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Conserved domains on  [gi|556503335|ref|NP_001273307|]
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protein maelstrom homolog isoform 3 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Maelstrom super family cl16028
piRNA pathway germ-plasm component; Maelstrom is a germ-plasm component protein, that is shown ...
 74-268 1.12e-45

piRNA pathway germ-plasm component; Maelstrom is a germ-plasm component protein, that is shown to be functionally involved in the piRNA pathway. It is conserved throughout Eukaryota, though it appears to have been lost from all examined teleost fish species. The domain architecture shows that it is coupled with several DNA- and RNA- related domains such as HMG box, SR-25-like and HDAC_interact domains. Sequence analysis and fold recognition have found a distant similarity between Maelstrom domain and the DnaQ 3'-5' exonuclease family with the RNase H fold (Exonuc_X-T, pfam00929); notably, that the Maelstrom domains from basal eukaryotes contain the conserved 3'-5' exonuclease active site residues (Asp-Glu-Asp-His-Asp, DEDHD). However, the animal and some amoeba maelstrom contain another set of conserved residues (Glu-His-His-Cys-His-Cys, EHHCHC). This evolutionary link together with structural examinations leads to the hypothesis that Maelstrom domains may have a potential nuclease-transposase activity or RNA-binding ability that may be implicated in piRNA biogenesis. A protein function evolution mode, namely "active site switch", has been proposed, in which the amoeba Maelstrom domains are the possible evolutionary intermediates due to their harbouring of the specific characteriztics of both 3'-5' exonuclease and Maelstrom domains.


The actual alignment was detected with superfamily member pfam13017:

Pssm-ID: 404040  Cd Length: 212  Bit Score: 155.93  E-value: 1.12e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556503335   74 CEQRFLPCEIGCVKYSLQEGIMADFHSFINPGEIPRGFRFHCQAASDSSHKIPISNFERGH-NQATVLQNLYRFIHPNPG 152
Cdd:pfam13017   4 TDDKYVPAEIAIVEYSLKEGIIDSYHTFINPGQLPLGQAYDAQHHSDETHQLPLPPNALGEsDYGKLYREILSFLKPNSG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556503335  153 --NWPPIYCKSDDRTRVNWCLKHMakASEIRQDLQLLTVEDLVVGIYQQKFLKE---------PSKTWIRSLLDVAMWDY 221
Cdd:pfam13017  84 ygKPLPVFTDEEDIPMVKSCLRYL--ASDADEEDEKIRVYDFQYLFFVLKKEVEdyagsiqtiPNKHITDALLNKDFFEY 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 556503335  222 SSNTRCKWHEENDI-LFCALAVCKKIAYCISNSLATLFGIQLT-EAHVP 268
Cdd:pfam13017 162 TSGISCEYHEDNDRsKYCALSTVKRWAYTFSDYMCSDLAIKLIpGKHLP 210
 
Name Accession Description Interval E-value
Maelstrom pfam13017
piRNA pathway germ-plasm component; Maelstrom is a germ-plasm component protein, that is shown ...
 74-268 1.12e-45

piRNA pathway germ-plasm component; Maelstrom is a germ-plasm component protein, that is shown to be functionally involved in the piRNA pathway. It is conserved throughout Eukaryota, though it appears to have been lost from all examined teleost fish species. The domain architecture shows that it is coupled with several DNA- and RNA- related domains such as HMG box, SR-25-like and HDAC_interact domains. Sequence analysis and fold recognition have found a distant similarity between Maelstrom domain and the DnaQ 3'-5' exonuclease family with the RNase H fold (Exonuc_X-T, pfam00929); notably, that the Maelstrom domains from basal eukaryotes contain the conserved 3'-5' exonuclease active site residues (Asp-Glu-Asp-His-Asp, DEDHD). However, the animal and some amoeba maelstrom contain another set of conserved residues (Glu-His-His-Cys-His-Cys, EHHCHC). This evolutionary link together with structural examinations leads to the hypothesis that Maelstrom domains may have a potential nuclease-transposase activity or RNA-binding ability that may be implicated in piRNA biogenesis. A protein function evolution mode, namely "active site switch", has been proposed, in which the amoeba Maelstrom domains are the possible evolutionary intermediates due to their harbouring of the specific characteriztics of both 3'-5' exonuclease and Maelstrom domains.


