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Conserved domains on  [gi|2017363529|ref|NP_001380894|]
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histone-lysine N-methyltransferase SETDB1 isoform 3 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Tudor_SETDB1_rpt1 cd20382
first Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, ...
 260-341 2.38e-46

first Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, also called ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E), acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. It contains two Tudor domains. This model corresponds to the first one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


:

Pssm-ID: 410453  Cd Length: 82  Bit Score: 153.59  E-value: 2.38e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2017363529 260 VGSRVVAKYKD-GNQVWLYAGIVAETPNVKNKLRFLIFFDDGYASYVTQSELYPICRPLKKTWEDIEdISCRDFIEEYVT 338
Cdd:cd20382     1 VGSRVVAQYKDeGNQVWLYAGIVAEPPKVKNRYRYLIFFDDGYAQYVTPSDVYLVCQQSKKVWEDIH-EDSRDFIREYLE 79


                  ...
gi 2017363529 339 AYP 341
Cdd:cd20382    80 AYP 82
DUF5604 pfam18300
Domain of unknown function (DUF5604); This domain is often found in the N-terminal region of ...
 193-250 8.56e-32

Domain of unknown function (DUF5604); This domain is often found in the N-terminal region of proteins carrying the SET domain (pfam00856), such as the SETDB1 protein present in Homo sapiens. SETDB1 is a histone methyltransferase that suppresses gene expression and modulates heterochromatin formation through H3K9me2/3.


:

Pssm-ID: 408109  Cd Length: 58  Bit Score: 114.79  E-value: 8.56e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2017363529 193 SKDGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYD 250
Cdd:pfam18300   1 SKDGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYD 58
Tudor_SF super family cl02573
Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally ...
 348-380 9.07e-14

Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally identified in the Tudor protein of Drosophila, that adopts a beta-barrel-like core structure containing four short beta-strands followed by an alpha-helical region. It binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions. Tudor domain-containing proteins may mediate protein-protein interactions required for various DNA-templated biological processes, such as RNA metabolism, as well as histone modification and the DNA damage response. Members of this superfamily contain one or more copies of the Tudor domain.


The actual alignment was detected with superfamily member cd21181:

Pssm-ID: 470623  Cd Length: 54  Bit Score: 65.42  E-value: 9.07e-14
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2017363529 348 LKSGQLIKTEWEGTWWKSRVEEVDGSLVRILFL 380
Cdd:cd21181     1 LKVGQLIKTEWNGKWWKARVEEVDGSLVKMLFL 33
 
Name Accession Description Interval E-value
Tudor_SETDB1_rpt1 cd20382
first Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, ...
 260-341 2.38e-46

first Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, also called ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E), acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. It contains two Tudor domains. This model corresponds to the first one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


Pssm-ID: 410453  Cd Length: 82  Bit Score: 153.59  E-value: 2.38e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2017363529 260 VGSRVVAKYKD-GNQVWLYAGIVAETPNVKNKLRFLIFFDDGYASYVTQSELYPICRPLKKTWEDIEdISCRDFIEEYVT 338
Cdd:cd20382     1 VGSRVVAQYKDeGNQVWLYAGIVAEPPKVKNRYRYLIFFDDGYAQYVTPSDVYLVCQQSKKVWEDIH-EDSRDFIREYLE 79


                  ...
gi 2017363529 339 AYP 341
Cdd:cd20382    80 AYP 82
DUF5604 pfam18300
Domain of unknown function (DUF5604); This domain is often found in the N-terminal region of ...
 193-250 8.56e-32

Domain of unknown function (DUF5604); This domain is often found in the N-terminal region of proteins carrying the SET domain (pfam00856), such as the SETDB1 protein present in Homo sapiens. SETDB1 is a histone methyltransferase that suppresses gene expression and modulates heterochromatin formation through H3K9me2/3.


Pssm-ID: 408109  Cd Length: 58  Bit Score: 114.79  E-value: 8.56e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2017363529 193 SKDGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYD 250
Cdd:pfam18300   1 SKDGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYD 58
Tudor_5 pfam18359
Histone methyltransferase Tudor domain 1; This is the first TUDOR domain found in SETDB1 ...
 258-309 9.83e-23

