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Conserved domains on  [gi|300152736|gb|EFJ19377|]
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hypothetical protein SELMODRAFT_419232 [Selaginella moellendorffii]

Protein Classification

SWIB/MDM2 domain-containing protein( domain architecture ID 13757848)

SWIB/MDM2 domain-containing protein similar to Arabidopsis thaliana SWI/SNF complex component SNF12 homolog

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SWIB-MDM2_like cd10567
SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes ...
 140-210 3.61e-41

SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes Schizosaccharomyces pombe upstream activation factor subunit spp27, Saccharomyces cerevisiae upstream activation factor subunit UAF30, Chlamydiae DNA topoisomerase/SWIB domain fusion protein, Arabidopsis thaliana zinc finger CCCH domain-containing proteins, AtC3H19 and AtC3H44, and similar proteins. S. pombe spp27, also termed upstream activation factor 27 KDa subunit (p27), or upstream activation factor 30 KDa subunit (p30), or upstream activation factor subunit uaf30, is a component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. S. cerevisiae UAF30, also termed upstream activation factor 30 KDa subunit (p30), is a non-essential component of the UAF. It seems to play a role in silencing transcription by RNA polymerase II. The SWIB domain found in Chlamydiae DNA topoisomerase may play a role in chromatin condensation-decondensation, which is characteristic of the chlamydial developmental cycle and not found in any other types of bacteria. AtC3H19, also termed protein needed for RDR2-independent DNA methylation (NERD), is a plant-specific GW repeat- and PHD finger-containing protein that plays a central role in integrating RNA silencing and chromatin signals in 21 nt small-interfering RNA (siRNA)-dependent DNA methylation on the cytosine pathway, leading to transcriptional gene silencing of specific sequences. This family also includes many uncharacterized proteins containing two copies of SWIB/MDM2 domain.


:

Pssm-ID: 349489 [Multi-domain]  Cd Length: 71  Bit Score: 137.67  E-value: 3.61e-41
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 300152736 140 CRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:cd10567    1 YKLSPELAAFLGVSELSRTEVVKKLWAYIKENNLQDPKNKREILCDEKLKKVFGKDEVVMFEMNKLLSKHL 71
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 245-316 9.63e-32

SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2.


:

Pssm-ID: 460488 [Multi-domain]  Cd Length: 73  Bit Score: 113.35  E-value: 9.63e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 300152736  245 PISDALQKFFGtgESEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:pfam02201   4 KLSPELAELLG--EEELSRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPHL 73
DEK_C pfam08766
DEK C terminal domain; DEK is a chromatin associated protein that is linked with cancers and ...
 20-71 1.68e-12

DEK C terminal domain; DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C terminal of DEK and is of clinical importance since it can reverse the characteriztic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family. This domain is also found in chitin synthase proteins like Swiss:Q8TF96, and in protein phosphatases such as Swiss:Q6NN85.


:

Pssm-ID: 462592  Cd Length: 54  Bit Score: 61.25  E-value: 1.68e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 300152736   20 DSDIVREIGLVLNSADLSTTSMSDIRAVLEKNLGVELAHKKDFIRQQVDEFL 71
Cdd:pfam08766   3 DEEIREAIREILRTADLETVTKKQVRKQLEERLGVDLSERKAFINALIDEIL 54
 
Name Accession Description Interval E-value
SWIB-MDM2_like cd10567
SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes ...
 140-210 3.61e-41

SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes Schizosaccharomyces pombe upstream activation factor subunit spp27, Saccharomyces cerevisiae upstream activation factor subunit UAF30, Chlamydiae DNA topoisomerase/SWIB domain fusion protein, Arabidopsis thaliana zinc finger CCCH domain-containing proteins, AtC3H19 and AtC3H44, and similar proteins. S. pombe spp27, also termed upstream activation factor 27 KDa subunit (p27), or upstream activation factor 30 KDa subunit (p30), or upstream activation factor subunit uaf30, is a component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. S. cerevisiae UAF30, also termed upstream activation factor 30 KDa subunit (p30), is a non-essential component of the UAF. It seems to play a role in silencing transcription by RNA polymerase II. The SWIB domain found in Chlamydiae DNA topoisomerase may play a role in chromatin condensation-decondensation, which is characteristic of the chlamydial developmental cycle and not found in any other types of bacteria. AtC3H19, also termed protein needed for RDR2-independent DNA methylation (NERD), is a plant-specific GW repeat- and PHD finger-containing protein that plays a central role in integrating RNA silencing and chromatin signals in 21 nt small-interfering RNA (siRNA)-dependent DNA methylation on the cytosine pathway, leading to transcriptional gene silencing of specific sequences. This family also includes many uncharacterized proteins containing two copies of SWIB/MDM2 domain.


