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Conserved domains on  [gi|1443084764|ref|XP_025881900|]
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LOW QUALITY PROTEIN: probable transcriptional regulator SLK3 [Oryza sativa Japonica Group]

Protein Classification

LIM domain-binding protein( domain architecture ID 10485175)

LIM domain-binding protein binds to the LIM domain of LIM homeodomain proteins, which are transcriptional regulators of development; similar to Arabidopsis thaliana transcriptional corepressor SEUSS

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LIM_bind pfam01803
LIM-domain binding protein; The LIM-domain binding protein, binds to the LIM domain pfam00412 ...
 234-493 4.83e-69

LIM-domain binding protein; The LIM-domain binding protein, binds to the LIM domain pfam00412 of LIM homeodomain proteins which are transcriptional regulators of development. Nuclear LIM interactor (NLI) / LIM domain-binding protein 1 (LDB1) is located in the nuclei of neuronal cells during development, it is co-expressed with Isl1 in early motor neuron differentiation and has a suggested role in the Isl1 dependent development of motor neurons. It is suggested that these proteins act synergistically to enhance transcriptional efficiency by acting as co-factors for LIM homeodomain and Otx class transcription factors both of which have essential roles in development. The Drosophila protein Chip is required for segmentation and activity of a remote wing margin enhancer. Chip is a ubiquitous chromosomal factor required for normal expression of diverse genes at many stages of development. It is suggested that Chip cooperates with different LIM domain proteins and other factors to structurally support remote enhancer-promoter interactions.


:

Pssm-ID: 426444  Cd Length: 242  Bit Score: 227.93  E-value: 4.83e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 234 RLKQYLYHKRHR-PENNPITYWRKLIDEYFAPRARERWCVSSYEkrgnpsgavphtapdswrcdiCNTHGGKGYEATYEI 312
Cdd:pfam01803   1 RLLQFIEHLSNFsKNLNDIEYWQKFVAEFFSPTGVLRHSLKSYD---------------------CGGKEPKQFEITTPA 59

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 313 LPRLCQIRFDHGVIDEYLFLDMANEFRLPNGLMLLEHTKVVQKSIYEH-MHVIHEGQLRIIFTPELKIMSWEFCSRRHDE 391
Cdd:pfam01803  60 LPRYFVTLFDSGVKRIQLILDGAREQVLSNGSIFVECPKASFTYWYEDgSQVVLTGQLRALFDADLKIEWLEFCTRSHEE 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 392 YITRRFLSPQVAHLLQVAQKYQTVATESGPAGVSNSDAQNICNMFVTASRQLAKNIDHHTLNEHGLSKRYVRCLQISEVV 471
Cdd:pfam01803 140 YIPRNSLEKLLKQLHEWADLSQSPKMSKKVLQKQQIFQALSSKSPAPEPPEAIKELPSSFVNDFGIPEAVMRFLQIGEVM 219

                         250       260
                  ....*....|....*....|...
gi 1443084764 472 NHMKDLIEFSHKN-KLGPIEGLK 493
Cdd:pfam01803 220 SSMKDLMEFSKQNnILSPLEALE 242
 
Name Accession Description Interval E-value
LIM_bind pfam01803
LIM-domain binding protein; The LIM-domain binding protein, binds to the LIM domain pfam00412 ...
 234-493 4.83e-69

LIM-domain binding protein; The LIM-domain binding protein, binds to the LIM domain pfam00412 of LIM homeodomain proteins which are transcriptional regulators of development. Nuclear LIM interactor (NLI) / LIM domain-binding protein 1 (LDB1) is located in the nuclei of neuronal cells during development, it is co-expressed with Isl1 in early motor neuron differentiation and has a suggested role in the Isl1 dependent development of motor neurons. It is suggested that these proteins act synergistically to enhance transcriptional efficiency by acting as co-factors for LIM homeodomain and Otx class transcription factors both of which have essential roles in development. The Drosophila protein Chip is required for segmentation and activity of a remote wing margin enhancer. Chip is a ubiquitous chromosomal factor required for normal expression of diverse genes at many stages of development. It is suggested that Chip cooperates with different LIM domain proteins and other factors to structurally support remote enhancer-promoter interactions.


