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Conserved domains on  [gi|392923160|ref|NP_001256907|]
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SWI/SNF complex subunit SMARCC2 [Caenorhabditis elegans]

Protein Classification

SWI/SNF complex subunit SWI3( domain architecture ID 13424223)

SWI/SNF complex subunit SWI3 is required for the assembly and functional integrity of the SWI/SNF complex

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
RSC8 super family cl34960
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
33-509 5.89e-94

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


The actual alignment was detected with superfamily member COG5259:

Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 303.73  E-value: 5.89e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160  33 KVEVPKGKEKDAEFSAPKGQKLTDLDEEGV-QSTKEAPQLAEGNVIEQTHYIVVPSYAGWFDYNAIHQIEKRAMPEFFNG 111
Cdd:COG5259    1 KTNSVDKKHDSGEERNEQSAEIMDHSKSANeKKTTILRVEAETFLMEQTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 112 KNKSKTPDVYVAYRNFMVDTYRLNPFEYVSATACRRNLAGDVCSIVRLHSFLEQWGLLNYQVDSDARPAPVAPPPTSHFM 191
Cdd:COG5259   81 RSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAGDVAAIVRVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQ 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 192 VLADTPTGIQPMNPPGKESAGASGEPPKEEIKTEIESISTP-----------------------------GLKIDQYQKQ 242
Cdd:COG5259  161 DLHDTPRGLSPFLPWGPINQRVLGAKEIEYETHKEENYSPSlkspkkesqgkvdelkdhsekhpsscsccGNKSFNTRYH 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 243 AIAMRTKGAPP-----GR----------------------DWTEQETCLLLEALEMFKDDWNKVCDHVGTRTQHECVLKF 295
Cdd:COG5259  241 NLRAEKYNSCSecydqGRfpseftssdfkpvtisllirdkNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHF 320
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 296 LQLPIQDPYLTENlsSDKAEAAPGGaakevlgplafqpVPFSQSGNPVMSTVAFLASVVDPQVaaaatkaameefgklke 375
Cdd:COG5259  321 LQLPIEDNYLSKG--DGKGDNSKGR-------------LPFDGSENPVLSTISFLAGIVNPRV----------------- 368
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 376 eipplvaeaheknvaamaektgqvdgavgltksglkpAEEAAGDSDEKMDTntnddVPSTTEAKSAIDKGVQAAAASCLA 455
Cdd:COG5259  369 -------------------------------------QSEKQRAIIKSGKI-----SHINRESQEHIEEVIEYALDSGKE 406
                        490       500       510       520       530
                 ....*....|....*....|....*....|....*....|....*....|....
gi 392923160 456 aaavKAKHLAQIEERRIKSLVAQLVETQMKKLEMKLRHFDELEQIMDKERESLE 509
Cdd:COG5259  407 ----KAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKSTSLERQELD 456
SWIRM-assoc_3 pfam16498
SWIRM-associated domain at the C-terminal; Much of the higher eukaryote SWI/SNF complex ...
354-419 2.07e-20

SWIRM-associated domain at the C-terminal; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 proteins is of low-complexity and or disordered. However, there are several short regions that are quite highly conserved. This is one of these regions. The function of the individual regions is not known.


:

Pssm-ID: 465145 [Multi-domain]  Cd Length: 67  Bit Score: 85.48  E-value: 2.07e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 392923160  354 VDPQVAAAATKAAMEEFGKLKEEIPPLVAEAHEKNVAAMAEKTGQVDGAVGLTKSGLKPAEEAAGD 419
Cdd:pfam16498   1 VDPRVAAAAAKAAMEEFSKIKEEVPPALVEAHVKNVEEAAKKGGKVDPAFGLEKSGIAGTDPEEPE 66
 
Name Accession Description Interval E-value
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
33-509 5.89e-94

