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Conserved domains on  [gi|19075501|ref|NP_588001|]
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RSC complex subunit Sfh1 [Schizosaccharomyces pombe]

Protein Classification

GATA-type transcription factor( domain architecture ID 10522098)

GATA-type transcription factor binds to the DNA consensus sequence [AT]GATA[AG] and may function as a transcription factor/regulator

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SNF5 pfam04855
SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ...
 118-261 6.83e-58

SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterized so far. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs).


:

Pssm-ID: 428158  Cd Length: 186  Bit Score: 187.79  E-value: 6.83e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19075501   118 IPIRLDIELPNnYRLKDTFLWNMNEQVMTPDVFAQILCADLDL---STNVYGTQISSSIRAQIEEYAPVAEVPMP----- 189
Cdd:pfam04855   7 VPIRIDLDIDK-YRLRDTFTWNLHETLITPEQFAQTLCEDLDLpnePAPAFADQIAKQIREQLEEYAGVALHPLPyphve 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19075501   190 --------------KGQEMLVVFNIQVQLAQLSYNDQVEWNLTSPL-TPEEFSVLTCNDLGLSGESRPEIAYAIHECLLK 254
Cdd:pfam04855  86 eeddpldpdlpylnPDDDLRILIKLDITIGNHLLTDQFEWDLLSPLnTPEEFAKQTCADLGLSGEFVTAIAHAIREQVLR 165


                  ....*..
gi 19075501   255 LKKNACE 261
Cdd:pfam04855 166 YKKSLCT 172
GATA pfam00320
GATA zinc finger; This domain uses four cysteine residues to coordinate a zinc ion. This ...
 372-409 1.54e-10

GATA zinc finger; This domain uses four cysteine residues to coordinate a zinc ion. This domain binds to DNA. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contain a single copy of the domain.


:

Pssm-ID: 425605 [Multi-domain]  Cd Length: 36  Bit Score: 55.79  E-value: 1.54e-10
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 19075501   372 CRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTGQL 409
Cdd:pfam00320   1 CSNCGT--TKTPLWRRGPNGNRTLCNACGLYYKKKGLK 36
 
Name Accession Description Interval E-value
SNF5 pfam04855
SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ...
 118-261 6.83e-58

SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterized so far. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs).


Pssm-ID: 428158  Cd Length: 186  Bit Score: 187.79  E-value: 6.83e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19075501   118 IPIRLDIELPNnYRLKDTFLWNMNEQVMTPDVFAQILCADLDL---STNVYGTQISSSIRAQIEEYAPVAEVPMP----- 189
Cdd:pfam04855   7 VPIRIDLDIDK-YRLRDTFTWNLHETLITPEQFAQTLCEDLDLpnePAPAFADQIAKQIREQLEEYAGVALHPLPyphve 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19075501   190 --------------KGQEMLVVFNIQVQLAQLSYNDQVEWNLTSPL-TPEEFSVLTCNDLGLSGESRPEIAYAIHECLLK 254
Cdd:pfam04855  86 eeddpldpdlpylnPDDDLRILIKLDITIGNHLLTDQFEWDLLSPLnTPEEFAKQTCADLGLSGEFVTAIAHAIREQVLR 165


                  ....*..
gi 19075501   255 LKKNACE 261
Cdd:pfam04855 166 YKKSLCT 172
GATA pfam00320
GATA zinc finger; This domain uses four cysteine residues to coordinate a zinc ion. This ...
 372-409 1.54e-10

GATA zinc finger; This domain uses four cysteine residues to coordinate a zinc ion. This domain binds to DNA. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contain a single copy of the domain.


Pssm-ID: 425605 [Multi-domain]  Cd Length: 36  Bit Score: 55.79  E-value: 1.54e-10
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 19075501   372 CRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTGQL 409
Cdd:pfam00320   1 CSNCGT--TKTPLWRRGPNGNRTLCNACGLYYKKKGLK 36
ZnF_GATA smart00401
zinc finger binding to DNA consensus sequence [AT]GATA[AG];
371-409 5.13e-07

zinc finger binding to DNA consensus sequence [AT]GATA[AG];


Pssm-ID: 214648 [Multi-domain]  Cd Length: 52  Bit Score: 46.26  E-value: 5.13e-07
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 19075501    371 RCRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTGQL 409
Cdd:smart00401   5 SCSNCGT--TETPLWRRGPSGNKTLCNACGLYYKKHGGL 41
ZnF_GATA cd00202
Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] ...
 371-407 4.43e-04

Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C


Pssm-ID: 238123 [Multi-domain]  Cd Length: 54  Bit Score: 38.12  E-value: 4.43e-04
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 19075501 371 RCRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTG 407
Cdd:cd00202   1 ACSNCGT--TTTPLWRRGPSGGSTLCNACGLYWKKHG 35
 
Name Accession Description Interval E-value
SNF5 pfam04855
SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ...
 118-261 6.83e-58

SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterized so far. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs).


Pssm-ID: 428158  Cd Length: 186  Bit Score: 187.79  E-value: 6.83e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19075501   118 IPIRLDIELPNnYRLKDTFLWNMNEQVMTPDVFAQILCADLDL---STNVYGTQISSSIRAQIEEYAPVAEVPMP----- 189
Cdd:pfam04855   7 VPIRIDLDIDK-YRLRDTFTWNLHETLITPEQFAQTLCEDLDLpnePAPAFADQIAKQIREQLEEYAGVALHPLPyphve 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19075501   190 --------------KGQEMLVVFNIQVQLAQLSYNDQVEWNLTSPL-TPEEFSVLTCNDLGLSGESRPEIAYAIHECLLK 254
Cdd:pfam04855  86 eeddpldpdlpylnPDDDLRILIKLDITIGNHLLTDQFEWDLLSPLnTPEEFAKQTCADLGLSGEFVTAIAHAIREQVLR 165


                  ....*..
gi 19075501   255 LKKNACE 261
Cdd:pfam04855 166 YKKSLCT 172
GATA pfam00320
GATA zinc finger; This domain uses four cysteine residues to coordinate a zinc ion. This ...
 372-409 1.54e-10

GATA zinc finger; This domain uses four cysteine residues to coordinate a zinc ion. This domain binds to DNA. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contain a single copy of the domain.


Pssm-ID: 425605 [Multi-domain]  Cd Length: 36  Bit Score: 55.79  E-value: 1.54e-10
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 19075501   372 CRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTGQL 409
Cdd:pfam00320   1 CSNCGT--TKTPLWRRGPNGNRTLCNACGLYYKKKGLK 36
ZnF_GATA smart00401
zinc finger binding to DNA consensus sequence [AT]GATA[AG];
371-409 5.13e-07

zinc finger binding to DNA consensus sequence [AT]GATA[AG];


Pssm-ID: 214648 [Multi-domain]  Cd Length: 52  Bit Score: 46.26  E-value: 5.13e-07
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 19075501    371 RCRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTGQL 409
Cdd:smart00401   5 SCSNCGT--TETPLWRRGPSGNKTLCNACGLYYKKHGGL 41
ZnF_GATA cd00202
Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] ...
 371-407 4.43e-04

Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C


Pssm-ID: 238123 [Multi-domain]  Cd Length: 54  Bit Score: 38.12  E-value: 4.43e-04
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 19075501 371 RCRWCNVlgTGTFCVRRGPEGNKSLCNACGVAYAKTG 407
Cdd:cd00202   1 ACSNCGT--TTTPLWRRGPSGGSTLCNACGLYWKKHG 35
 
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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