NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1063730708|ref|NP_001331259|]
View 

SWIB/MDM2 and Plus-3 and GYF domain-containing protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Plus3 smart00719
Short conserved domain in transcriptional regulators; Plus3 domains occur in the Saccharomyces ...
 150-251 1.38e-33

Short conserved domain in transcriptional regulators; Plus3 domains occur in the Saccharomyces cerevisiae Rtf1p protein, which interacts with Spt6p, and in parsley CIP, which interacts with the bZIP protein CPRF1.


:

Pssm-ID: 197843  Cd Length: 109  Bit Score: 121.64  E-value: 1.38e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  150 AIVSDNIKLLYLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDYLQkYPYQLVQVTGVKK-------EHGTDDFLLQVT 222
Cdd:smart00719   1 AIVFDNLNLLRLRRSLVEELLKPP-TFESKVVGCFVRVKIGPNDQKQ-PIYRLVQVTGVKEadkpyslGGKTTNVLLEVL 78

                           90       100       110
                   ....*....|....*....|....*....|.
gi 1063730708  223 N--YVKDVSISVLSDDNFSQEECEDLHQRIK 251
Cdd:smart00719  79 NgdSEKVVQINFISNQDFTEEEFQRWKQAIK 109
SWIB-MDM2 cd00855
SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has ...
 34-106 3.39e-15

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: 69.95  E-value: 3.39e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063730708  34 SRQLIEFLHSlgkdtSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:cd00855     2 SPELEALLKS-----YETFTLKEILQALWQYIKKKNLMDPDDPSIVVCDERLRQLFEVPSFPFSEIPKALKKH 69
 
Name Accession Description Interval E-value
Plus3 smart00719
Short conserved domain in transcriptional regulators; Plus3 domains occur in the Saccharomyces ...
 150-251 1.38e-33

Short conserved domain in transcriptional regulators; Plus3 domains occur in the Saccharomyces cerevisiae Rtf1p protein, which interacts with Spt6p, and in parsley CIP, which interacts with the bZIP protein CPRF1.


Pssm-ID: 197843  Cd Length: 109  Bit Score: 121.64  E-value: 1.38e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  150 AIVSDNIKLLYLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDYLQkYPYQLVQVTGVKK-------EHGTDDFLLQVT 222
Cdd:smart00719   1 AIVFDNLNLLRLRRSLVEELLKPP-TFESKVVGCFVRVKIGPNDQKQ-PIYRLVQVTGVKEadkpyslGGKTTNVLLEVL 78

                           90       100       110
                   ....*....|....*....|....*....|.
gi 1063730708  223 N--YVKDVSISVLSDDNFSQEECEDLHQRIK 251
Cdd:smart00719  79 NgdSEKVVQINFISNQDFTEEEFQRWKQAIK 109
Plus-3 pfam03126
Plus-3 domain; This domain is about 90 residues in length and is often found associated with ...
 156-250 3.16e-21

Plus-3 domain; This domain is about 90 residues in length and is often found associated with the pfam02213 domain. The function of this domain is uncertain. It is possible that this domain is involved in DNA binding as it has three conserved positively charged residues, hence this domain has been named the plus-3 domain. It is found in yeast Rtf1 which may be a transcription elongation factor.


Pssm-ID: 460817  Cd Length: 103  Bit Score: 88.00  E-value: 3.16e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708 156 IKLLYLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDYLQKYPYQLVQVTGVKKEH-------GTDDFLLQVTNY--VK 226
Cdd:pfam03126   1 INRIRLSRSLLEKWCFYP-FFEDAVVGCFVRVNIGPDRETGQPVYRLAQIVGVKESGkpyklgkKTTNKYLVVRHGkaER 79

                          90       100
                  ....*....|....*....|....
gi 1063730708 227 DVSISVLSDDNFSQEECEDLHQRI 250
Cdd:pfam03126  80 VFPMDFVSNSPFTEEEFERWRQTL 103
SWIB-MDM2 cd00855
SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has ...
 34-106 3.39e-15

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: 69.95  E-value: 3.39e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063730708  34 SRQLIEFLHSlgkdtSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:cd00855     2 SPELEALLKS-----YETFTLKEILQALWQYIKKKNLMDPDDPSIVVCDERLRQLFEVPSFPFSEIPKALKKH 69
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 34-106 1.15e-07

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: 48.63  E-value: 1.15e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063730708  34 SRQLIEFLhslgkDTSEMiSRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:pfam02201   6 SPELAELL-----GEEEL-SRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPH 72
COG5296 COG5296
Transcription factor involved in TATA site selection and in elongation by RNA polymerase II ...
 10-352 1.88e-05

Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription];