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 303.73  E-value: 5.89e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160  33 KVEVPKGKEKDAEFSAPKGQKLTDLDEEGV-QSTKEAPQLAEGNVIEQTHYIVVPSYAGWFDYNAIHQIEKRAMPEFFNG 111
Cdd:COG5259    1 KTNSVDKKHDSGEERNEQSAEIMDHSKSANeKKTTILRVEAETFLMEQTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 112 KNKSKTPDVYVAYRNFMVDTYRLNPFEYVSATACRRNLAGDVCSIVRLHSFLEQWGLLNYQVDSDARPAPVAPPPTSHFM 191
Cdd:COG5259   81 RSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAGDVAAIVRVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQ 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 192 VLADTPTGIQPMNPPGKESAGASGEPPKEEIKTEIESISTP-----------------------------GLKIDQYQKQ 242
Cdd:COG5259  161 DLHDTPRGLSPFLPWGPINQRVLGAKEIEYETHKEENYSPSlkspkkesqgkvdelkdhsekhpsscsccGNKSFNTRYH 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 243 AIAMRTKGAPP-----GR----------------------DWTEQETCLLLEALEMFKDDWNKVCDHVGTRTQHECVLKF 295
Cdd:COG5259  241 NLRAEKYNSCSecydqGRfpseftssdfkpvtisllirdkNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHF 320
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 296 LQLPIQDPYLTENlsSDKAEAAPGGaakevlgplafqpVPFSQSGNPVMSTVAFLASVVDPQVaaaatkaameefgklke 375
Cdd:COG5259  321 LQLPIEDNYLSKG--DGKGDNSKGR-------------LPFDGSENPVLSTISFLAGIVNPRV----------------- 368
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 376 eipplvaeaheknvaamaektgqvdgavgltksglkpAEEAAGDSDEKMDTntnddVPSTTEAKSAIDKGVQAAAASCLA 455
Cdd:COG5259  369 -------------------------------------QSEKQRAIIKSGKI-----SHINRESQEHIEEVIEYALDSGKE 406
                        490       500       510       520       530
                 ....*....|....*....|....*....|....*....|....*....|....
gi 392923160 456 aaavKAKHLAQIEERRIKSLVAQLVETQMKKLEMKLRHFDELEQIMDKERESLE 509
Cdd:COG5259  407 ----KAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKSTSLERQELD 456
SWIRM-assoc_1 pfam16495
SWIRM-associated region 1; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 ...
459-534 4.65e-33

SWIRM-associated region 1; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 proteins is of low-complexity and or disordered. However, there are several short regions that are quite highly conserved. This is one of these regions. The function of the individual regions is not known.


Pssm-ID: 465142 [Multi-domain]  Cd Length: 84  Bit Score: 122.24  E-value: 4.65e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 392923160  459 VKAKHLAQIEERRIKSLVAQLVETQMKKLEMKLRHFDELEQIMDKERESLEYQRHQLILERQAFHMDQLKYLENRA 534
Cdd:pfam16495   9 AKAKVLASQEEREIQRLVALLVETQLKKLELKLKQFEELEKLLERERRQLERQRQQLFLERLAFKKQRLEVAEKLA 84
SWIRM-assoc_3 pfam16498
SWIRM-associated domain at the C-terminal; Much of the higher eukaryote SWI/SNF complex ...
354-419 2.07e-20

SWIRM-associated domain at the C-terminal; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 proteins is of low-complexity and or disordered. However, there are several short regions that are quite highly conserved. This is one of these regions. The function of the individual regions is not known.


Pssm-ID: 465145 [Multi-domain]  Cd Length: 67  Bit Score: 85.48  E-value: 2.07e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 392923160  354 VDPQVAAAATKAAMEEFGKLKEEIPPLVAEAHEKNVAAMAEKTGQVDGAVGLTKSGLKPAEEAAGD 419
Cdd:pfam16498   1 VDPRVAAAAAKAAMEEFSKIKEEVPPALVEAHVKNVEEAAKKGGKVDPAFGLEKSGIAGTDPEEPE 66
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
254-298 6.25e-08

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 49.53  E-value: 6.25e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 392923160   254 GRDWTEQETCLLLEALEMF-KDDWNKVCDHVGTRTQHECVLKFLQL 298
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYgKNNWEKIAKELPGRTAEQCRERWRNL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
257-298 6.80e-08

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 49.11  E-value: 6.80e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 392923160 257 WTEQETCLLLEALEMF-KDDWNKVCDHVGTRTQHECVLKFLQL 298
Cdd:cd00167    2 WTEEEDELLLEAVKKYgKNNWEKIAKELPGRTPKQCRERWRNL 44
 
Name Accession Description Interval E-value
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
33-509 5.89e-94

