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Conserved domains on  [gi|1622839339|ref|XP_028683936|]
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visual system homeobox 1 isoform X3 [Macaca mulatta]

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 5.80e-29

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 104.50  E-value: 5.80e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839339 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRK 221
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
PRK14959 super family cl33044
DNA polymerase III subunits gamma and tau; Provisional
 47-146 5.45e-03

DNA polymerase III subunits gamma and tau; Provisional


The actual alignment was detected with superfamily member PRK14959:

Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 38.12  E-value: 5.45e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839339  47 AGPGQGSGCEGPAA--APCLGPGLDHSSLARGALPLGLGLLCGFGTQQPTAARAPCLLLADVPFLPPRGPEPAAPQApsR 124
Cdd:PRK14959  378 ASAPSGSAAEGPASggAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAP--R 455

                          90       100
                  ....*....|....*....|..
gi 1622839339 125 QPPALGRQKRSESVSTSDEDSP 146
Cdd:PRK14959  456 MPEASPVPGAPDSVASASDAPP 477
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-221 5.80e-29

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 104.50  E-value: 5.80e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839339 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 1.01e-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: 90.77  E-value: 1.01e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839339  164 KRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWR 220
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 165-223 1.97e-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: 90.38  E-value: 1.97e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1622839339 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRKRE 223
Cdd:cd00086     1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
111-221 1.21e-12

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 64.38  E-value: 1.21e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839339 111 PRGPEPAAPQAPSRQPPalgrQKRSESVSTSDEDSpYEDRNDLKASPTLGK-RKKRRHRTVFTAHQLEELEKAFSEAHYP 189
Cdd:COG5576     2 PVQPMQPLSALESQRMP----QIRTIKTTKNKREV-EAADSEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYP 76

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1622839339 190 DVYAREMLAVKTELPEDRIQVWFQNRRAKWRK 221
Cdd:COG5576    77 SSITRIKLSLLLNMPPKSVQIWFQNKRAKEKK 108
PRK14959 PRK14959
DNA polymerase III subunits gamma and tau; Provisional
 47-146 5.45e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 38.12  E-value: 5.45e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839339  47 AGPGQGSGCEGPAA--APCLGPGLDHSSLARGALPLGLGLLCGFGTQQPTAARAPCLLLADVPFLPPRGPEPAAPQApsR 124
Cdd:PRK14959  378 ASAPSGSAAEGPASggAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAP--R 455

                          90       100
                  ....*....|....*....|..
gi 1622839339 125 QPPALGRQKRSESVSTSDEDSP 146
Cdd:PRK14959  456 MPEASPVPGAPDSVASASDAPP 477
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-221 5.80e-29

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 104.50  E-value: 5.80e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839339 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 1.01e-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: 90.77  E-value: 1.01e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839339  164 KRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWR 220
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 165-223 1.97e-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: 90.38  E-value: 1.97e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1622839339 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQVWFQNRRAKWRKRE 223
Cdd:cd00086     1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
111-221 1.21e-12

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 64.38  E-value: 1.21e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839339 111 PRGPEPAAPQAPSRQPPalgrQKRSESVSTSDEDSpYEDRNDLKASPTLGK-RKKRRHRTVFTAHQLEELEKAFSEAHYP 189
Cdd:COG5576     2 PVQPMQPLSALESQRMP----QIRTIKTTKNKREV-EAADSEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYP 76

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1622839339 190 DVYAREMLAVKTELPEDRIQVWFQNRRAKWRK 221
Cdd:COG5576    77 SSITRIKLSLLLNMPPKSVQIWFQNKRAKEKK 108
PRK14959 PRK14959
DNA polymerase III subunits gamma and tau; Provisional
 47-146 5.45e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 38.12  E-value: 5.45e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839339  47 AGPGQGSGCEGPAA--APCLGPGLDHSSLARGALPLGLGLLCGFGTQQPTAARAPCLLLADVPFLPPRGPEPAAPQApsR 124
Cdd:PRK14959  378 ASAPSGSAAEGPASggAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAP--R 455

                          90       100
                  ....*....|....*....|..
gi 1622839339 125 QPPALGRQKRSESVSTSDEDSP 146
Cdd:PRK14959  456 MPEASPVPGAPDSVASASDAPP 477
 
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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