Pssm-ID: 227615 [Multi-domain]  Cd Length: 521  Bit Score: 46.96  E-value: 1.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  10 GNGSATSSRKRKARPKRFE--FVGWGSRQLIEFLHSLGKDT-----SEMISRYDVSDTIAkyISKEGLLDPSNKKKVVCD 82
Cdd:COG5296    54 GEGNEKSEEEKFKNPYRLEgkFKDEADRAKIMAMTEIERESilferEEEISKLMERRELA--IRMEQQHRSSGCTDTRRS 131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  83 KRLVLLFGTRTIFRMKVYDLLE------KHYKE-NQDDSDFDFLYEDEPQIICHSEKI--AKRTSKVVKKPRGTFAAIVS 153
Cdd:COG5296   132 TRYEPLTSAAEEKKKKLLELKKtrereeRLYSErHIELQRFKDYKELEESEQGLQEEYtpSYAEEAVEDISRTDDFAELY 211

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708 154 DNIKLLyLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDylQKYPYQLVQVTGV---KKEHGTDDFLlqvTNYVKDVS- 229
Cdd:COG5296   212 DFNQCR-VGRDMVARNVFKP-IFEDEVIGCFTRVRIGERG--GYLVYRIVGVGKGstySKPYGRKEVK---TNRYLDVSt 284

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708 230 --------ISVLSDDNFSQEECEDLHQRIKNGLLKKPTIVEMEEKAKKLHK--------DQTKHWLGREIELLKRLIDRA 293
Cdd:COG5296   285 grtykvfrINNISNSPFLREEYQRVWRSFKVGKLSMPSIAKVKEKYDKLVDtmgrrlsdKEISKMVACKDEVHPKRSNVI 364

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063730708 294 NEKgwrRELSEYLDKRELLQNPD---EQARLLREVPEVIGEElVQNPEVSSPEAHKSDNEQR 352
Cdd:COG5296   365 HEK---TELRQKRQRAIELKNKKaamEYQRQLEEIEDNEGAR-VHNVNSGRPLLAKVNERNR 422
SWIB smart00151
SWI complex, BAF60b domains;
52-106 2.73e-04

SWI complex, BAF60b domains;


Pssm-ID: 128456 [Multi-domain]  Cd Length: 77  Bit Score: 39.22  E-value: 2.73e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1063730708   52 ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:smart00151  20 MTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPH 74
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 49-106 9.54e-03

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 38.26  E-value: 9.54e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1063730708  49 SEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:PRK06319  800 AEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQH 857
 
Name Accession Description Interval E-value
Plus3 smart00719
Short conserved domain in transcriptional regulators; Plus3 domains occur in the Saccharomyces ...
 150-251 1.38e-33

Short conserved domain in transcriptional regulators; Plus3 domains occur in the Saccharomyces cerevisiae Rtf1p protein, which interacts with Spt6p, and in parsley CIP, which interacts with the bZIP protein CPRF1.


Pssm-ID: 197843  Cd Length: 109  Bit Score: 121.64  E-value: 1.38e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  150 AIVSDNIKLLYLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDYLQkYPYQLVQVTGVKK-------EHGTDDFLLQVT 222
Cdd:smart00719   1 AIVFDNLNLLRLRRSLVEELLKPP-TFESKVVGCFVRVKIGPNDQKQ-PIYRLVQVTGVKEadkpyslGGKTTNVLLEVL 78

                           90       100       110
                   ....*....|....*....|....*....|.
gi 1063730708  223 N--YVKDVSISVLSDDNFSQEECEDLHQRIK 251
Cdd:smart00719  79 NgdSEKVVQINFISNQDFTEEEFQRWKQAIK 109
Plus-3 pfam03126
Plus-3 domain; This domain is about 90 residues in length and is often found associated with ...
 156-250 3.16e-21

Plus-3 domain; This domain is about 90 residues in length and is often found associated with the pfam02213 domain. The function of this domain is uncertain. It is possible that this domain is involved in DNA binding as it has three conserved positively charged residues, hence this domain has been named the plus-3 domain. It is found in yeast Rtf1 which may be a transcription elongation factor.


Pssm-ID: 460817  Cd Length: 103  Bit Score: 88.00  E-value: 3.16e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708 156 IKLLYLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDYLQKYPYQLVQVTGVKKEH-------GTDDFLLQVTNY--VK 226
Cdd:pfam03126   1 INRIRLSRSLLEKWCFYP-FFEDAVVGCFVRVNIGPDRETGQPVYRLAQIVGVKESGkpyklgkKTTNKYLVVRHGkaER 79

                          90       100
                  ....*....|....*....|....
gi 1063730708 227 DVSISVLSDDNFSQEECEDLHQRI 250
Cdd:pfam03126  80 VFPMDFVSNSPFTEEEFERWRQTL 103
SWIB-MDM2 cd00855
SWIB/MDM2 domain family; The SWIB/MDM2 protein domain, short for SWI/SNF complex B/MDM2, has ...
 34-106 3.39e-15

