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Conserved domains on  [gi|238624171|ref|NP_001154841|]
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protein SSXT isoform 2 [Mus musculus]

Protein Classification

SS18 family protein( domain architecture ID 10523487)

SS18 family protein similar to human calcium-responsive transactivator (also called SS18-like protein 1) that is required for calcium-dependent dendritic growth and branching in cortical neurons

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SSXT pfam05030
SSXT protein (N-terminal region); The SSXT or SS18 protein is involved in synovial sarcoma in ...
 14-73 5.23e-29

SSXT protein (N-terminal region); The SSXT or SS18 protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteriztic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2.


:

Pssm-ID: 428268  Cd Length: 60  Bit Score: 106.97  E-value: 5.23e-29
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 238624171   14 GEITPAAIQKMLDENNHLIQCIMDYQNKGKASECSQYQQILHTNLVYLATIADSNQNMQS 73
Cdd:pfam05030   1 PPPNQEQIQKMLDENSQLIQCIQEYQNKGRAQECMQYQQILHRNLVYLATIADSNQNIQQ 60
PABP-1234 super family cl31127
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 163-283 5.68e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


The actual alignment was detected with superfamily member TIGR01628:

Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 42.10  E-value: 5.68e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238624171  163 YNHSVPSSQSMPVQNQMTMSQGQPMgnYGprpnmnmQPNQGPMMHQQPPSQQYNMPPGGAQHYQGQQAPMGLMGQVNQGS 242
Cdd:TIGR01628 375 FMQLQPRMRQLPMGSPMGGAMGQPP--YY-------GQGPQQQFNGQPLGWPRMSMMPTPMGPGGPLRPNGLAPMNAVRA 445

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 238624171  243 HMMGQRQMPPyrppqQGPPQQYSGQEDYYGDQYSHGGQGPP 283
Cdd:TIGR01628 446 PSRNAQNAAQ-----KPPMQPVMYPPNYQSLPLSQDLPQPQ 481
 
Name Accession Description Interval E-value
SSXT pfam05030
SSXT protein (N-terminal region); The SSXT or SS18 protein is involved in synovial sarcoma in ...
 14-73 5.23e-29

SSXT protein (N-terminal region); The SSXT or SS18 protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteriztic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2.


Pssm-ID: 428268  Cd Length: 60  Bit Score: 106.97  E-value: 5.23e-29
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 238624171   14 GEITPAAIQKMLDENNHLIQCIMDYQNKGKASECSQYQQILHTNLVYLATIADSNQNMQS 73
Cdd:pfam05030   1 PPPNQEQIQKMLDENSQLIQCIQEYQNKGRAQECMQYQQILHRNLVYLATIADSNQNIQQ 60
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 163-283 5.68e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 42.10  E-value: 5.68e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238624171  163 YNHSVPSSQSMPVQNQMTMSQGQPMgnYGprpnmnmQPNQGPMMHQQPPSQQYNMPPGGAQHYQGQQAPMGLMGQVNQGS 242
Cdd:TIGR01628 375 FMQLQPRMRQLPMGSPMGGAMGQPP--YY-------GQGPQQQFNGQPLGWPRMSMMPTPMGPGGPLRPNGLAPMNAVRA 445

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 238624171  243 HMMGQRQMPPyrppqQGPPQQYSGQEDYYGDQYSHGGQGPP 283
Cdd:TIGR01628 446 PSRNAQNAAQ-----KPPMQPVMYPPNYQSLPLSQDLPQPQ 481
 
Name Accession Description Interval E-value
SSXT pfam05030
SSXT protein (N-terminal region); The SSXT or SS18 protein is involved in synovial sarcoma in ...
 14-73 5.23e-29

SSXT protein (N-terminal region); The SSXT or SS18 protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteriztic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2.


Pssm-ID: 428268  Cd Length: 60  Bit Score: 106.97  E-value: 5.23e-29
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 238624171   14 GEITPAAIQKMLDENNHLIQCIMDYQNKGKASECSQYQQILHTNLVYLATIADSNQNMQS 73
Cdd:pfam05030   1 PPPNQEQIQKMLDENSQLIQCIQEYQNKGRAQECMQYQQILHRNLVYLATIADSNQNIQQ 60
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 163-283 5.68e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 42.10  E-value: 5.68e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238624171  163 YNHSVPSSQSMPVQNQMTMSQGQPMgnYGprpnmnmQPNQGPMMHQQPPSQQYNMPPGGAQHYQGQQAPMGLMGQVNQGS 242
Cdd:TIGR01628 375 FMQLQPRMRQLPMGSPMGGAMGQPP--YY-------GQGPQQQFNGQPLGWPRMSMMPTPMGPGGPLRPNGLAPMNAVRA 445

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 238624171  243 HMMGQRQMPPyrppqQGPPQQYSGQEDYYGDQYSHGGQGPP 283
Cdd:TIGR01628 446 PSRNAQNAAQ-----KPPMQPVMYPPNYQSLPLSQDLPQPQ 481
 
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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