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Conserved domains on  [gi|18858681|ref|NP_571130|]
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homeobox protein notochord [Danio rerio]

Protein Classification

homeobox domain-containing protein( domain architecture ID 13432619)

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

CATH:  1.10.10.60
Gene Ontology:  GO:0003700|GO:0003677|GO:0030154|GO:0000978|GO:0006357
PubMed:  8768896|11470884|26464018|1357790|27768937|1980756
SCOP:  4000291

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
135-191 1.69e-24

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 92.18  E-value: 1.69e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18858681   135 KRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWRK 191
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
COG5576 super family cl35021
Homeodomain-containing transcription factor [Transcription];
79-193 3.96e-09

Homeodomain-containing transcription factor [Transcription];


The actual alignment was detected with superfamily member COG5576:

Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 53.98  E-value: 3.96e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858681  79 HFAYSQSIMQTQTGYPvfcyppynfqTTCRGAVYAQDAVLAKAAvhSHYKHKSGKSKRMRTsfTNDQLSRLEKEFARQQY 158
Cdd:COG5576  10 SALESQRMPQIRTIKT----------TKNKREVEAADSEMKLER--KQDGSSPPKSKRRRT--TDEQLMVLEREFEINPY 75

                        90       100       110
                ....*....|....*....|....*....|....*
gi 18858681 159 MVGSERFLLASALQLTEAQVKVWFQNRRIKWRKQS 193
Cdd:COG5576  76 PSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKR 110
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
135-191 1.69e-24

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 92.18  E-value: 1.69e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18858681   135 KRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWRK 191
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 134-190 9.37e-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: 79.60  E-value: 9.37e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 18858681    134 SKRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWR 190
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 135-193 5.26e-19

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: 77.67  E-value: 5.26e-19
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 18858681 135 KRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWRKQS 193
Cdd:cd00086   1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
79-193 3.96e-09

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 53.98  E-value: 3.96e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858681  79 HFAYSQSIMQTQTGYPvfcyppynfqTTCRGAVYAQDAVLAKAAvhSHYKHKSGKSKRMRTsfTNDQLSRLEKEFARQQY 158
Cdd:COG5576  10 SALESQRMPQIRTIKT----------TKNKREVEAADSEMKLER--KQDGSSPPKSKRRRT--TDEQLMVLEREFEINPY 75

                        90       100       110
                ....*....|....*....|....*....|....*
gi 18858681 159 MVGSERFLLASALQLTEAQVKVWFQNRRIKWRKQS 193
Cdd:COG5576  76 PSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKR 110
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
135-191 1.69e-24

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 92.18  E-value: 1.69e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18858681   135 KRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWRK 191
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 134-190 9.37e-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: 79.60  E-value: 9.37e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 18858681    134 SKRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWR 190
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 135-193 5.26e-19

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: 77.67  E-value: 5.26e-19
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 18858681 135 KRMRTSFTNDQLSRLEKEFARQQYMVGSERFLLASALQLTEAQVKVWFQNRRIKWRKQS 193
Cdd:cd00086   1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
79-193 3.96e-09

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 53.98  E-value: 3.96e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858681  79 HFAYSQSIMQTQTGYPvfcyppynfqTTCRGAVYAQDAVLAKAAvhSHYKHKSGKSKRMRTsfTNDQLSRLEKEFARQQY 158
Cdd:COG5576  10 SALESQRMPQIRTIKT----------TKNKREVEAADSEMKLER--KQDGSSPPKSKRRRT--TDEQLMVLEREFEINPY 75

                        90       100       110
                ....*....|....*....|....*....|....*
gi 18858681 159 MVGSERFLLASALQLTEAQVKVWFQNRRIKWRKQS 193
Cdd:COG5576  76 PSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKR 110
 
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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