Histone methyltransferase Tudor domain 1; This is the first TUDOR domain found in SETDB1 enzymes (EC:2.1.1.43) in homosapiens, also known as Eggless in Drosophila. In Drosophila, SetdB1 (Egg) is important for oogenesis and the silencing of chromosome 4. SET domain, bifurcated 1 (SETDB1) is a histone methyltransferase (HMT) that methylates lysine 9 on histone H3 (H3K9). The enzymatic activity of SETDB1, in association with MBD1-containing chromatin-associated factor 1 (MCAF1), converts H3K9me2 to H3K9me3 and represses subsequent transcription. SETDB1 is amplified in cancers such as melanoma and lung cancer, and increased expression of SETDB1 promotes tumorigenesis in a zebrafish melanoma model. In addition, SETDB1 is required for endogenous retrovirus silencing during early embryogenesis, inhibition of adipocyte differentiation, and differentiation of mesenchymal cells into osteoblasts. The tandem Tudor domains in the N-terminal region are involved in protein-protein interactions. The second tudor domain is pfam18385.


Pssm-ID: 465723  Cd Length: 53  Bit Score: 89.96  E-value: 9.83e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2017363529 258 LYVGSRVVAKYKDGN-QVWLYAGIVAETPNVKNKLRFLIFFDDGYASYVTQSE 309
Cdd:pfam18359   1 LPVGTRVIAKYKDSNgKSAYYAGVIAEPPKDLNRYRYLVFFDDGYAQYVVHKD 53
Tudor_SETDB1_rpt2 cd21181
second Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, ...
 348-380 9.07e-14

second Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, also called ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E), acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. It contains two Tudor domains. This model corresponds to the second one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


Pssm-ID: 410548  Cd Length: 54  Bit Score: 65.42  E-value: 9.07e-14
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2017363529 348 LKSGQLIKTEWEGTWWKSRVEEVDGSLVRILFL 380
Cdd:cd21181     1 LKVGQLIKTEWNGKWWKARVEEVDGSLVKMLFL 33
Tudor_4 pfam18358
Histone methyltransferase Tudor domain; This is a Tudor domain found in histone-lysine ...
 348-380 9.64e-14

Histone methyltransferase Tudor domain; This is a Tudor domain found in histone-lysine N-methyltransferase SETDB1 proteins (EC:2.1.1.43), also known as Eggless in Drosophila. In Drosophila, SetdB1 (Egg) is important for oogenesis and the silencing of chromosome 4.


Pssm-ID: 408159  Cd Length: 50  Bit Score: 65.07  E-value: 9.64e-14
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2017363529 348 LKSGQLIKTEWEGTWWKSRVEEVDGSLVRILFL 380
Cdd:pfam18358   1 LKKGQTVKTEWNGKWWTARVLEVDASLVKVYFL 33
TUDOR smart00333
Tudor domain; Domain of unknown function present in several RNA-binding proteins. 10 copies in ...
 257-317 8.01e-06

Tudor domain; Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).


Pssm-ID: 197660  Cd Length: 57  Bit Score: 43.03  E-value: 8.01e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2017363529  257 KLYVGSRVVAKYKDGNqvWLYAGIVAETPnvkNKLRFLIFFDDGYASYVTQSELYPICRPL 317
Cdd:smart00333   2 TFKVGDKVAARWEDGE--WYRARIVKVDG---EQLYEVFFIDYGNEEVVPPSDLRQLPEEL 57
 
Name Accession Description Interval E-value
Tudor_SETDB1_rpt1 cd20382
first Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, ...
 260-341 2.38e-46

first Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, also called ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E), acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. It contains two Tudor domains. This model corresponds to the first one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


Pssm-ID: 410453  Cd Length: 82  Bit Score: 153.59  E-value: 2.38e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2017363529 260 VGSRVVAKYKD-GNQVWLYAGIVAETPNVKNKLRFLIFFDDGYASYVTQSELYPICRPLKKTWEDIEdISCRDFIEEYVT 338
Cdd:cd20382     1 VGSRVVAQYKDeGNQVWLYAGIVAEPPKVKNRYRYLIFFDDGYAQYVTPSDVYLVCQQSKKVWEDIH-EDSRDFIREYLE 79


                  ...
gi 2017363529 339 AYP 341
Cdd:cd20382    80 AYP 82
DUF5604 pfam18300
Domain of unknown function (DUF5604); This domain is often found in the N-terminal region of ...
 193-250 8.56e-32

Domain of unknown function (DUF5604); This domain is often found in the N-terminal region of proteins carrying the SET domain (pfam00856), such as the SETDB1 protein present in Homo sapiens. SETDB1 is a histone methyltransferase that suppresses gene expression and modulates heterochromatin formation through H3K9me2/3.