Pssm-ID: 349489 [Multi-domain]  Cd Length: 71  Bit Score: 137.67  E-value: 3.61e-41
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 300152736 140 CRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:cd10567    1 YKLSPELAAFLGVSELSRTEVVKKLWAYIKENNLQDPKNKREILCDEKLKKVFGKDEVVMFEMNKLLSKHL 71
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 138-210 1.16e-39

SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2.


Pssm-ID: 460488 [Multi-domain]  Cd Length: 73  Bit Score: 133.76  E-value: 1.16e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 300152736  138 KLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:pfam02201   1 KPFKLSPELAELLGEEELSRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPHL 73
Rsc6 COG5531
DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];
128-210 3.20e-35

DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];


Pssm-ID: 444282 [Multi-domain]  Cd Length: 85  Bit Score: 122.74  E-value: 3.20e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 128 KEKKKRGGLNKLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELF-GTDQTDMFQMNKLL 206
Cdd:COG5531    1 AKRKKNAAFMKPLTPSAELAAVVGAKPLPRTEVTKKVWDYIKKNNLQDPANKRNINADAKLKKVFgGKDQVSMFEMTKLV 80


                 ....
gi 300152736 207 SKHI 210
Cdd:COG5531   81 SKHL 84
SWIB smart00151
SWI complex, BAF60b domains;
136-210 1.54e-32

SWI complex, BAF60b domains;


Pssm-ID: 128456 [Multi-domain]  Cd Length: 77  Bit Score: 115.49  E-value: 1.54e-32
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 300152736   136 LNKLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:smart00151   1 ITKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHL 75
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 245-316 9.63e-32

SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2.


Pssm-ID: 460488 [Multi-domain]  Cd Length: 73  Bit Score: 113.35  E-value: 9.63e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 300152736  245 PISDALQKFFGtgESEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:pfam02201   4 KLSPELAELLG--EEELSRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPHL 73
SWIB-MDM2_like cd10567
SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes ...
 245-316 1.35e-30

SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes Schizosaccharomyces pombe upstream activation factor subunit spp27, Saccharomyces cerevisiae upstream activation factor subunit UAF30, Chlamydiae DNA topoisomerase/SWIB domain fusion protein, Arabidopsis thaliana zinc finger CCCH domain-containing proteins, AtC3H19 and AtC3H44, and similar proteins. S. pombe spp27, also termed upstream activation factor 27 KDa subunit (p27), or upstream activation factor 30 KDa subunit (p30), or upstream activation factor subunit uaf30, is a component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. S. cerevisiae UAF30, also termed upstream activation factor 30 KDa subunit (p30), is a non-essential component of the UAF. It seems to play a role in silencing transcription by RNA polymerase II. The SWIB domain found in Chlamydiae DNA topoisomerase may play a role in chromatin condensation-decondensation, which is characteristic of the chlamydial developmental cycle and not found in any other types of bacteria. AtC3H19, also termed protein needed for RDR2-independent DNA methylation (NERD), is a plant-specific GW repeat- and PHD finger-containing protein that plays a central role in integrating RNA silencing and chromatin signals in 21 nt small-interfering RNA (siRNA)-dependent DNA methylation on the cytosine pathway, leading to transcriptional gene silencing of specific sequences. This family also includes many uncharacterized proteins containing two copies of SWIB/MDM2 domain.


Pssm-ID: 349489 [Multi-domain]  Cd Length: 71  Bit Score: 110.33  E-value: 1.35e-30
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 300152736 245 PISDALQKFFGTgeSEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:cd10567    2 KLSPELAAFLGV--SELSRTEVVKKLWAYIKENNLQDPKNKREILCDEKLKKVFGKDEVVMFEMNKLLSKHL 71
SWIB smart00151
SWI complex, BAF60b domains;
243-316 2.61e-23

SWI complex, BAF60b domains;


Pssm-ID: 128456 [Multi-domain]  Cd Length: 77  Bit Score: 91.22  E-value: 2.61e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 300152736   243 PSPISDALQKFFGTGEseVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:smart00151   4 KVTLSPELAKVLGAPE--MTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHL 75
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 128-210 1.50e-20

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 92.19  E-value: 1.50e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 128 KEKKKRGGlnKLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLS 207
Cdd:PRK06319 778 KTTKKRAG--PLYTPSPALAAMIGAEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLS 855


                 ...
gi 300152736 208 KHI 210
Cdd:PRK06319 856 QHL 858
Rsc6 COG5531
DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];
234-315 1.19e-18

DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];


