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Conserved domains on  [gi|259710301|sp|A7SBN6|]
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RecName: Full=Zinc finger CCCH-type with G patch domain-containing protein

Protein Classification

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List of domain hits

 Name Accession Description Interval E-value
Tudor_ZGPAT cd20384
Tudor domain found in zinc finger CCCH-type with G patch domain-containing protein (ZGPAT) and ...
 201-256 5.11e-19

Tudor domain found in zinc finger CCCH-type with G patch domain-containing protein (ZGPAT) and similar proteins; ZGPAT, also called ZIP, G patch domain-containing protein 6 (GPATC6), GPATCH6, zinc finger CCCH domain-containing protein 9 (ZC3HDC9), ZC3H9, or zinc finger and G patch domain-containing protein, is a transcription repressor that specifically binds the 5'-GGAG[GA]A[GA]A-3' consensus sequence. It represses transcription by recruiting the chromatin multiprotein complex NuRD to target promoters. It contains one Tudor domain. 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: 410455  Cd Length: 55  Bit Score: 80.73  E-value: 5.11e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 259710301 201 DFSSVKAGQRCLARYSDGVWYNSTIKSIkHESHEFLIHYETYNTDATLPLDDIYPL 256
Cdd:cd20384    1 DFSSLKEGSRCLAKYDDGLWYPATVTDI-DEDGKYTVKFDSYGEVAVVELDDILPL 55
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 310-352 6.01e-14

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


:

Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 65.99  E-value: 6.01e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 259710301  310 TKGIGSKLMAKMGYIFGKGLGKDGEGRVEPIEVVVLPQGKSLD 352
Cdd:pfam01585   1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLG 43
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 166-185 1.03e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


:

Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 39.32  E-value: 1.03e-04
                          10        20
                  ....*....|....*....|
gi 259710301  166 CPYFLEGKCKFaGAECRFSH 185
Cdd:pfam18345   1 CKFFLKGRCRY-GDKCRFAH 19
 
Name Accession Description Interval E-value
Tudor_ZGPAT cd20384
Tudor domain found in zinc finger CCCH-type with G patch domain-containing protein (ZGPAT) and ...
 201-256 5.11e-19

Tudor domain found in zinc finger CCCH-type with G patch domain-containing protein (ZGPAT) and similar proteins; ZGPAT, also called ZIP, G patch domain-containing protein 6 (GPATC6), GPATCH6, zinc finger CCCH domain-containing protein 9 (ZC3HDC9), ZC3H9, or zinc finger and G patch domain-containing protein, is a transcription repressor that specifically binds the 5'-GGAG[GA]A[GA]A-3' consensus sequence. It represses transcription by recruiting the chromatin multiprotein complex NuRD to target promoters. It contains one Tudor domain. 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: 410455  Cd Length: 55  Bit Score: 80.73  E-value: 5.11e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 259710301 201 DFSSVKAGQRCLARYSDGVWYNSTIKSIkHESHEFLIHYETYNTDATLPLDDIYPL 256
Cdd:cd20384    1 DFSSLKEGSRCLAKYDDGLWYPATVTDI-DEDGKYTVKFDSYGEVAVVELDDILPL 55
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 310-352 6.01e-14

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 65.99  E-value: 6.01e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 259710301  310 TKGIGSKLMAKMGYIFGKGLGKDGEGRVEPIEVVVLPQGKSLD 352
Cdd:pfam01585   1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLG 43
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 309-353 3.56e-12

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 61.02  E-value: 3.56e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 259710301   309 HTKGIGSKLMAKMGYIFGKGLGKDGEGRVEPIEVVVLPQGKSLDK 353
Cdd:smart00443   2 STSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGA 46
TUDOR smart00333
Tudor domain; Domain of unknown function present in several RNA-binding proteins. 10 copies in ...
 206-259 7.82e-07

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: 46.11  E-value: 7.82e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 259710301   206 KAGQRCLARYSDGVWYNSTIKSIKHEShEFLIHYETYNTDATLPLDDIYPLGPE 259
Cdd:smart00333   4 KVGDKVAARWEDGEWYRARIVKVDGEQ-LYEVFFIDYGNEEVVPPSDLRQLPEE 56
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 166-185 1.03e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 39.32  E-value: 1.03e-04
                          10        20
                  ....*....|....*....|
gi 259710301  166 CPYFLEGKCKFaGAECRFSH 185
Cdd:pfam18345   1 CKFFLKGRCRY-GDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
163-187 1.06e-04

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 39.15  E-value: 1.06e-04
                           10        20
                   ....*....|....*....|....*
gi 259710301   163 MVPCPYFLEGKCKFaGAECRFSHGY 187
Cdd:smart00356   4 TELCKFFKRGYCPR-GDRCKFAHPL 27
 
Name Accession Description Interval E-value
Tudor_ZGPAT cd20384
Tudor domain found in zinc finger CCCH-type with G patch domain-containing protein (ZGPAT) and ...
 201-256 5.11e-19