Pssm-ID: 408109  Cd Length: 58  Bit Score: 114.79  E-value: 8.56e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2017363529 193 SKDGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYD 250
Cdd:pfam18300   1 SKDGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYD 58
Tudor_5 pfam18359
Histone methyltransferase Tudor domain 1; This is the first TUDOR domain found in SETDB1 ...
 258-309 9.83e-23

Histone methyltransferase Tudor domain 1; This is the first TUDOR domain found in SETDB1 enzymes (EC:2.1.1.43) in homosapiens, also known as Eggless in Drosophila. In Drosophila, SetdB1 (Egg) is important for oogenesis and the silencing of chromosome 4. SET domain, bifurcated 1 (SETDB1) is a histone methyltransferase (HMT) that methylates lysine 9 on histone H3 (H3K9). The enzymatic activity of SETDB1, in association with MBD1-containing chromatin-associated factor 1 (MCAF1), converts H3K9me2 to H3K9me3 and represses subsequent transcription. SETDB1 is amplified in cancers such as melanoma and lung cancer, and increased expression of SETDB1 promotes tumorigenesis in a zebrafish melanoma model. In addition, SETDB1 is required for endogenous retrovirus silencing during early embryogenesis, inhibition of adipocyte differentiation, and differentiation of mesenchymal cells into osteoblasts. The tandem Tudor domains in the N-terminal region are involved in protein-protein interactions. The second tudor domain is pfam18385.


Pssm-ID: 465723  Cd Length: 53  Bit Score: 89.96  E-value: 9.83e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2017363529 258 LYVGSRVVAKYKDGN-QVWLYAGIVAETPNVKNKLRFLIFFDDGYASYVTQSE 309
Cdd:pfam18359   1 LPVGTRVIAKYKDSNgKSAYYAGVIAEPPKDLNRYRYLVFFDDGYAQYVVHKD 53
Tudor_SETDB1_rpt2 cd21181
second Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, ...
 348-380 9.07e-14

second Tudor domain found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1, also called ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E), acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. It contains two Tudor domains. This model corresponds to the second one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


Pssm-ID: 410548  Cd Length: 54  Bit Score: 65.42  E-value: 9.07e-14
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2017363529 348 LKSGQLIKTEWEGTWWKSRVEEVDGSLVRILFL 380
Cdd:cd21181     1 LKVGQLIKTEWNGKWWKARVEEVDGSLVKMLFL 33
Tudor_4 pfam18358
Histone methyltransferase Tudor domain; This is a Tudor domain found in histone-lysine ...
 348-380 9.64e-14

Histone methyltransferase Tudor domain; This is a Tudor domain found in histone-lysine N-methyltransferase SETDB1 proteins (EC:2.1.1.43), also known as Eggless in Drosophila. In Drosophila, SetdB1 (Egg) is important for oogenesis and the silencing of chromosome 4.


Pssm-ID: 408159  Cd Length: 50  Bit Score: 65.07  E-value: 9.64e-14
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2017363529 348 LKSGQLIKTEWEGTWWKSRVEEVDGSLVRILFL 380
Cdd:pfam18358   1 LKKGQTVKTEWNGKWWTARVLEVDASLVKVYFL 33
TUDOR smart00333
Tudor domain; Domain of unknown function present in several RNA-binding proteins. 10 copies in ...
 257-317 8.01e-06

Tudor domain; Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).


Pssm-ID: 197660  Cd Length: 57  Bit Score: 43.03  E-value: 8.01e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2017363529  257 KLYVGSRVVAKYKDGNqvWLYAGIVAETPnvkNKLRFLIFFDDGYASYVTQSELYPICRPL 317
Cdd:smart00333   2 TFKVGDKVAARWEDGE--WYRARIVKVDG---EQLYEVFFIDYGNEEVVPPSDLRQLPEEL 57
Tudor_SF cd04508
Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally ...
 261-312 3.85e-04

Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally identified in the Tudor protein of Drosophila, that adopts a beta-barrel-like core structure containing four short beta-strands followed by an alpha-helical region. It binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions. Tudor domain-containing proteins may mediate protein-protein interactions required for various DNA-templated biological processes, such as RNA metabolism, as well as histone modification and the DNA damage response. Members of this superfamily contain one or more copies of the Tudor domain.


Pssm-ID: 410449 [Multi-domain]  Cd Length: 47  Bit Score: 37.95  E-value: 3.85e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2017363529 261 GSRVVAKYKDGNQvWlYAGIVAEtpnVKNKLRFLIFFDDGYASYVTQSELYP 312
Cdd:cd04508     1 GDRVEAKWSDDGQ-W-YPATVVA---VNDDGKYTVLFDDGNEEEVSEDDIRP 47
 
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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