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Conserved domains on  [gi|1622839345|ref|XP_028683938|]
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visual system homeobox 1 isoform X5 [Macaca mulatta]

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;
165-213 5.62e-16

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 69.07  E-value: 5.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622839345 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRH 213
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKvwfqnrRAKW 55
COG5576 super family cl35021
Homeodomain-containing transcription factor [Transcription];
111-209 1.85e-03

Homeodomain-containing transcription factor [Transcription];


The actual alignment was detected with superfamily member COG5576:

Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 37.42  E-value: 1.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839345 111 PRGPEPAAPQAPSRQPPalgrQKRSESVSTSDEDSpYEDRNDLKASPTLGK-RKKRRHRTVFTAHQLEELEKAFSEAHYP 189
Cdd:COG5576     2 PVQPMQPLSALESQRMP----QIRTIKTTKNKREV-EAADSEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYP 76

                          90       100
                  ....*....|....*....|
gi 1622839345 190 DVYAREMLAVKTELPEDRIQ 209
Cdd:COG5576    77 SSITRIKLSLLLNMPPKSVQ 96
PRK14959 super family cl33044
DNA polymerase III subunits gamma and tau; Provisional
 47-146 7.32e-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: 36.97  E-value: 7.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839345  47 AGPGQGSGCEGPAA--APCLGPGLDHSSLARGALPLGLGLLCGFGTQQPTAARAPCLLLADVPFLPPRGPEPAAPQApsR 124
Cdd:PRK14959  378 ASAPSGSAAEGPASggAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAP--R 455

                          90       100
                  ....*....|....*....|..
gi 1622839345 125 QPPALGRQKRSESVSTSDEDSP 146
Cdd:PRK14959  456 MPEASPVPGAPDSVASASDAPP 477
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-213 5.62e-16

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 69.07  E-value: 5.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622839345 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRH 213
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKvwfqnrRAKW 55
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 164-214 2.79e-13

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: 62.27  E-value: 2.79e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839345  164 KRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRHW 214
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKvwfqnrRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 165-214 2.61e-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: 59.56  E-value: 2.61e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622839345 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRHW 214
Cdd:cd00086     1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKiwfqnrRAKLK 56
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
111-209 1.85e-03

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 37.42  E-value: 1.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839345 111 PRGPEPAAPQAPSRQPPalgrQKRSESVSTSDEDSpYEDRNDLKASPTLGK-RKKRRHRTVFTAHQLEELEKAFSEAHYP 189
Cdd:COG5576     2 PVQPMQPLSALESQRMP----QIRTIKTTKNKREV-EAADSEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYP 76

                          90       100
                  ....*....|....*....|
gi 1622839345 190 DVYAREMLAVKTELPEDRIQ 209
Cdd:COG5576    77 SSITRIKLSLLLNMPPKSVQ 96
PRK14959 PRK14959
DNA polymerase III subunits gamma and tau; Provisional
 47-146 7.32e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 36.97  E-value: 7.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839345  47 AGPGQGSGCEGPAA--APCLGPGLDHSSLARGALPLGLGLLCGFGTQQPTAARAPCLLLADVPFLPPRGPEPAAPQApsR 124
Cdd:PRK14959  378 ASAPSGSAAEGPASggAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAP--R 455

                          90       100
                  ....*....|....*....|..
gi 1622839345 125 QPPALGRQKRSESVSTSDEDSP 146
Cdd:PRK14959  456 MPEASPVPGAPDSVASASDAPP 477
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
165-213 5.62e-16

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 69.07  E-value: 5.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622839345 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRH 213
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKvwfqnrRAKW 55
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 164-214 2.79e-13

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: 62.27  E-value: 2.79e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1622839345  164 KRRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRHW 214
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKvwfqnrRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 165-214 2.61e-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: 59.56  E-value: 2.61e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622839345 165 RRHRTVFTAHQLEELEKAFSEAHYPDVYAREMLAVKTELPEDRIQ------RMRHW 214
Cdd:cd00086     1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKiwfqnrRAKLK 56
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
111-209 1.85e-03

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 37.42  E-value: 1.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839345 111 PRGPEPAAPQAPSRQPPalgrQKRSESVSTSDEDSpYEDRNDLKASPTLGK-RKKRRHRTVFTAHQLEELEKAFSEAHYP 189
Cdd:COG5576     2 PVQPMQPLSALESQRMP----QIRTIKTTKNKREV-EAADSEMKLERKQDGsSPPKSKRRRTTDEQLMVLEREFEINPYP 76

                          90       100
                  ....*....|....*....|
gi 1622839345 190 DVYAREMLAVKTELPEDRIQ 209
Cdd:COG5576    77 SSITRIKLSLLLNMPPKSVQ 96
PRK14959 PRK14959
DNA polymerase III subunits gamma and tau; Provisional
 47-146 7.32e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 36.97  E-value: 7.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622839345  47 AGPGQGSGCEGPAA--APCLGPGLDHSSLARGALPLGLGLLCGFGTQQPTAARAPCLLLADVPFLPPRGPEPAAPQApsR 124
Cdd:PRK14959  378 ASAPSGSAAEGPASggAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAPPRSGIPPRPAP--R 455

                          90       100
                  ....*....|....*....|..
gi 1622839345 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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