Tudor domain found in zinc finger CCCH-type with G patch domain-containing protein (ZGPAT) and similar proteins; ZGPAT, also called ZIP, G patch domain-containing protein 6 (GPATC6), GPATCH6, zinc finger CCCH domain-containing protein 9 (ZC3HDC9), ZC3H9, or zinc finger and G patch domain-containing protein, is a transcription repressor that specifically binds the 5'-GGAG[GA]A[GA]A-3' consensus sequence. It represses transcription by recruiting the chromatin multiprotein complex NuRD to target promoters. It contains one Tudor domain. 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: 410455  Cd Length: 55  Bit Score: 80.73  E-value: 5.11e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 259710301 201 DFSSVKAGQRCLARYSDGVWYNSTIKSIkHESHEFLIHYETYNTDATLPLDDIYPL 256
Cdd:cd20384    1 DFSSLKEGSRCLAKYDDGLWYPATVTDI-DEDGKYTVKFDSYGEVAVVELDDILPL 55
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 310-352 6.01e-14

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 65.99  E-value: 6.01e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 259710301  310 TKGIGSKLMAKMGYIFGKGLGKDGEGRVEPIEVVVLPQGKSLD 352
Cdd:pfam01585   1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLG 43
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 309-353 3.56e-12

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 61.02  E-value: 3.56e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 259710301   309 HTKGIGSKLMAKMGYIFGKGLGKDGEGRVEPIEVVVLPQGKSLDK 353
Cdd:smart00443   2 STSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGA 46
Tudor_SMN_SPF30-like cd21182
Tudor domain found in survival motor neuron protein (SMN), motor neuron-related-splicing ...
 208-256 1.57e-07

Tudor domain found in survival motor neuron protein (SMN), motor neuron-related-splicing factor 30 (SPF30), and similar proteins; This group contains SMN, SPF30, Tudor domain-containing protein 3 (TDRD3), DNA excision repair protein ERCC-6-like 2 (ERCC6L2), and similar proteins. SMN, also called component of gems 1, or Gemin-1, is part of a multimeric SMN complex that includes spliceosomal Sm core proteins and plays a catalyst role in the assembly of small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. SPF30, also called 30 kDa splicing factor SMNrp, SMN-related protein, or survival motor neuron domain-containing protein 1 (SMNDC1), is an essential pre-mRNA splicing factor required for assembly of the U4/U5/U6 tri-small nuclear ribonucleoprotein into the spliceosome. TDRD3 is a scaffolding protein that specifically recognizes and binds dimethylarginine-containing proteins. ERCC6L2, also called DNA repair and recombination protein RAD26-like (RAD26L), may be involved in early DNA damage response. It regulates RNA Pol II-mediated transcription via its interaction with DNA-dependent protein kinase (DNA-PK) to resolve R loops and minimize transcription-associated genome instability. Members of this group contain a single Tudor domain. 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: 410549  Cd Length: 50  Bit Score: 48.02  E-value: 1.57e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 259710301 208 GQRCLARYS-DGVWYNSTIKSIKHESHEFLIHYETYNTDATLPLDDIYPL 256
Cdd:cd21182    1 GDKCLAPYSdDGKYYEATIEEITEESDTATVVFDGYGNSEEVPLSDLKPL 50
TUDOR smart00333
Tudor domain; Domain of unknown function present in several RNA-binding proteins. 10 copies in ...
 206-259 7.82e-07

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: 46.11  E-value: 7.82e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 259710301   206 KAGQRCLARYSDGVWYNSTIKSIKHEShEFLIHYETYNTDATLPLDDIYPLGPE 259
Cdd:smart00333   4 KVGDKVAARWEDGEWYRARIVKVDGEQ-LYEVFFIDYGNEEVVPPSDLRQLPEE 56
Tudor_SMN cd20398
Tudor domain found in survival motor neuron protein (SMN) and similar proteins; SMN, also ...
 206-259 5.18e-06

Tudor domain found in survival motor neuron protein (SMN) and similar proteins; SMN, also called component of gems 1, or Gemin-1, is part of a multimeric SMN complex that includes spliceosomal Sm core proteins and plays a catalyst role in the assembly of small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Mutations in human SMN lead to motor neuron degeneration and spinal muscular atrophy. SMN contains a central, highly conserved Tudor domain that is required for U snRNP assembly and Sm protein binding and has been shown to bind arginine-glycine-rich motifs in an methylarginine-dependent manner.


Pssm-ID: 410469  Cd Length: 56  Bit Score: 43.80  E-value: 5.18e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 259710301 206 KAGQRCLARYS-DGVWYNSTIKSIKHESHEFLIHYETYNTDATLPLDDIYPLGPE 259
Cdd:cd20398    2 KVGDKCRAVYSeDGIIYEATIVSIDAERGTCVVRYTGYGNEEEQNLSDLLPPSGE 56
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 166-185 1.03e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 39.32  E-value: 1.03e-04
                          10        20
                  ....*....|....*....|
gi 259710301  166 CPYFLEGKCKFaGAECRFSH 185
Cdd:pfam18345   1 CKFFLKGRCRY-GDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
163-187 1.06e-04