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 303.73  E-value: 5.89e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160  33 KVEVPKGKEKDAEFSAPKGQKLTDLDEEGV-QSTKEAPQLAEGNVIEQTHYIVVPSYAGWFDYNAIHQIEKRAMPEFFNG 111
Cdd:COG5259    1 KTNSVDKKHDSGEERNEQSAEIMDHSKSANeKKTTILRVEAETFLMEQTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 112 KNKSKTPDVYVAYRNFMVDTYRLNPFEYVSATACRRNLAGDVCSIVRLHSFLEQWGLLNYQVDSDARPAPVAPPPTSHFM 191
Cdd:COG5259   81 RSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAGDVAAIVRVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQ 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 192 VLADTPTGIQPMNPPGKESAGASGEPPKEEIKTEIESISTP-----------------------------GLKIDQYQKQ 242
Cdd:COG5259  161 DLHDTPRGLSPFLPWGPINQRVLGAKEIEYETHKEENYSPSlkspkkesqgkvdelkdhsekhpsscsccGNKSFNTRYH 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 243 AIAMRTKGAPP-----GR----------------------DWTEQETCLLLEALEMFKDDWNKVCDHVGTRTQHECVLKF 295
Cdd:COG5259  241 NLRAEKYNSCSecydqGRfpseftssdfkpvtisllirdkNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHF 320
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 296 LQLPIQDPYLTENlsSDKAEAAPGGaakevlgplafqpVPFSQSGNPVMSTVAFLASVVDPQVaaaatkaameefgklke 375
Cdd:COG5259  321 LQLPIEDNYLSKG--DGKGDNSKGR-------------LPFDGSENPVLSTISFLAGIVNPRV----------------- 368
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160 376 eipplvaeaheknvaamaektgqvdgavgltksglkpAEEAAGDSDEKMDTntnddVPSTTEAKSAIDKGVQAAAASCLA 455
Cdd:COG5259  369 -------------------------------------QSEKQRAIIKSGKI-----SHINRESQEHIEEVIEYALDSGKE 406
                        490       500       510       520       530
                 ....*....|....*....|....*....|....*....|....*....|....
gi 392923160 456 aaavKAKHLAQIEERRIKSLVAQLVETQMKKLEMKLRHFDELEQIMDKERESLE 509
Cdd:COG5259  407 ----KAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKSTSLERQELD 456
SWIRM-assoc_1 pfam16495
SWIRM-associated region 1; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 ...
459-534 4.65e-33

SWIRM-associated region 1; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 proteins is of low-complexity and or disordered. However, there are several short regions that are quite highly conserved. This is one of these regions. The function of the individual regions is not known.


Pssm-ID: 465142 [Multi-domain]  Cd Length: 84  Bit Score: 122.24  E-value: 4.65e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 392923160  459 VKAKHLAQIEERRIKSLVAQLVETQMKKLEMKLRHFDELEQIMDKERESLEYQRHQLILERQAFHMDQLKYLENRA 534
Cdd:pfam16495   9 AKAKVLASQEEREIQRLVALLVETQLKKLELKLKQFEELEKLLERERRQLERQRQQLFLERLAFKKQRLEVAEKLA 84
SWIRM pfam04433
SWIRM domain; This SWIRM domain is a small alpha-helical domain of about 85 amino acid ...
92-171 7.94e-33

SWIRM domain; This SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in chromosomal proteins. It contains a helix-turn helix motif and binds to DNA.


Pssm-ID: 461307 [Multi-domain]  Cd Length: 78  Bit Score: 121.13  E-value: 7.94e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392923160   92 FDYNAIHQIEKRAMPEFFNGKnkSKTPDVYVAYRNFMVDTYRLNPFEYVSATACRRNLAGDVCSIVRLHSFLEQWGLLNY 171
Cdd:pfam04433   1 SDPDKLHPIEKRLLPEFFNGK--SKTPEVYLEIRNFILNLWRENPKEYLTKTDARRALKGDVNLISRIHEFLERWGLINF 78
SWIRM-assoc_3 pfam16498
SWIRM-associated domain at the C-terminal; Much of the higher eukaryote SWI/SNF complex ...
354-419 2.07e-20

SWIRM-associated domain at the C-terminal; Much of the higher eukaryote SWI/SNF complex subunit SMARCC2 proteins is of low-complexity and or disordered. However, there are several short regions that are quite highly conserved. This is one of these regions. The function of the individual regions is not known.


Pssm-ID: 465145 [Multi-domain]  Cd Length: 67  Bit Score: 85.48  E-value: 2.07e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 392923160  354 VDPQVAAAATKAAMEEFGKLKEEIPPLVAEAHEKNVAAMAEKTGQVDGAVGLTKSGLKPAEEAAGD 419
Cdd:pfam16498   1 VDPRVAAAAAKAAMEEFSKIKEEVPPALVEAHVKNVEEAAKKGGKVDPAFGLEKSGIAGTDPEEPE 66
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
257-298 4.07e-09

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 52.89  E-value: 4.07e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 392923160  257 WTEQETCLLLEALEMFKDDWNKVCDHVGTRTQHECVLKFLQL 298
Cdd:pfam00249   4 WTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNY 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
254-298 6.25e-08

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 49.53  E-value: 6.25e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 392923160   254 GRDWTEQETCLLLEALEMF-KDDWNKVCDHVGTRTQHECVLKFLQL 298
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYgKNNWEKIAKELPGRTAEQCRERWRNL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
257-298 6.80e-08

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 49.11  E-value: 6.80e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 392923160 257 WTEQETCLLLEALEMF-KDDWNKVCDHVGTRTQHECVLKFLQL 298
Cdd:cd00167    2 WTEEEDELLLEAVKKYgKNNWEKIAKELPGRTPKQCRERWRNL 44
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
257-296 7.17e-04

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 38.45  E-value: 7.17e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 392923160  257 WTEQETCLLLEALEMFKDDWNKVCDHVGTRTQHECVLKFL 296
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCFDRWR 40
 
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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