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: 69.95  E-value: 3.39e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063730708  34 SRQLIEFLHSlgkdtSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:cd00855     2 SPELEALLKS-----YETFTLKEILQALWQYIKKKNLMDPDDPSIVVCDERLRQLFEVPSFPFSEIPKALKKH 69
SWIB-MDM2_like cd10567
SWIB/MDM2 domain found in SWIB/MDM2 homologous proteins; This family includes ...
 32-107 2.37e-14

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: 67.57  E-value: 2.37e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1063730708  32 WGSRQLIEFLHSlgkdtsEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKHY 107
Cdd:cd10567     2 KLSPELAAFLGV------SELSRTEVVKKLWAYIKENNLQDPKNKREILCDEKLKKVFGKDEVVMFEMNKLLSKHL 71
SWIB pfam02201
SWIB/MDM2 domain; This family includes the SWIB domain and the MDM2 domain. The p53-associated ...
 34-106 1.15e-07

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: 48.63  E-value: 1.15e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063730708  34 SRQLIEFLhslgkDTSEMiSRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:pfam02201   6 SPELAELL-----GEEEL-SRPEVVKALWEYIKENNLQDPEDKREIICDEKLKKLFGGDRVKFFEMPKLLSPH 72
COG5296 COG5296
Transcription factor involved in TATA site selection and in elongation by RNA polymerase II ...
 10-352 1.88e-05

Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription];


Pssm-ID: 227615 [Multi-domain]  Cd Length: 521  Bit Score: 46.96  E-value: 1.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  10 GNGSATSSRKRKARPKRFE--FVGWGSRQLIEFLHSLGKDT-----SEMISRYDVSDTIAkyISKEGLLDPSNKKKVVCD 82
Cdd:COG5296    54 GEGNEKSEEEKFKNPYRLEgkFKDEADRAKIMAMTEIERESilferEEEISKLMERRELA--IRMEQQHRSSGCTDTRRS 131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708  83 KRLVLLFGTRTIFRMKVYDLLE------KHYKE-NQDDSDFDFLYEDEPQIICHSEKI--AKRTSKVVKKPRGTFAAIVS 153
Cdd:COG5296   132 TRYEPLTSAAEEKKKKLLELKKtrereeRLYSErHIELQRFKDYKELEESEQGLQEEYtpSYAEEAVEDISRTDDFAELY 211

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708 154 DNIKLLyLRKSLVQELLKSPdTFEGKMLGSFVRIKSDPNDylQKYPYQLVQVTGV---KKEHGTDDFLlqvTNYVKDVS- 229
Cdd:COG5296   212 DFNQCR-VGRDMVARNVFKP-IFEDEVIGCFTRVRIGERG--GYLVYRIVGVGKGstySKPYGRKEVK---TNRYLDVSt 284

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063730708 230 --------ISVLSDDNFSQEECEDLHQRIKNGLLKKPTIVEMEEKAKKLHK--------DQTKHWLGREIELLKRLIDRA 293
Cdd:COG5296   285 grtykvfrINNISNSPFLREEYQRVWRSFKVGKLSMPSIAKVKEKYDKLVDtmgrrlsdKEISKMVACKDEVHPKRSNVI 364

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063730708 294 NEKgwrRELSEYLDKRELLQNPD---EQARLLREVPEVIGEElVQNPEVSSPEAHKSDNEQR 352
Cdd:COG5296   365 HEK---TELRQKRQRAIELKNKKaamEYQRQLEEIEDNEGAR-VHNVNSGRPLLAKVNERNR 422
SWIB_like cd10568
SWIB domain found in the 60 kda subunit of the ATP-dependent SWI/SNF chromatin-remodeling ...
 34-106 3.21e-05

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: 41.75  E-value: 3.21e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063730708  34 SRQLIEFLhslGKDTsemISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:cd10568     2 SPALAQLL---GIKE---GTRPNIIYALWQYIKLNKLQDPEDRRLINCDEALKQLFGVERFKFSELPELLNPH 68
SWIB smart00151
SWI complex, BAF60b domains;
52-106 2.73e-04

SWI complex, BAF60b domains;


Pssm-ID: 128456 [Multi-domain]  Cd Length: 77  Bit Score: 39.22  E-value: 2.73e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1063730708   52 ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:smart00151  20 MTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPH 74
MDM2_like cd10566
p53-binding domain found in E3 ubiquitin-protein ligase MDM2, MDM4, and similar proteins; MDM2 ...
 36-106 2.89e-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: 39.08  E-value: 2.89e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063730708  36 QLIEFLHSLGKdTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDK-RLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:cd10566     4 ELLKLLKSVGA-KGEVFTRKEVLHYLKQYISSRKLYDPLDPRIVYCKNdPLGKVFGVQSFTIKDVLGLLAKN 74
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 49-106 9.54e-03

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 38.26  E-value: 9.54e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1063730708  49 SEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 106
Cdd:PRK06319  800 AEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQH 857
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH