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Conserved domains on  [gi|1610575840|ref|NP_001356414|]
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protein LSM12 isoform 2 [Homo sapiens]

Protein Classification

LSm12_N and AD domain-containing protein( domain architecture ID 10109624)

LSm12_N and AD domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LSm12_N cd01735
Like-Sm protein 12, N-terminal domain; LSm12 belongs to a family of Sm-like proteins that ...
 7-67 8.66e-37

Like-Sm protein 12, N-terminal domain; LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.


:

Pssm-ID: 212482  Cd Length: 61  Bit Score: 123.24  E-value: 8.66e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1610575840   7 EYFSVGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVE 67
Cdd:cd01735     1 EYFSVGSQVSCKTCFGQRIQGEVVAFDHPSKMLALKCPSSSGKPNLADISIVNLDYVSDVE 61
AD smart00995
Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants ...
 78-197 1.26e-28

Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants to humans. It is frequently found in association with Lsm domain-containing proteins.


:

Pssm-ID: 214962  Cd Length: 90  Bit Score: 103.15  E-value: 1.26e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1610575840   78 PLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTrdeflpccpvwsrtpglkqsthlglpkrgdysIK 157
Cdd:smart00995   1 PPAPVNLERVKKRLRKAIEQAKRKADSKGKGVSPEGQEIFDAIAKT--------------------------------IP 48

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1610575840  158 DCKWQEKNIVVMEEVVITPPYQVENCK--GKEGSALSHVRKI 197
Cdd:smart00995  49 DCRWQGKNIVVLDEVTISPPYTVENVKklSGNSKALERVQKI 90
 
Name Accession Description Interval E-value
LSm12_N cd01735
Like-Sm protein 12, N-terminal domain; LSm12 belongs to a family of Sm-like proteins that ...
 7-67 8.66e-37

Like-Sm protein 12, N-terminal domain; LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.


Pssm-ID: 212482  Cd Length: 61  Bit Score: 123.24  E-value: 8.66e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1610575840   7 EYFSVGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVE 67
Cdd:cd01735     1 EYFSVGSQVSCKTCFGQRIQGEVVAFDHPSKMLALKCPSSSGKPNLADISIVNLDYVSDVE 61
AD smart00995
Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants ...
 78-197 1.26e-28

Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants to humans. It is frequently found in association with Lsm domain-containing proteins.


Pssm-ID: 214962  Cd Length: 90  Bit Score: 103.15  E-value: 1.26e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1610575840   78 PLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTrdeflpccpvwsrtpglkqsthlglpkrgdysIK 157
Cdd:smart00995   1 PPAPVNLERVKKRLRKAIEQAKRKADSKGKGVSPEGQEIFDAIAKT--------------------------------IP 48

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1610575840  158 DCKWQEKNIVVMEEVVITPPYQVENCK--GKEGSALSHVRKI 197
Cdd:smart00995  49 DCRWQGKNIVVLDEVTISPPYTVENVKklSGNSKALERVQKI 90
AD pfam09793
Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants ...
 80-197 2.28e-22

Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants to humans. It is frequently found in association with Lsm domain-containing proteins. It is an anticodon-binding domain of a prolyl-tRNA synthetase, whose PDB structure is available under the identifier 1h4q.


Pssm-ID: 462905  Cd Length: 90  Bit Score: 87.26  E-value: 2.28e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1610575840  80 ASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTrdeflpccpvwsrtpglkqsthlglpkrgdysIKDC 159
Cdd:pfam09793   1 PPVDLNRLQARLRKAIEEAKAKLARIGKGVSPEGQAIFDALSKT--------------------------------LPDV 48

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1610575840 160 KWQEKNIVVMEEVVITPPYQVENCKGKEGS----ALSHVRKI 197
Cdd:pfam09793  49 RWKGKNIVVLDEVIIAPPYKVENCKKLGSSgnpkALERVKKI 90
 
Name Accession Description Interval E-value
LSm12_N cd01735
Like-Sm protein 12, N-terminal domain; LSm12 belongs to a family of Sm-like proteins that ...
 7-67 8.66e-37

Like-Sm protein 12, N-terminal domain; LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.


Pssm-ID: 212482  Cd Length: 61  Bit Score: 123.24  E-value: 8.66e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1610575840   7 EYFSVGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVE 67
Cdd:cd01735     1 EYFSVGSQVSCKTCFGQRIQGEVVAFDHPSKMLALKCPSSSGKPNLADISIVNLDYVSDVE 61
AD smart00995
Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants ...
 78-197 1.26e-28

Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants to humans. It is frequently found in association with Lsm domain-containing proteins.


Pssm-ID: 214962  Cd Length: 90  Bit Score: 103.15  E-value: 1.26e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1610575840   78 PLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTrdeflpccpvwsrtpglkqsthlglpkrgdysIK 157
Cdd:smart00995   1 PPAPVNLERVKKRLRKAIEQAKRKADSKGKGVSPEGQEIFDAIAKT--------------------------------IP 48

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1610575840  158 DCKWQEKNIVVMEEVVITPPYQVENCK--GKEGSALSHVRKI 197
Cdd:smart00995  49 DCRWQGKNIVVLDEVTISPPYTVENVKklSGNSKALERVQKI 90
AD pfam09793
Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants ...
 80-197 2.28e-22

Anticodon-binding domain; This domain of approximately 100 residues is conserved from plants to humans. It is frequently found in association with Lsm domain-containing proteins. It is an anticodon-binding domain of a prolyl-tRNA synthetase, whose PDB structure is available under the identifier 1h4q.


Pssm-ID: 462905  Cd Length: 90  Bit Score: 87.26  E-value: 2.28e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1610575840  80 ASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTrdeflpccpvwsrtpglkqsthlglpkrgdysIKDC 159
Cdd:pfam09793   1 PPVDLNRLQARLRKAIEEAKAKLARIGKGVSPEGQAIFDALSKT--------------------------------LPDV 48

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1610575840 160 KWQEKNIVVMEEVVITPPYQVENCKGKEGS----ALSHVRKI 197
Cdd:pfam09793  49 RWKGKNIVVLDEVIIAPPYKVENCKKLGSSgnpkALERVKKI 90
Sm_like cd00600
Sm and related proteins; The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to ...
 8-67 4.82e-06

Sm and related proteins; The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.


Pssm-ID: 212462 [Multi-domain]  Cd Length: 63  Bit Score: 43.01  E-value: 4.82e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1610575840   8 YFSVGSQVSCRTCQEQRLQGEVVAFDyQSKMLALKCPSS---SGKPNHADILLINLQYVSEVE 67
Cdd:cd00600     2 KDFIGKTVSVELKDGRVLTGTLVAFD-KYMNLVLDDVVEtgrDGKVRVLGLVLIRGSNIVSIR 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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