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Conserved domains on  [gi|335304550|ref|XP_003359967|]
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visual system homeobox 1 [Sus scrofa]

Protein Classification

homeobox domain-containing protein( domain architecture ID 10441114)

homeobox domain-containing protein may be involved in the transcriptional regulation of key eukaryotic developmental processes

CATH:  1.10.10.60
Gene Ontology:  GO:0003677
PubMed:  21557080|26464018|27768937|1357790
SCOP:  4000291

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-221 6.30e-29

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 106.43  E-value: 6.30e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 335304550  165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRK 221
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-221 6.30e-29

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 106.43  E-value: 6.30e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 335304550  165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRK 221
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 164-220 1.29e-23

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: 92.31  E-value: 1.29e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 335304550   164 KRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWR 220
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 165-223 2.01e-23

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: 91.92  E-value: 2.01e-23
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 335304550 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRKRE 223
Cdd:cd00086    1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
121-221 1.90e-13

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 67.46  E-value: 1.90e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 335304550 121 VLGRSPPTSIRQKRSESVSTSEEDSLPEDrSDLKLPPTPGK-RKKRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAV 199
Cdd:COG5576    8 PLSALESQRMPQIRTIKTTKNKREVEAAD-SEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSL 86

                         90       100
                 ....*....|....*....|..
gi 335304550 200 KTELPEDRIQVWFQNRRAKWRK 221
Cdd:COG5576   87 LLNMPPKSVQIWFQNKRAKEKK 108
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-221 6.30e-29

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 106.43  E-value: 6.30e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 335304550  165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRK 221
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 164-220 1.29e-23

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: 92.31  E-value: 1.29e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 335304550   164 KRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWR 220
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 165-223 2.01e-23

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: 91.92  E-value: 2.01e-23
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 335304550 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRKRE 223
Cdd:cd00086    1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
121-221 1.90e-13

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 67.46  E-value: 1.90e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 335304550 121 VLGRSPPTSIRQKRSESVSTSEEDSLPEDrSDLKLPPTPGK-RKKRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAV 199
Cdd:COG5576    8 PLSALESQRMPQIRTIKTTKNKREVEAAD-SEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSL 86

                         90       100
                 ....*....|....*....|..
gi 335304550 200 KTELPEDRIQVWFQNRRAKWRK 221
Cdd:COG5576   87 LLNMPPKSVQIWFQNKRAKEKK 108
 
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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