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 39.15  E-value: 1.06e-04
                           10        20
                   ....*....|....*....|....*
gi 259710301   163 MVPCPYFLEGKCKFaGAECRFSHGY 187
Cdd:smart00356   4 TELCKFFKRGYCPR-GDRCKFAHPL 27
Tudor_SF cd04508
Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally ...
 208-255 1.09e-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: 39.88  E-value: 1.09e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 259710301 208 GQRCLARYS-DGVWYNSTIKSIkHESHEFLIHYEtYNTDATLPLDDIYP 255
Cdd:cd04508    1 GDRVEAKWSdDGQWYPATVVAV-NDDGKYTVLFD-DGNEEEVSEDDIRP 47
MBT_PHF20L1-like cd20104
malignant brain tumor (MBT) repeat found in PHD finger protein 20-like protein 1 (PHF20L1) and ...
 205-243 1.60e-04

malignant brain tumor (MBT) repeat found in PHD finger protein 20-like protein 1 (PHF20L1) and similar domains; PHF20L1 associates with SOX2, antagonizes SOX2 ubiquitination and the sequential degradation induced by MLL1/WDR5 complexes. It binds both monomethylated Lys-42 and Lys-117 in SOX2 and thereby prevents SOX2 proteolysis. PHF20L1 also reads and controls enzyme levels of methylated DNMT1 in cells, thus representing a novel antagonist of DNMT1 degradation. PHF20L1 contains one MBT (malignant brain tumor) repeat. The MBT repeat is a protein module that recognizes methylated lysine residues on histones. MBT repeats contain a semi-aromatic cage to accommodate methyllysine and show specificity towards the lower methylation states of lysine. This model corresponds to the MBT repeat of PHF20L1 and similar domains that contains the semi-aromatic cage that may bind methylated lysine residues.


Pssm-ID: 439094 [Multi-domain]  Cd Length: 60  Bit Score: 39.53  E-value: 1.60e-04
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 259710301 205 VKAGQRCLARYSDGVWYNSTIKSIKHESHEFLIHYETYN 243
Cdd:cd20104    1 FKVGDRVDALDGEGKWYEAKIVEVDEEENKVLVHYDGWS 39
zf-CCCH_4 pfam18044
CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and ...
 164-185 1.84e-04

CCCH-type zinc finger; This short zinc binding domain has the pattern of three cysteines and one histidine to coordinate the zinc ion. This domain is found in a wide variety of proteins such as E3 ligases.


Pssm-ID: 465626  Cd Length: 22  Bit Score: 38.72  E-value: 1.84e-04
                          10        20
                  ....*....|....*....|..
gi 259710301  164 VPCPYFLEGKCKFaGAECRFSH 185
Cdd:pfam18044   1 RLCRYFQKGGCRY-GDNCRFSH 21
Tudor_TDRD4_rpt5 cd20418
fifth Tudor domain found in Tudor domain-containing protein 4 (TDRD4) and similar proteins; ...
 202-251 3.33e-04

fifth Tudor domain found in Tudor domain-containing protein 4 (TDRD4) and similar proteins; TDRD4, also called RING finger protein 17 (RNF17), is a component of the mammalian germ cell nuage and is essential for spermiogenesis. It seems to be involved in the regulation of transcriptional activity of MYC. In vitro, TDRD4 inhibits the DNA-binding activity of Mad-MAX heterodimers. It can recruit Mad transcriptional repressors (MXD1, MXD3, MXD4 and MXI1) to the cytoplasm. TDRD4 also acts as a potential cancer/testis antigen in liver cancer. TDRD4 contains a RING finger and five Tudor domains. This model corresponds to the fifth 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: 410489  Cd Length: 105  Bit Score: 40.08  E-value: 3.33e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 259710301 202 FSSVKAGQRCLARYSDGVWYNSTIKSIKH-ESHEFLIHYETYNTDATLPLD 251
Cdd:cd20418    1 LTDFRPEMPCLAEYSDGKWYRAKLLSILEfNPVKILVRHVDYGSTAALPTS 51
Tudor_TDRD6_rpt5 cd20424
fifth Tudor domain found in Tudor domain-containing protein 6 (TDRD6) and similar proteins; ...
 203-250 5.24e-04

fifth Tudor domain found in Tudor domain-containing protein 6 (TDRD6) and similar proteins; TDRD6, also called antigen NY-CO-45 or cancer/testis antigen 41.2 (CT41.2), is a testis-specific expressed protein that was localized to the chromatoid bodies in germ cells, and is involved in spermiogenesis, chromatoid body formation, and for proper precursor and mature miRNA expression. Mutations in TDRD6 may be associated with human male infertility and early embryonic lethality. TDRD6 contains seven Tudor domains. This model corresponds to the fifth 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: 410495  Cd Length: 126  Bit Score: 40.18  E-value: 5.24e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 259710301 203 SSVKAGQRCLARYSDGVWYNSTIKSIKHESHEFLIHY---ETYNTDATLPL 250
Cdd:cd20424   57 LSVNPGTLCLAKYSDQHWYRGIIITNKNSTEVFFVDYgntEKVEKEDMLPI 107
 
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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