Pssm-ID: 444282 [Multi-domain]  Cd Length: 85  Bit Score: 79.21  E-value: 1.19e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 234 KGKASGFLVPSPISDALQKFFGTGEseVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFEC-DSFLGFTMPKLL 312
Cdd:COG5531    3 RKKNAAFMKPLTPSAELAAVVGAKP--LPRTEVTKKVWDYIKKNNLQDPANKRNINADAKLKKVFGGkDQVSMFEMTKLV 80


                 ...
gi 300152736 313 ASH 315
Cdd:COG5531   81 SKH 83
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 208-315 3.44e-14

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 73.32  E-value: 3.44e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 208 KHIWTITEEGAEDSEPKTKRQKKDSGKGKASGFLVPSPisdALQKFFGTgeSEVTRSEVVKRIWDYIRSNQLQDPTDKKK 287
Cdd:PRK06319 755 KKSASTKGKAAKTVKKKSKAKSKKTTKKRAGPLYTPSP---ALAAMIGA--EPVGRGEATKKVWDYIKEHGLQSPENKKL 829

                         90       100
                 ....*....|....*....|....*...
gi 300152736 288 ILCDNKLQELFECDSFLGFTMPKLLASH 315
Cdd:PRK06319 830 IIPDSKLQGVIGPDPIDMFQLSKKLSQH 857
DEK_C pfam08766
DEK C terminal domain; DEK is a chromatin associated protein that is linked with cancers and ...
 20-71 1.68e-12

DEK C terminal domain; DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C terminal of DEK and is of clinical importance since it can reverse the characteriztic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family. This domain is also found in chitin synthase proteins like Swiss:Q8TF96, and in protein phosphatases such as Swiss:Q6NN85.


Pssm-ID: 462592  Cd Length: 54  Bit Score: 61.25  E-value: 1.68e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 300152736   20 DSDIVREIGLVLNSADLSTTSMSDIRAVLEKNLGVELAHKKDFIRQQVDEFL 71
Cdd:pfam08766   3 DEEIREAIREILRTADLETVTKKQVRKQLEERLGVDLSERKAFINALIDEIL 54
 
Name Accession Description Interval E-value
SWIB-MDM2_like cd10567
SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes ...
 140-210 3.61e-41

SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes Schizosaccharomyces pombe upstream activation factor subunit spp27, Saccharomyces cerevisiae upstream activation factor subunit UAF30, Chlamydiae DNA topoisomerase/SWIB domain fusion protein, Arabidopsis thaliana zinc finger CCCH domain-containing proteins, AtC3H19 and AtC3H44, and similar proteins. S. pombe spp27, also termed upstream activation factor 27 KDa subunit (p27), or upstream activation factor 30 KDa subunit (p30), or upstream activation factor subunit uaf30, is a component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. S. cerevisiae UAF30, also termed upstream activation factor 30 KDa subunit (p30), is a non-essential component of the UAF. It seems to play a role in silencing transcription by RNA polymerase II. The SWIB domain found in Chlamydiae DNA topoisomerase may play a role in chromatin condensation-decondensation, which is characteristic of the chlamydial developmental cycle and not found in any other types of bacteria. AtC3H19, also termed protein needed for RDR2-independent DNA methylation (NERD), is a plant-specific GW repeat- and PHD finger-containing protein that plays a central role in integrating RNA silencing and chromatin signals in 21 nt small-interfering RNA (siRNA)-dependent DNA methylation on the cytosine pathway, leading to transcriptional gene silencing of specific sequences. This family also includes many uncharacterized proteins containing two copies of SWIB/MDM2 domain.


Pssm-ID: 349489 [Multi-domain]  Cd Length: 71  Bit Score: 137.67  E-value: 3.61e-41
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 300152736 140 CRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:cd10567    1 YKLSPELAAFLGVSELSRTEVVKKLWAYIKENNLQDPKNKREILCDEKLKKVFGKDEVVMFEMNKLLSKHL 71
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 138-210 1.16e-39

SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2.


Pssm-ID: 460488 [Multi-domain]  Cd Length: 73  Bit Score: 133.76  E-value: 1.16e-39
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 300152736  138 KLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:pfam02201   1 KPFKLSPELAELLGEEELSRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPHL 73
Rsc6 COG5531
DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];
128-210 3.20e-35

DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];


Pssm-ID: 444282 [Multi-domain]  Cd Length: 85  Bit Score: 122.74  E-value: 3.20e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 128 KEKKKRGGLNKLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELF-GTDQTDMFQMNKLL 206
Cdd:COG5531    1 AKRKKNAAFMKPLTPSAELAAVVGAKPLPRTEVTKKVWDYIKKNNLQDPANKRNINADAKLKKVFgGKDQVSMFEMTKLV 80


                 ....
gi 300152736 207 SKHI 210
Cdd:COG5531   81 SKHL 84
SWIB smart00151
SWI complex, BAF60b domains;
136-210 1.54e-32

SWI complex, BAF60b domains;


Pssm-ID: 128456 [Multi-domain]  Cd Length: 77  Bit Score: 115.49  E-value: 1.54e-32
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 300152736   136 LNKLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:smart00151   1 ITKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHL 75
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 245-316 9.63e-32

SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2.