Pssm-ID: 426444  Cd Length: 242  Bit Score: 227.93  E-value: 4.83e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 234 RLKQYLYHKRHR-PENNPITYWRKLIDEYFAPRARERWCVSSYEkrgnpsgavphtapdswrcdiCNTHGGKGYEATYEI 312
Cdd:pfam01803   1 RLLQFIEHLSNFsKNLNDIEYWQKFVAEFFSPTGVLRHSLKSYD---------------------CGGKEPKQFEITTPA 59

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 313 LPRLCQIRFDHGVIDEYLFLDMANEFRLPNGLMLLEHTKVVQKSIYEH-MHVIHEGQLRIIFTPELKIMSWEFCSRRHDE 391
Cdd:pfam01803  60 LPRYFVTLFDSGVKRIQLILDGAREQVLSNGSIFVECPKASFTYWYEDgSQVVLTGQLRALFDADLKIEWLEFCTRSHEE 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 392 YITRRFLSPQVAHLLQVAQKYQTVATESGPAGVSNSDAQNICNMFVTASRQLAKNIDHHTLNEHGLSKRYVRCLQISEVV 471
Cdd:pfam01803 140 YIPRNSLEKLLKQLHEWADLSQSPKMSKKVLQKQQIFQALSSKSPAPEPPEAIKELPSSFVNDFGIPEAVMRFLQIGEVM 219

                         250       260
                  ....*....|....*....|...
gi 1443084764 472 NHMKDLIEFSHKN-KLGPIEGLK 493
Cdd:pfam01803 220 SSMKDLMEFSKQNnILSPLEALE 242
 
Name Accession Description Interval E-value
LIM_bind pfam01803
LIM-domain binding protein; The LIM-domain binding protein, binds to the LIM domain pfam00412 ...
 234-493 4.83e-69

LIM-domain binding protein; The LIM-domain binding protein, binds to the LIM domain pfam00412 of LIM homeodomain proteins which are transcriptional regulators of development. Nuclear LIM interactor (NLI) / LIM domain-binding protein 1 (LDB1) is located in the nuclei of neuronal cells during development, it is co-expressed with Isl1 in early motor neuron differentiation and has a suggested role in the Isl1 dependent development of motor neurons. It is suggested that these proteins act synergistically to enhance transcriptional efficiency by acting as co-factors for LIM homeodomain and Otx class transcription factors both of which have essential roles in development. The Drosophila protein Chip is required for segmentation and activity of a remote wing margin enhancer. Chip is a ubiquitous chromosomal factor required for normal expression of diverse genes at many stages of development. It is suggested that Chip cooperates with different LIM domain proteins and other factors to structurally support remote enhancer-promoter interactions.


Pssm-ID: 426444  Cd Length: 242  Bit Score: 227.93  E-value: 4.83e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 234 RLKQYLYHKRHR-PENNPITYWRKLIDEYFAPRARERWCVSSYEkrgnpsgavphtapdswrcdiCNTHGGKGYEATYEI 312
Cdd:pfam01803   1 RLLQFIEHLSNFsKNLNDIEYWQKFVAEFFSPTGVLRHSLKSYD---------------------CGGKEPKQFEITTPA 59

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 313 LPRLCQIRFDHGVIDEYLFLDMANEFRLPNGLMLLEHTKVVQKSIYEH-MHVIHEGQLRIIFTPELKIMSWEFCSRRHDE 391
Cdd:pfam01803  60 LPRYFVTLFDSGVKRIQLILDGAREQVLSNGSIFVECPKASFTYWYEDgSQVVLTGQLRALFDADLKIEWLEFCTRSHEE 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443084764 392 YITRRFLSPQVAHLLQVAQKYQTVATESGPAGVSNSDAQNICNMFVTASRQLAKNIDHHTLNEHGLSKRYVRCLQISEVV 471
Cdd:pfam01803 140 YIPRNSLEKLLKQLHEWADLSQSPKMSKKVLQKQQIFQALSSKSPAPEPPEAIKELPSSFVNDFGIPEAVMRFLQIGEVM 219

                         250       260
                  ....*....|....*....|...
gi 1443084764 472 NHMKDLIEFSHKN-KLGPIEGLK 493
Cdd:pfam01803 220 SSMKDLMEFSKQNnILSPLEALE 242
 
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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