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Conserved domains on  [gi|281306708|ref|NP_001162599|]
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visual system homeobox 2 [Rattus norvegicus]

Protein Classification

homeobox domain-containing protein( domain architecture ID 11079034)

homeobox domain-containing protein may be involved in the transcriptional regulation of key eukaryotic developmental processes; also contains an OAR domain

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
153-205 1.71e-25

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 97.19  E-value: 1.71e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 281306708  153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWRK 205
Cdd:pfam00046   5 TTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
OAR pfam03826
OAR motif; The entry represents the OAR motif.
 300-318 1.81e-03

OAR motif; The entry represents the OAR motif.


:

Pssm-ID: 461067  Cd Length: 19  Bit Score: 35.47  E-value: 1.81e-03
                          10
                  ....*....|....*....
gi 281306708  300 ELRENSIAALRAKAQEHST 318
Cdd:pfam03826   1 DRRSSSIASLRLKAKEHSA 19
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
153-205 1.71e-25

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 97.19  E-value: 1.71e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 281306708  153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWRK 205
Cdd:pfam00046   5 TTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 153-207 1.61e-20

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: 83.83  E-value: 1.61e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 281306708 153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWRKRE 207
Cdd:cd00086    5 TRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 153-204 2.41e-20

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: 83.45  E-value: 2.41e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 281306708   153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWR 204
Cdd:smart00389   6 TSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
156-218 2.39e-09

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 55.52  E-value: 2.39e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 281306708 156 TSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKwRKREKCWGRSSVMAE 218
Cdd:COG5576   59 TDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAK-EKKKRSGKVEQRPGE 120
OAR pfam03826
OAR motif; The entry represents the OAR motif.
 300-318 1.81e-03

OAR motif; The entry represents the OAR motif.


Pssm-ID: 461067  Cd Length: 19  Bit Score: 35.47  E-value: 1.81e-03
                          10
                  ....*....|....*....
gi 281306708  300 ELRENSIAALRAKAQEHST 318
Cdd:pfam03826   1 DRRSSSIASLRLKAKEHSA 19
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
153-205 1.71e-25

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 97.19  E-value: 1.71e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 281306708  153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWRK 205
Cdd:pfam00046   5 TTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 153-207 1.61e-20

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: 83.83  E-value: 1.61e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 281306708 153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWRKRE 207
Cdd:cd00086    5 TRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 153-204 2.41e-20

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: 83.45  E-value: 2.41e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 281306708   153 TIFTSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWR 204
Cdd:smart00389   6 TSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
156-218 2.39e-09

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 55.52  E-value: 2.39e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 281306708 156 TSYQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKwRKREKCWGRSSVMAE 218
Cdd:COG5576   59 TDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAK-EKKKRSGKVEQRPGE 120
OAR pfam03826
OAR motif; The entry represents the OAR motif.
 300-318 1.81e-03

OAR motif; The entry represents the OAR motif.


Pssm-ID: 461067  Cd Length: 19  Bit Score: 35.47  E-value: 1.81e-03
                          10
                  ....*....|....*....
gi 281306708  300 ELRENSIAALRAKAQEHST 318
Cdd:pfam03826   1 DRRSSSIASLRLKAKEHSA 19
 
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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