Pssm-ID: 404040  Cd Length: 212  Bit Score: 155.93  E-value: 1.12e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556503335   74 CEQRFLPCEIGCVKYSLQEGIMADFHSFINPGEIPRGFRFHCQAASDSSHKIPISNFERGH-NQATVLQNLYRFIHPNPG 152
Cdd:pfam13017   4 TDDKYVPAEIAIVEYSLKEGIIDSYHTFINPGQLPLGQAYDAQHHSDETHQLPLPPNALGEsDYGKLYREILSFLKPNSG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556503335  153 --NWPPIYCKSDDRTRVNWCLKHMakASEIRQDLQLLTVEDLVVGIYQQKFLKE---------PSKTWIRSLLDVAMWDY 221
Cdd:pfam13017  84 ygKPLPVFTDEEDIPMVKSCLRYL--ASDADEEDEKIRVYDFQYLFFVLKKEVEdyagsiqtiPNKHITDALLNKDFFEY 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 556503335  222 SSNTRCKWHEENDI-LFCALAVCKKIAYCISNSLATLFGIQLT-EAHVP 268
Cdd:pfam13017 162 TSGISCEYHEDNDRsKYCALSTVKRWAYTFSDYMCSDLAIKLIpGKHLP 210
 
Name Accession Description Interval E-value
Maelstrom pfam13017
piRNA pathway germ-plasm component; Maelstrom is a germ-plasm component protein, that is shown ...
 74-268 1.12e-45

piRNA pathway germ-plasm component; Maelstrom is a germ-plasm component protein, that is shown to be functionally involved in the piRNA pathway. It is conserved throughout Eukaryota, though it appears to have been lost from all examined teleost fish species. The domain architecture shows that it is coupled with several DNA- and RNA- related domains such as HMG box, SR-25-like and HDAC_interact domains. Sequence analysis and fold recognition have found a distant similarity between Maelstrom domain and the DnaQ 3'-5' exonuclease family with the RNase H fold (Exonuc_X-T, pfam00929); notably, that the Maelstrom domains from basal eukaryotes contain the conserved 3'-5' exonuclease active site residues (Asp-Glu-Asp-His-Asp, DEDHD). However, the animal and some amoeba maelstrom contain another set of conserved residues (Glu-His-His-Cys-His-Cys, EHHCHC). This evolutionary link together with structural examinations leads to the hypothesis that Maelstrom domains may have a potential nuclease-transposase activity or RNA-binding ability that may be implicated in piRNA biogenesis. A protein function evolution mode, namely "active site switch", has been proposed, in which the amoeba Maelstrom domains are the possible evolutionary intermediates due to their harbouring of the specific characteriztics of both 3'-5' exonuclease and Maelstrom domains.


Pssm-ID: 404040  Cd Length: 212  Bit Score: 155.93  E-value: 1.12e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556503335   74 CEQRFLPCEIGCVKYSLQEGIMADFHSFINPGEIPRGFRFHCQAASDSSHKIPISNFERGH-NQATVLQNLYRFIHPNPG 152
Cdd:pfam13017   4 TDDKYVPAEIAIVEYSLKEGIIDSYHTFINPGQLPLGQAYDAQHHSDETHQLPLPPNALGEsDYGKLYREILSFLKPNSG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556503335  153 --NWPPIYCKSDDRTRVNWCLKHMakASEIRQDLQLLTVEDLVVGIYQQKFLKE---------PSKTWIRSLLDVAMWDY 221
Cdd:pfam13017  84 ygKPLPVFTDEEDIPMVKSCLRYL--ASDADEEDEKIRVYDFQYLFFVLKKEVEdyagsiqtiPNKHITDALLNKDFFEY 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 556503335  222 SSNTRCKWHEENDI-LFCALAVCKKIAYCISNSLATLFGIQLT-EAHVP 268
Cdd:pfam13017 162 TSGISCEYHEDNDRsKYCALSTVKRWAYTFSDYMCSDLAIKLIpGKHLP 210
 
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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