NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2462565917|ref|XP_054177240|]
View 

mesoderm induction early response protein 2 isoform X3 [Homo sapiens]

Protein Classification

mesoderm induction early response protein( domain architecture ID 10477681)

mesoderm induction early response (MIER) protein such as MIER2 that acts as a transcriptional repressor

Gene Ontology:  GO:0003677|GO:0006355|GO:0003700
PubMed:  28046085|8882580

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
 304-348 5.04e-25

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


:

Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 97.30  E-value: 5.04e-25
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462565917 304 WSEEECRNFEHGFRVHGKNFHLIQANKVRTRSVGECVEYYYLWKK 348
Cdd:cd11661     2 WSESEAKLFEEGLRKYGKDFHDIRQDFLPWKSVGELVEFYYMWKK 46
ELM2 pfam01448
ELM2 domain; The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown ...
 199-249 3.08e-10

ELM2 domain; The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown function. It is found in the MTA1 protein that is part of the NuRD complex. The domain is usually found to the N terminus of a myb-like DNA binding domain pfam00249. ELM2 is also found associated with an ARID DNA binding domain pfam01388 in Swiss:O82364. This suggests that ELM2 may also be involved in DNA binding, or perhaps is a protein-protein interaction domain.


:

Pssm-ID: 460214  Cd Length: 53  Bit Score: 55.70  E-value: 3.08e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2462565917 199 IMVGPQFQADLSNLHLNRHCEKIYENEDQ-LLWDPS-VLPEREVEEFLYRAVK 249
Cdd:pfam01448   1 IRVGPRYQAEIPELLPPSEEEDRYEEEDElLVWDPNhNLPDRKLDEYLVVARS 53
hnRNP-L_PTB super family cl25888
hnRNP-L/PTB/hephaestus splicing factor family; Included in this family of heterogeneous ...
 355-459 3.36e-03

hnRNP-L/PTB/hephaestus splicing factor family; Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).


The actual alignment was detected with superfamily member TIGR01649:

Pssm-ID: 273733 [Multi-domain]  Cd Length: 481  Bit Score: 40.18  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462565917 355 FAQQTRLGRRKDADQDLDGSDPDGPGRPRPEQDTLTGMRTDPLSVDGTAggldEPGVASDGLPSSEPGPCSFQQLDESPA 434
Cdd:TIGR01649 170 YAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPS----SYGHDGYSSHGGPLAPLAGGDRMGPPH 245

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2462565917 435 VPLSHRPPALADPA------SYQPAVTAPEP 459
Cdd:TIGR01649 246 GPPSRYRPAYEAAPlapaisSYGPAGGGPGS 276
 
Name Accession Description Interval E-value
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
 304-348 5.04e-25

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 97.30  E-value: 5.04e-25
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462565917 304 WSEEECRNFEHGFRVHGKNFHLIQANKVRTRSVGECVEYYYLWKK 348
Cdd:cd11661     2 WSESEAKLFEEGLRKYGKDFHDIRQDFLPWKSVGELVEFYYMWKK 46
ELM2 pfam01448
ELM2 domain; The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown ...
 199-249 3.08e-10

ELM2 domain; The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown function. It is found in the MTA1 protein that is part of the NuRD complex. The domain is usually found to the N terminus of a myb-like DNA binding domain pfam00249. ELM2 is also found associated with an ARID DNA binding domain pfam01388 in Swiss:O82364. This suggests that ELM2 may also be involved in DNA binding, or perhaps is a protein-protein interaction domain.


Pssm-ID: 460214  Cd Length: 53  Bit Score: 55.70  E-value: 3.08e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2462565917 199 IMVGPQFQADLSNLHLNRHCEKIYENEDQ-LLWDPS-VLPEREVEEFLYRAVK 249
Cdd:pfam01448   1 IRVGPRYQAEIPELLPPSEEEDRYEEEDElLVWDPNhNLPDRKLDEYLVVARS 53
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
303-349 3.14e-07

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 47.22  E-value: 3.14e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 2462565917  303 AWSEEECRNFEHGFRVHG-KNFHLIqANKVRTRSVGECVEYYYLWKKS 349
Cdd:smart00717   3 EWTEEEDELLIELVKKYGkNNWEKI-AKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 303-347 6.82e-05

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: 40.18  E-value: 6.82e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462565917 303 AWSEEECRNFEHGFRVHGKNFHLIqANKVRTRSVGECVEYYYLWK 347
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLGNRWKKI-AKLLPGRTDNQCKNRWQNYL 46
hnRNP-L_PTB TIGR01649
hnRNP-L/PTB/hephaestus splicing factor family; Included in this family of heterogeneous ...
 355-459 3.36e-03

hnRNP-L/PTB/hephaestus splicing factor family; Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).