Pssm-ID: 460488 [Multi-domain]  Cd Length: 73  Bit Score: 113.35  E-value: 9.63e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 300152736  245 PISDALQKFFGtgESEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:pfam02201   4 KLSPELAELLG--EEELSRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPHL 73
SWIB-MDM2_like cd10567
SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes ...
 245-316 1.35e-30

SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes Schizosaccharomyces pombe upstream activation factor subunit spp27, Saccharomyces cerevisiae upstream activation factor subunit UAF30, Chlamydiae DNA topoisomerase/SWIB domain fusion protein, Arabidopsis thaliana zinc finger CCCH domain-containing proteins, AtC3H19 and AtC3H44, and similar proteins. S. pombe spp27, also termed upstream activation factor 27 KDa subunit (p27), or upstream activation factor 30 KDa subunit (p30), or upstream activation factor subunit uaf30, is a component of the UAF (upstream activation factor) complex which interacts with the upstream element of the RNA polymerase I promoter and forms a stable preinitiation complex. S. cerevisiae UAF30, also termed upstream activation factor 30 KDa subunit (p30), is a non-essential component of the UAF. It seems to play a role in silencing transcription by RNA polymerase II. The SWIB domain found in Chlamydiae DNA topoisomerase may play a role in chromatin condensation-decondensation, which is characteristic of the chlamydial developmental cycle and not found in any other types of bacteria. AtC3H19, also termed protein needed for RDR2-independent DNA methylation (NERD), is a plant-specific GW repeat- and PHD finger-containing protein that plays a central role in integrating RNA silencing and chromatin signals in 21 nt small-interfering RNA (siRNA)-dependent DNA methylation on the cytosine pathway, leading to transcriptional gene silencing of specific sequences. This family also includes many uncharacterized proteins containing two copies of SWIB/MDM2 domain.


Pssm-ID: 349489 [Multi-domain]  Cd Length: 71  Bit Score: 110.33  E-value: 1.35e-30
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 300152736 245 PISDALQKFFGTgeSEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:cd10567    2 KLSPELAAFLGV--SELSRTEVVKKLWAYIKENNLQDPKNKREILCDEKLKKVFGKDEVVMFEMNKLLSKHL 71
SWIB smart00151
SWI complex, BAF60b domains;
243-316 2.61e-23

SWI complex, BAF60b domains;


Pssm-ID: 128456 [Multi-domain]  Cd Length: 77  Bit Score: 91.22  E-value: 2.61e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 300152736   243 PSPISDALQKFFGTGEseVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASHF 316
Cdd:smart00151   4 KVTLSPELAKVLGAPE--MTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHL 75
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 128-210 1.50e-20

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 92.19  E-value: 1.50e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 128 KEKKKRGGlnKLCRLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLS 207
Cdd:PRK06319 778 KTTKKRAG--PLYTPSPALAAMIGAEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLS 855


                 ...
gi 300152736 208 KHI 210
Cdd:PRK06319 856 QHL 858
PRK14724 PRK14724
DNA topoisomerase III; Provisional
 125-210 4.34e-20

DNA topoisomerase III; Provisional


Pssm-ID: 237803 [Multi-domain]  Cd Length: 987  Bit Score: 91.17  E-value: 4.34e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 125 STPKEKKKRGGLNKLCRLSP--ELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQM 202
Cdd:PRK14724 899 KTPRKAAKKKAAPPAAGLKPsaALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFEL 978


                 ....*...
gi 300152736 203 NKLLSKHI 210
Cdd:PRK14724 979 AGIVGKHL 986
SWIB_like cd10568
SWIB domain found in the 60 kda subunit of the ATP-dependent SWI/SNF chromatin-remodeling ...
 142-210 7.00e-19

SWIB domain found in the 60 kda subunit of the ATP-dependent SWI/SNF chromatin-remodeling complexes and similar proteins; SWIB domain is a conserved region found within proteins in the SWI/SNF family of complexes. SWI/SNF complex proteins display helicase and ATPase activities and are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors), among which the BAF60 subunit serves as a key link between the core complexes and specific transcriptional factors. The BAF60 subunit have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. The family also includes Saccharomyces cerevisiae transcription regulatory protein SNF12 and remodel the structure of chromatin complex subunit 6 (RSC6), and Schizosaccharomyces pombe SWI/SNF and RSC complexes subunit SSR3. SNF12, also termed 73-kDa subunit of the SWI/SNF transcriptional regulatory complex, or SWI/SNF complex component SWP73, is involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). RSC6 and SSR3 are components of the RSC, which is involved in transcription regulation and nucleosome positioning. RSC6 is essential for mitotic growth and suppresses formamide sensitivity of the RSC8 mutants.


