVETV 70
Cdd:cd11676     1 PLEWKSYVGKEVKVTASDgKTYTGWVYTVDPVSASVVLVQFLEDEKDKVKVVMGHAVKSVEVV 63
 
Name Accession Description Interval E-value
Gemin6_C pfam20417
Gemin6 C-terminal domain; This entry corresponds to a putative domain found at the C-terminus ...
 87-166 1.24e-49

Gemin6 C-terminal domain; This entry corresponds to a putative domain found at the C-terminus of several mammalian Gemin6 proteins. This domain appears to be distantly related to pfam09793 suggesting it may have an RNA-binding function. The exact function of Gemin6 is unknown but it has been found to form part of the pfam06003 complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.


Pssm-ID: 466566  Cd Length: 80  Bit Score: 154.46  E-value: 1.24e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2048971456  87 SADCKGYSPEDLEKKKTSLKKWLEKNHIPVTEEGDTQRTLCVAGVLTIDPPYAPENCSSSNEIILSRIQDLIQGHLSASQ 166
Cdd:pfam20417   1 QGDAKGHSPEDLEEKKSNLKKWLEKNHIPVTEEGDADELLCVAGVLCIDPPYAPENCRSSNEIILQRIQDLIQGHLSAEE 80
Gemin6 pfam06372
Gemin6 Sm-like domain; This entry represents the N-terminal Sm-like domain from mammalian ...
 1-85 1.35e-44

Gemin6 Sm-like domain; This entry represents the N-terminal Sm-like domain from mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the pfam06003 complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.


Pssm-ID: 461887  Cd Length: 86  Bit Score: 141.63  E-value: 1.35e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2048971456   1 MSEWTKKSPLEWEDYVYKEVRVIASE-KEYKGWLLTTDPVSANIVLVNFLEDGRLCVTGIMGHSVQTVETVSEGDHRVRE 79
Cdd:pfam06372   1 MSEWMKKSPLEWTDYTYKEVRVLASEnREYKGWVLTTDPVSANIVLVNFLEDGAWSVTGIMGHAVQTVETQQEGDHRVRE 80


                  ....*.
gi 2048971456  80 KLMHLF 85
Cdd:pfam06372  81 KLMHPF 86
Gemin6 cd11676
Gemin 6; Gemins 6, together with the survival motor neuron (SMN) protein, other Gemins, and ...
 9-70 2.44e-25

Gemin 6; Gemins 6, together with the survival motor neuron (SMN) protein, other Gemins, and Unr-interacting protein (UNRIP) form the SMN complex, which plays an important role in the Sm core assembly reaction, by binding directly to the Sm proteins, as well as UsnRNAs. Gemin 6 forms a heterodimer with Gemin 7, which serve as a surrogate for the SmB-SmD3 dimer during the formation of the heptameric Sm ring.


Pssm-ID: 212487  Cd Length: 63  Bit Score: 91.94  E-value: 2.44e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2048971456   9 PLEWEDYVYKEVRVIASE-KEYKGWLLTTDPVSANIVLVNFLEDGRLCVTGIMGHSVQTVETV 70
Cdd:cd11676     1 PLEWKSYVGKEVKVTASDgKTYTGWVYTVDPVSASVVLVQFLEDEKDKVKVVMGHAVKSVEVV 63
 
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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