Pssm-ID: 273733 [Multi-domain]  Cd Length: 481  Bit Score: 40.18  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462565917 355 FAQQTRLGRRKDADQDLDGSDPDGPGRPRPEQDTLTGMRTDPLSVDGTAggldEPGVASDGLPSSEPGPCSFQQLDESPA 434
Cdd:TIGR01649 170 YAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPS----SYGHDGYSSHGGPLAPLAGGDRMGPPH 245

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2462565917 435 VPLSHRPPALADPA------SYQPAVTAPEP 459
Cdd:TIGR01649 246 GPPSRYRPAYEAAPlapaisSYGPAGGGPGS 276
 
Name Accession Description Interval E-value
SANT_MTA3_like cd11661
Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family ...
 304-348 5.04e-25

Myb-Like Dna-Binding Domain of MTA3 and related proteins; Members in this SANT/myb family include domains found in mouse metastasis-associated protein 3 (MTA3) proteins and arginine-glutamic dipeptide (RERE) repeats proteins. SANT (SWI3, ADA2, N-CoR and TFIIIB) DNA-binding domains are a diverse set of proteins that share a common 3 alpha-helix bundle. MTA3 has been shown to interact with nucleosome remodeling and deacetylase (NuRD) proteins CHD4 and HDAC1, and the core cohesin complex protein RAD21 in the ovary, and regulate G2/M progression in proliferating granulosa cells. RERE belongs to the atrophin family and has been identified as a nuclear receptor corepressor; altered expression levels of RERE are associated with cancer in humans while mutations of Rere in mice cause failure in closing the anterior neural tube and fusion of the telencephalic and optic vesicles during embryogenesis.


Pssm-ID: 212559 [Multi-domain]  Cd Length: 46  Bit Score: 97.30  E-value: 5.04e-25
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462565917 304 WSEEECRNFEHGFRVHGKNFHLIQANKVRTRSVGECVEYYYLWKK 348
Cdd:cd11661     2 WSESEAKLFEEGLRKYGKDFHDIRQDFLPWKSVGELVEFYYMWKK 46
ELM2 pfam01448
ELM2 domain; The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown ...
 199-249 3.08e-10

ELM2 domain; The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown function. It is found in the MTA1 protein that is part of the NuRD complex. The domain is usually found to the N terminus of a myb-like DNA binding domain pfam00249. ELM2 is also found associated with an ARID DNA binding domain pfam01388 in Swiss:O82364. This suggests that ELM2 may also be involved in DNA binding, or perhaps is a protein-protein interaction domain.


Pssm-ID: 460214  Cd Length: 53  Bit Score: 55.70  E-value: 3.08e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2462565917 199 IMVGPQFQADLSNLHLNRHCEKIYENEDQ-LLWDPS-VLPEREVEEFLYRAVK 249
Cdd:pfam01448   1 IRVGPRYQAEIPELLPPSEEEDRYEEEDElLVWDPNhNLPDRKLDEYLVVARS 53
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 303-347 6.21e-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: 48.73  E-value: 6.21e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2462565917 303 AWSEEECRNFEHGFRVHG-KNFHLIqANKVRTRSVGECVEYYYLWK 347
Cdd:cd00167     1 PWTEEEDELLLEAVKKYGkNNWEKI-AKELPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
303-349 3.14e-07

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 47.22  E-value: 3.14e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 2462565917  303 AWSEEECRNFEHGFRVHG-KNFHLIqANKVRTRSVGECVEYYYLWKKS 349
Cdd:smart00717   3 EWTEEEDELLIELVKKYGkNNWEKI-AKELPGRTAEQCRERWRNLLKP 49
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 303-347 6.82e-05

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: 40.18  E-value: 6.82e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462565917 303 AWSEEECRNFEHGFRVHGKNFHLIqANKVRTRSVGECVEYYYLWK 347
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLGNRWKKI-AKLLPGRTDNQCKNRWQNYL 46
hnRNP-L_PTB TIGR01649
hnRNP-L/PTB/hephaestus splicing factor family; Included in this family of heterogeneous ...
 355-459 3.36e-03

hnRNP-L/PTB/hephaestus splicing factor family; Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).


Pssm-ID: 273733 [Multi-domain]  Cd Length: 481  Bit Score: 40.18  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462565917 355 FAQQTRLGRRKDADQDLDGSDPDGPGRPRPEQDTLTGMRTDPLSVDGTAggldEPGVASDGLPSSEPGPCSFQQLDESPA 434
Cdd:TIGR01649 170 YAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPS----SYGHDGYSSHGGPLAPLAGGDRMGPPH 245

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2462565917 435 VPLSHRPPALADPA------SYQPAVTAPEP 459
Cdd:TIGR01649 246 GPPSRYRPAYEAAPlapaisSYGPAGGGPGS 276
 
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