Pssm-ID: 349490 [Multi-domain]  Cd Length: 69  Bit Score: 79.11  E-value: 7.00e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 300152736 142 LSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:cd10568    1 LSPALAQLLGIKEGTRPNIIYALWQYIKLNKLQDPEDRRLINCDEALKQLFGVERFKFSELPELLNPHL 69
Rsc6 COG5531
DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];
234-315 1.19e-18

DNA-binding SWIB/MDM2 domain [Chromatin structure and dynamics];


Pssm-ID: 444282 [Multi-domain]  Cd Length: 85  Bit Score: 79.21  E-value: 1.19e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 234 KGKASGFLVPSPISDALQKFFGTGEseVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFEC-DSFLGFTMPKLL 312
Cdd:COG5531    3 RKKNAAFMKPLTPSAELAAVVGAKP--LPRTEVTKKVWDYIKKNNLQDPANKRNINADAKLKKVFGGkDQVSMFEMTKLV 80


                 ...
gi 300152736 313 ASH 315
Cdd:COG5531   81 SKH 83
SWIB_like cd10568
SWIB domain found in the 60 kda subunit of the ATP-dependent SWI/SNF chromatin-remodeling ...
 246-315 9.05e-17

SWIB domain found in the 60 kda subunit of the ATP-dependent SWI/SNF chromatin-remodeling complexes and similar proteins; SWIB domain is a conserved region found within proteins in the SWI/SNF family of complexes. SWI/SNF complex proteins display helicase and ATPase activities and are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors), among which the BAF60 subunit serves as a key link between the core complexes and specific transcriptional factors. The BAF60 subunit have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. The family also includes Saccharomyces cerevisiae transcription regulatory protein SNF12 and remodel the structure of chromatin complex subunit 6 (RSC6), and Schizosaccharomyces pombe SWI/SNF and RSC complexes subunit SSR3. SNF12, also termed 73-kDa subunit of the SWI/SNF transcriptional regulatory complex, or SWI/SNF complex component SWP73, is involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). RSC6 and SSR3 are components of the RSC, which is involved in transcription regulation and nucleosome positioning. RSC6 is essential for mitotic growth and suppresses formamide sensitivity of the RSC8 mutants.


Pssm-ID: 349490 [Multi-domain]  Cd Length: 69  Bit Score: 73.34  E-value: 9.05e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 246 ISDALQKFFGTgeSEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASH 315
Cdd:cd10568    1 LSPALAQLLGI--KEGTRPNIIYALWQYIKLNKLQDPEDRRLINCDEALKQLFGVERFKFSELPELLNPH 68
SWIB-MDM2 cd00855
SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has ...
 246-315 1.45e-14

SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has been found in both SWI/SNF complex B (SWIB) and the negative regulator of the p53 tumor suppressor MDM2, which are homologous and share a common fold. The SWIB domain is a conserved region found within proteins in the SWI/SNF (SWItch/Sucrose Non-Fermentable) family of complexes. SWI/SNF complex proteins display helicase and ATPase activities and are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). MDM2 is an inhibitor of p53 tumor repressor. It binds to the transactivation domain and down-regulates the ability of p53 to activate transcription. This family corresponds to the SWIB domain and the p53 binding domain of MDM2.


Pssm-ID: 349487 [Multi-domain]  Cd Length: 69  Bit Score: 67.25  E-value: 1.45e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 246 ISDALQKFFGTgESEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLASH 315
Cdd:cd00855    1 LSPELEALLKS-YETFTLKEILQALWQYIKKKNLMDPDDPSIVVCDERLRQLFEVPSFPFSEIPKALKKH 69
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 208-315 3.44e-14

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 73.32  E-value: 3.44e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 208 KHIWTITEEGAEDSEPKTKRQKKDSGKGKASGFLVPSPisdALQKFFGTgeSEVTRSEVVKRIWDYIRSNQLQDPTDKKK 287
Cdd:PRK06319 755 KKSASTKGKAAKTVKKKSKAKSKKTTKKRAGPLYTPSP---ALAAMIGA--EPVGRGEATKKVWDYIKEHGLQSPENKKL 829

                         90       100
                 ....*....|....*....|....*...
gi 300152736 288 ILCDNKLQELFECDSFLGFTMPKLLASH 315
Cdd:PRK06319 830 IIPDSKLQGVIGPDPIDMFQLSKKLSQH 857
SWIB-MDM2 cd00855
SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has ...
 142-209 3.66e-13

SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has been found in both SWI/SNF complex B (SWIB) and the negative regulator of the p53 tumor suppressor MDM2, which are homologous and share a common fold. The SWIB domain is a conserved region found within proteins in the SWI/SNF (SWItch/Sucrose Non-Fermentable) family of complexes. SWI/SNF complex proteins display helicase and ATPase activities and are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). MDM2 is an inhibitor of p53 tumor repressor. It binds to the transactivation domain and down-regulates the ability of p53 to activate transcription. This family corresponds to the SWIB domain and the p53 binding domain of MDM2.


