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Conserved domains on  [gi|1775480512|pdb|6KW4|G]
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Chain G, Chromatin structure-remodeling complex subunit SFH1

Protein Classification

SNF5 family protein( domain architecture ID 139979)

SNF5 family protein similar to Saccharomyces cerevisiae chromatin structure-remodeling complex subunit SFH1, a component of the chromatin structure-remodeling complex (RSC), which is involved in transcription regulation and nucleosome positioning

Gene Ontology:  GO:0006302|GO:0006338|GO:0003712|GO:0006368|GO:0016586

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SNF5 super family cl20277
SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ...
 204-391 7.08e-38

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).


The actual alignment was detected with superfamily member pfam04855:

Pssm-ID: 428158  Cd Length: 186  Bit Score: 135.78  E-value: 7.08e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6KW4_G        204 IPITLDIEHMGHTIKDQFLWNYNDDSISPEEFASIYCKDLD---MTSATLQTQIANIIKEQLKDLENIAATEIMS----- 275
Cdd:pfam04855   7 VPIRIDLDIDKYRLRDTFTWNLHETLITPEQFAQTLCEDLDlpnEPAPAFADQIAKQIREQLEEYAGVALHPLPYphvee 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6KW4_G        276 ----------------DLHVIINLTCNLQDRFFEDNFQWNLNDKSLTPERFATSIVQDLGLTREFIPLISQSLHETILKI 339
Cdd:pfam04855  87 eddpldpdlpylnpddDLRILIKLDITIGNHLLTDQFEWDLLSPLNTPEEFAKQTCADLGLSGEFVTAIAHAIREQVLRY 166

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
6KW4_G        340 KKDwvdghliqdhvpndaAFGylsgirldidelgsnwcPRVEILTKEEIQKR 391
Cdd:pfam04855 167 KKS---------------LCT-----------------PKLEELSEEELEKR 186
 
Name Accession Description Interval E-value
SNF5 pfam04855
SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ...
 204-391 7.08e-38

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: 135.78  E-value: 7.08e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6KW4_G        204 IPITLDIEHMGHTIKDQFLWNYNDDSISPEEFASIYCKDLD---MTSATLQTQIANIIKEQLKDLENIAATEIMS----- 275
Cdd:pfam04855   7 VPIRIDLDIDKYRLRDTFTWNLHETLITPEQFAQTLCEDLDlpnEPAPAFADQIAKQIREQLEEYAGVALHPLPYphvee 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6KW4_G        276 ----------------DLHVIINLTCNLQDRFFEDNFQWNLNDKSLTPERFATSIVQDLGLTREFIPLISQSLHETILKI 339
Cdd:pfam04855  87 eddpldpdlpylnpddDLRILIKLDITIGNHLLTDQFEWDLLSPLNTPEEFAKQTCADLGLSGEFVTAIAHAIREQVLRY 166

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
6KW4_G        340 KKDwvdghliqdhvpndaAFGylsgirldidelgsnwcPRVEILTKEEIQKR 391
Cdd:pfam04855 167 KKS---------------LCT-----------------PKLEELSEEELEKR 186
 
Name Accession Description Interval E-value
SNF5 pfam04855
SNF5 / SMARCB1 / INI1; SNF5 is a component of the yeast SWI/SNF complex, which is an ...
 204-391 7.08e-38

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: 135.78  E-value: 7.08e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6KW4_G        204 IPITLDIEHMGHTIKDQFLWNYNDDSISPEEFASIYCKDLD---MTSATLQTQIANIIKEQLKDLENIAATEIMS----- 275
Cdd:pfam04855   7 VPIRIDLDIDKYRLRDTFTWNLHETLITPEQFAQTLCEDLDlpnEPAPAFADQIAKQIREQLEEYAGVALHPLPYphvee 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6KW4_G        276 ----------------DLHVIINLTCNLQDRFFEDNFQWNLNDKSLTPERFATSIVQDLGLTREFIPLISQSLHETILKI 339
Cdd:pfam04855  87 eddpldpdlpylnpddDLRILIKLDITIGNHLLTDQFEWDLLSPLNTPEEFAKQTCADLGLSGEFVTAIAHAIREQVLRY 166

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
6KW4_G        340 KKDwvdghliqdhvpndaAFGylsgirldidelgsnwcPRVEILTKEEIQKR 391
Cdd:pfam04855 167 KKS---------------LCT-----------------PKLEELSEEELEKR 186
 
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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