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Conserved domains on  [gi|13027452|ref|NP_076480|]
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homeobox protein SIX3 [Rattus norvegicus]

Protein Classification

sine oculis homeobox family protein( domain architecture ID 11245836)

sine oculis homeobox (SIX) family protein acts as a transcription factor which plays pivotal developmental roles in cell populations that give rise to the head, retina, ear, nose, brain, kidney, muscle and gonads

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SIX1_SD pfam16878
Transcriptional regulator, SIX1, N-terminal SD domain; SIX1_SD is a family of eukaryotic ...
 92-205 7.18e-70

Transcriptional regulator, SIX1, N-terminal SD domain; SIX1_SD is a family of eukaryotic proteins, and it is found N-terminal to the Homeobox domain. As a transcription factor it lacks intrinsic activation domains and thus needs to bind to the EYA family of co-factors in order to mediate transcriptional activation. It is the SD domain that is necessary for this protein-protein interaction, binding to the C-terminal region of EYA - Eyes absent homolog proteins.


:

Pssm-ID: 465293  Cd Length: 110  Bit Score: 213.17  E-value: 7.18e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13027452    92 FSPEQVASVCETLEETGDIERLGRFLWSLPvapgACEAINKHESILRARAVVAFHTGNFRDLYHILENHKFTKESHGKLQ 171
Cdd:pfam16878   1 FSLEQVACICEALQQAGDIERLARFLWSLP----SYELLRNNESVLKARALVAFHRGNFKELYQLLESHPFSPSNHPELQ 76

                          90       100       110
                  ....*....|....*....|....*....|....
gi 13027452   172 AMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLP 205
Cdd:pfam16878  77 ELWYEAHYKEAEKLRGRPLGAVDKYRLRKKFPLP 110
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 213-261 3.49e-12

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


:

Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 60.72  E-value: 3.49e-12
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 13027452 213 QKTHCFKERTRSLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKN 261
Cdd:cd00086   2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQN 50
 
Name Accession Description Interval E-value
SIX1_SD pfam16878
Transcriptional regulator, SIX1, N-terminal SD domain; SIX1_SD is a family of eukaryotic ...
 92-205 7.18e-70

Transcriptional regulator, SIX1, N-terminal SD domain; SIX1_SD is a family of eukaryotic proteins, and it is found N-terminal to the Homeobox domain. As a transcription factor it lacks intrinsic activation domains and thus needs to bind to the EYA family of co-factors in order to mediate transcriptional activation. It is the SD domain that is necessary for this protein-protein interaction, binding to the C-terminal region of EYA - Eyes absent homolog proteins.


Pssm-ID: 465293  Cd Length: 110  Bit Score: 213.17  E-value: 7.18e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13027452    92 FSPEQVASVCETLEETGDIERLGRFLWSLPvapgACEAINKHESILRARAVVAFHTGNFRDLYHILENHKFTKESHGKLQ 171
Cdd:pfam16878   1 FSLEQVACICEALQQAGDIERLARFLWSLP----SYELLRNNESVLKARALVAFHRGNFKELYQLLESHPFSPSNHPELQ 76

                          90       100       110
                  ....*....|....*....|....*....|....
gi 13027452   172 AMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLP 205
Cdd:pfam16878  77 ELWYEAHYKEAEKLRGRPLGAVDKYRLRKKFPLP 110
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 213-261 3.49e-12

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 60.72  E-value: 3.49e-12
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 13027452 213 QKTHCFKERTRSLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKN 261
Cdd:cd00086   2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQN 50
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 205-262 2.22e-10

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 55.72  E-value: 2.22e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 13027452    205 PRTIWDGEQkthcfkertRSLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKNR 262
Cdd:smart00389   4 KRTSFTPEQ---------LEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNR 52
Homeobox_KN pfam05920
Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to ...
 231-261 3.35e-09

Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to human and plants. They were first identified as TALE homeobox genes in eukaryotes, (including KNOX and MEIS genes). They have been recently classified.


Pssm-ID: 428673  Cd Length: 39  Bit Score: 51.75  E-value: 3.35e-09
                          10        20        30
                  ....*....|....*....|....*....|.
gi 13027452   231 LQDPYPNPSKKRELAQATGLTPTQVGNWFKN 261
Cdd:pfam05920   5 LHNPYPSEEEKAELAKETGLSRKQISNWFIN 35
 
Name Accession Description Interval E-value
SIX1_SD pfam16878
Transcriptional regulator, SIX1, N-terminal SD domain; SIX1_SD is a family of eukaryotic ...
 92-205 7.18e-70

Transcriptional regulator, SIX1, N-terminal SD domain; SIX1_SD is a family of eukaryotic proteins, and it is found N-terminal to the Homeobox domain. As a transcription factor it lacks intrinsic activation domains and thus needs to bind to the EYA family of co-factors in order to mediate transcriptional activation. It is the SD domain that is necessary for this protein-protein interaction, binding to the C-terminal region of EYA - Eyes absent homolog proteins.


Pssm-ID: 465293  Cd Length: 110  Bit Score: 213.17  E-value: 7.18e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13027452    92 FSPEQVASVCETLEETGDIERLGRFLWSLPvapgACEAINKHESILRARAVVAFHTGNFRDLYHILENHKFTKESHGKLQ 171
Cdd:pfam16878   1 FSLEQVACICEALQQAGDIERLARFLWSLP----SYELLRNNESVLKARALVAFHRGNFKELYQLLESHPFSPSNHPELQ 76

                          90       100       110
                  ....*....|....*....|....*....|....
gi 13027452   172 AMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLP 205
Cdd:pfam16878  77 ELWYEAHYKEAEKLRGRPLGAVDKYRLRKKFPLP 110
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 213-261 3.49e-12

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 60.72  E-value: 3.49e-12
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 13027452 213 QKTHCFKERTRSLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKN 261
Cdd:cd00086   2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQN 50
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 205-262 2.22e-10

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 55.72  E-value: 2.22e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 13027452    205 PRTIWDGEQkthcfkertRSLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKNR 262
Cdd:smart00389   4 KRTSFTPEQ---------LEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNR 52
Homeobox_KN pfam05920
Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to ...
 231-261 3.35e-09

Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to human and plants. They were first identified as TALE homeobox genes in eukaryotes, (including KNOX and MEIS genes). They have been recently classified.


Pssm-ID: 428673  Cd Length: 39  Bit Score: 51.75  E-value: 3.35e-09
                          10        20        30
                  ....*....|....*....|....*....|.
gi 13027452   231 LQDPYPNPSKKRELAQATGLTPTQVGNWFKN 261
Cdd:pfam05920   5 LHNPYPSEEEKAELAKETGLSRKQISNWFIN 35
Homeodomain pfam00046
Homeodomain;
205-262 3.49e-07

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 46.34  E-value: 3.49e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 13027452   205 PRTIWDGEQkthcfkerTRSLLREwYLQDPYPNPSKKRELAQATGLTPTQVGNWFKNR 262
Cdd:pfam00046   3 KRTTFTPEQ--------LEELEKE-FQENPYPSAEEREELAAQLGLTERQVKVWFQNR 51
 
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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