Pssm-ID: 349487 [Multi-domain]  Cd Length: 69  Bit Score: 63.40  E-value: 3.66e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 300152736 142 LSPELQAIIG-EESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFGTDQTDMFQMNKLLSKH 209
Cdd:cd00855    1 LSPELEALLKsYETFTLKEILQALWQYIKKKNLMDPDDPSIVVCDERLRQLFEVPSFPFSEIPKALKKH 69
DEK_C pfam08766
DEK C terminal domain; DEK is a chromatin associated protein that is linked with cancers and ...
 20-71 1.68e-12

DEK C terminal domain; DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C terminal of DEK and is of clinical importance since it can reverse the characteriztic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family. This domain is also found in chitin synthase proteins like Swiss:Q8TF96, and in protein phosphatases such as Swiss:Q6NN85.


Pssm-ID: 462592  Cd Length: 54  Bit Score: 61.25  E-value: 1.68e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 300152736   20 DSDIVREIGLVLNSADLSTTSMSDIRAVLEKNLGVELAHKKDFIRQQVDEFL 71
Cdd:pfam08766   3 DEEIREAIREILRTADLETVTKKQVRKQLEERLGVDLSERKAFINALIDEIL 54
PRK14724 PRK14724
DNA topoisomerase III; Provisional
 218-315 1.86e-11

DNA topoisomerase III; Provisional


Pssm-ID: 237803 [Multi-domain]  Cd Length: 987  Bit Score: 64.98  E-value: 1.86e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 300152736 218 AEDSEPKTKRQKKDSGKGKASGFLVPSpisDALQKFFGTGEseVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQEL 297
Cdd:PRK14724 893 AKTAAAKTPRKAAKKKAAPPAAGLKPS---AALAAVIGAEP--VARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPV 967

                         90
                 ....*....|....*...
gi 300152736 298 FECDSFLGFTMPKLLASH 315
Cdd:PRK14724 968 FGKDQVTMFELAGIVGKH 985
SWIB_BAF60C cd17676
SWIB domain found in BRG1-associated factor 60C (BAF60C) and similar proteins; BAF60C, also ...
 262-314 5.25e-09

SWIB domain found in BRG1-associated factor 60C (BAF60C) and similar proteins; BAF60C, also termed SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 (SMARCD3), or 60 kDa BRG-1/Brm-associated factor subunit C, is a core subunit of the SWI/SNF chromatin-remodeling complex that activates the transcription of fatty acid oxidation genes during fasting. It is involved in chromatin remodeling and hepatic lipid metabolism. It is also essential for cardiomyocyte differentiation at the early heart development. Moreover, BAF60C drives glycolytic metabolism in the muscle and improves systemic glucose homeostasis through Deptor-mediated Akt activation. Furthermore, BAF60C epigenetically regulates epithelial-mesenchymal transition (EMT) by activating WNT signaling pathways.


Pssm-ID: 349495  Cd Length: 74  Bit Score: 52.30  E-value: 5.25e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 300152736 262 TRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFECDSFLGFTMPKLLAS 314
Cdd:cd17676   15 TRSAIIQALWQYIKTNKLQDSHDKEYINCDKYFQQIFDCPRLKFSEIPQRLTN 67
SWIB_BAF60A cd17674
SWIB domain found in BRG1-associated factor 60A (BAF60A) and similar proteins; BAF60A, also ...
 262-300 3.97e-08

SWIB domain found in BRG1-associated factor 60A (BAF60A) and similar proteins; BAF60A, also termed SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 (SMARCD1), or 60 kDa BRG-1/Brm-associated factor subunit A, or SWI/SNF complex 60 kDa subunit, is a core subunit of the SWI/SNF chromatin-remodeling complex that activates the transcription of fatty acid oxidation genes during fasting. BAF60A is involved in chromatin remodeling and hepatic lipid metabolism. It mediates critical interactions between nuclear receptors and the BRG1 chromatin-remodeling complex for transactivation. It is also a key component of the transcriptional control in cardiac progenitors. Moreover, BAF60A interacts with p53 to recruit the SWI/SNF complex, suggesting that the SWI/SNF chromatin remodeling complex is involved in the suppression of tumors.


Pssm-ID: 349493  Cd Length: 77  Bit Score: 49.82  E-value: 3.97e-08
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 300152736 262 TRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFEC 300
Cdd:cd17674   18 TRPVIINALWQYIKTHKLQDPHEREYINCDKYLQQIFEC 56
MDM2_like cd10566
p53-binding domain found in E3 ubiquitin-protein ligase MDM2, MDM4, and similar proteins; MDM2 ...
 250-316 2.14e-07

p53-binding domain found in E3 ubiquitin-protein ligase MDM2, MDM4, and similar proteins; MDM2 (also termed HDM2) and MDM4 (also termed MDMX or HDMX) are the primary negative regulators of p53 tumor suppressor. They have non-redundant roles in the regulation of p53. MDM2 mainly functions to control p53 stability, while MDM4 controls p53 transcriptional activity. Both MDM2 and MDM4 contain an N-terminal p53-binding domain, a RanBP2-type zinc finger (zf-RanBP2) domain near the central acidic region, and a C-terminal RING domain. Mdm2 can form homo-oligomers through its RING domain and display E3 ubiquitin ligase activity that catalyzes the attachment of ubiquitin to p53 as an essential step in the regulation of its level in cells. Despite its RING domain and structural similarity with MDM2, MDM4 does not homo-oligomerize and lacks ubiquitin-ligase function, but inhibits the transcriptional activity of p53. In addition, both their RING domains are responsible for the hetero-oligomerization, which is crucial for the suppression of p53 activity during embryonic development and the recruitment of E2 ubiquitin-conjugating enzymes. Moreover, MDM2 and MDM4 can be phosphorylated and destabilized in response to DNA damage stress. In response to ribosomal stress, MDM2-mediated p53 ubiquitination and degradation can be inhibited through the interaction with ribosomal proteins L5, L11 and L23. However, MDM4 is not bound to ribosomal proteins, suggesting its different response to regulation by small basic proteins such as ribosomal proteins and ARF.


Pssm-ID: 349488  Cd Length: 75  Bit Score: 47.56  E-value: 2.14e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 300152736 250 LQKFFGTGEsEVTRSEVVKRIWDYIRSNQLQDPTDKKKILCDN-KLQELFECDSFLGFTMPKLLASHF 316
Cdd:cd10566    9 LKSVGAKGE-VFTRKEVLHYLKQYISSRKLYDPLDPRIVYCKNdPLGKVFGVQSFTIKDVLGLLAKNL 75
SWIB_BAF60A cd17674
SWIB domain found in BRG1-associated factor 60A (BAF60A) and similar proteins; BAF60A, also ...
 141-193 3.76e-07

SWIB domain found in BRG1-associated factor 60A (BAF60A) and similar proteins; BAF60A, also termed SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 (SMARCD1), or 60 kDa BRG-1/Brm-associated factor subunit A, or SWI/SNF complex 60 kDa subunit, is a core subunit of the SWI/SNF chromatin-remodeling complex that activates the transcription of fatty acid oxidation genes during fasting. BAF60A is involved in chromatin remodeling and hepatic lipid metabolism. It mediates critical interactions between nuclear receptors and the BRG1 chromatin-remodeling complex for transactivation. It is also a key component of the transcriptional control in cardiac progenitors. Moreover, BAF60A interacts with p53 to recruit the SWI/SNF complex, suggesting that the SWI/SNF chromatin remodeling complex is involved in the suppression of tumors.


Pssm-ID: 349493  Cd Length: 77  Bit Score: 47.12  E-value: 3.76e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 300152736 141 RLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFG 193
Cdd:cd17674    3 KLDPRLARLLGIHTQTRPVIINALWQYIKTHKLQDPHEREYINCDKYLQQIFE 55
SWIB_BAF60B cd17675
SWIB domain found in BRG1-associated factor 60B (BAF60B) and similar proteins; BAF60B, also ...
 141-193 4.20e-06

SWIB domain found in BRG1-associated factor 60B (BAF60B) and similar proteins; BAF60B, also termed SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 (SMARCD2), or 60 kDa BRG-1/Brm-associated factor subunit B, is a component of the BAF complex. It is involved in transcriptional activation and repression of select genes by chromatin remodeling. It plays a role in the ATM-p53 pathway in sensing chromatin opening by facilitating ATM recruitment to the SWI/SNF complex, as well as ATM activation. It also regulates transcriptional networks controlling differentiation of neutrophil granulocytes. Thus, it acts as a key factor controlling myelopoiesis and is a potential tumor suppressor in leukemia.


Pssm-ID: 349494  Cd Length: 80  Bit Score: 44.19  E-value: 4.20e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 300152736 141 RLSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELFG 193
Cdd:cd17675    6 KLDPRLARLLGVHTQTRANIMQALWLYIKHNKLQDSHEKEYINCNRYFRQIFN 58
SWIB_BAF60C cd17676
SWIB domain found in BRG1-associated factor 60C (BAF60C) and similar proteins; BAF60C, also ...
 142-192 1.32e-05

SWIB domain found in BRG1-associated factor 60C (BAF60C) and similar proteins; BAF60C, also termed SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3 (SMARCD3), or 60 kDa BRG-1/Brm-associated factor subunit C, is a core subunit of the SWI/SNF chromatin-remodeling complex that activates the transcription of fatty acid oxidation genes during fasting. It is involved in chromatin remodeling and hepatic lipid metabolism. It is also essential for cardiomyocyte differentiation at the early heart development. Moreover, BAF60C drives glycolytic metabolism in the muscle and improves systemic glucose homeostasis through Deptor-mediated Akt activation. Furthermore, BAF60C epigenetically regulates epithelial-mesenchymal transition (EMT) by activating WNT signaling pathways.


Pssm-ID: 349495  Cd Length: 74  Bit Score: 42.67  E-value: 1.32e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 300152736 142 LSPELQAIIGEESLPRTQVVKQLWVYIRAHNLQDPENKRNIICDDPLRELF 192
Cdd:cd17676    1 LDPRLARLLGIHTQTRSAIIQALWQYIKTNKLQDSHDKEYINCDKYFQQIF 51
SWIB_BAF60B cd17675
SWIB domain found in BRG1-associated factor 60B (BAF60B) and similar proteins; BAF60B, also ...
 262-300 1.49e-05

SWIB domain found in BRG1-associated factor 60B (BAF60B) and similar proteins; BAF60B, also termed SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 (SMARCD2), or 60 kDa BRG-1/Brm-associated factor subunit B, is a component of the BAF complex. It is involved in transcriptional activation and repression of select genes by chromatin remodeling. It plays a role in the ATM-p53 pathway in sensing chromatin opening by facilitating ATM recruitment to the SWI/SNF complex, as well as ATM activation. It also regulates transcriptional networks controlling differentiation of neutrophil granulocytes. Thus, it acts as a key factor controlling myelopoiesis and is a potential tumor suppressor in leukemia.


Pssm-ID: 349494  Cd Length: 80  Bit Score: 42.65  E-value: 1.49e-05
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 300152736 262 TRSEVVKRIWDYIRSNQLQDPTDKKKILCDNKLQELFEC 300
Cdd:cd17675   21 TRANIMQALWLYIKHNKLQDSHEKEYINCNRYFRQIFNC 59
MDM2_like cd10566
p53-binding domain found in E3 ubiquitin-protein ligase MDM2, MDM4, and similar proteins; MDM2 ...
 157-210 5.02e-04

p53-binding domain found in E3 ubiquitin-protein ligase MDM2, MDM4, and similar proteins; MDM2 (also termed HDM2) and MDM4 (also termed MDMX or HDMX) are the primary negative regulators of p53 tumor suppressor. They have non-redundant roles in the regulation of p53. MDM2 mainly functions to control p53 stability, while MDM4 controls p53 transcriptional activity. Both MDM2 and MDM4 contain an N-terminal p53-binding domain, a RanBP2-type zinc finger (zf-RanBP2) domain near the central acidic region, and a C-terminal RING domain. Mdm2 can form homo-oligomers through its RING domain and display E3 ubiquitin ligase activity that catalyzes the attachment of ubiquitin to p53 as an essential step in the regulation of its level in cells. Despite its RING domain and structural similarity with MDM2, MDM4 does not homo-oligomerize and lacks ubiquitin-ligase function, but inhibits the transcriptional activity of p53. In addition, both their RING domains are responsible for the hetero-oligomerization, which is crucial for the suppression of p53 activity during embryonic development and the recruitment of E2 ubiquitin-conjugating enzymes. Moreover, MDM2 and MDM4 can be phosphorylated and destabilized in response to DNA damage stress. In response to ribosomal stress, MDM2-mediated p53 ubiquitination and degradation can be inhibited through the interaction with ribosomal proteins L5, L11 and L23. However, MDM4 is not bound to ribosomal proteins, suggesting its different response to regulation by small basic proteins such as ribosomal proteins and ARF.


Pssm-ID: 349488  Cd Length: 75  Bit Score: 37.93  E-value: 5.02e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 300152736 157 RTQVVKQLWVYIRAHNLQDPENKRNIIC-DDPLRELFGTDQTDMFQMNKLLSKHI 210
Cdd:cd10566   21 RKEVLHYLKQYISSRKLYDPLDPRIVYCkNDPLGKVFGVQSFTIKDVLGLLAKNL 75
 
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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