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Conserved domains on  [gi|569006577|ref|XP_006526827|]
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pituitary homeobox 3 isoform X1 [Mus musculus]

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;
149-205 2.65e-30

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 110.28  E-value: 2.65e-30
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 569006577  149 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 205
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
OAR pfam03826
OAR motif; The entry represents the OAR motif.
 344-361 1.44e-05

OAR motif; The entry represents the OAR motif.


:

Pssm-ID: 461067  Cd Length: 19  Bit Score: 41.24  E-value: 1.44e-05
                          10
                  ....*....|....*...
gi 569006577  344 DPCNSSLASLRLKAKQHA 361
Cdd:pfam03826   1 DRRSSSIASLRLKAKEHS 18
PTZ00395 super family cl33180
Sec24-related protein; Provisional
 228-322 6.50e-05

Sec24-related protein; Provisional


The actual alignment was detected with superfamily member PTZ00395:

Pssm-ID: 185594 [Multi-domain]  Cd Length: 1560  Bit Score: 45.07  E-value: 6.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577  228 PPYEEV-YPGYSYGNwPPKALAPPLAAKTFPFAFNSVNVGPLASQPVFSPPSSIAASMVPSAAAAPGTVPGPGALQGLGG 306
Cdd:PTZ00395  452 PPYSNLpYSNTPYSN-APLSNAPPSSAKDHHSAYHAAYQHRAANQPAANLPTANQPAANNFHGAAGNSVGNPFASRPFGS 530

                          90
                  ....*....|....*.
gi 569006577  307 APPGLAPAAVSSGAVS 322
Cdd:PTZ00395  531 APYGGNAATTADPNGI 546
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
149-205 2.65e-30

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 110.28  E-value: 2.65e-30
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 569006577  149 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 205
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 149-207 5.93e-26

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: 98.85  E-value: 5.93e-26
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 569006577 149 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 207
Cdd:cd00086    1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 148-204 1.29e-25

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: 98.09  E-value: 1.29e-25
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 569006577   148 QRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWR 204
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
128-216 2.91e-12

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 63.99  E-value: 2.91e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577 128 EKASASLPGGSP-EDGSLKKKQRRQRThfTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 206
Cdd:COG5576   32 VEAADSEMKLERkQDGSSPPKSKRRRT--TDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKK 109

                         90
                 ....*....|
gi 569006577 207 ERSQQAELCK 216
Cdd:COG5576  110 RSGKVEQRPG 119
OAR pfam03826
OAR motif; The entry represents the OAR motif.
 344-361 1.44e-05

OAR motif; The entry represents the OAR motif.


Pssm-ID: 461067  Cd Length: 19  Bit Score: 41.24  E-value: 1.44e-05
                          10
                  ....*....|....*...
gi 569006577  344 DPCNSSLASLRLKAKQHA 361
Cdd:pfam03826   1 DRRSSSIASLRLKAKEHS 18
PTZ00395 PTZ00395
Sec24-related protein; Provisional
 228-322 6.50e-05

Sec24-related protein; Provisional


Pssm-ID: 185594 [Multi-domain]  Cd Length: 1560  Bit Score: 45.07  E-value: 6.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577  228 PPYEEV-YPGYSYGNwPPKALAPPLAAKTFPFAFNSVNVGPLASQPVFSPPSSIAASMVPSAAAAPGTVPGPGALQGLGG 306
Cdd:PTZ00395  452 PPYSNLpYSNTPYSN-APLSNAPPSSAKDHHSAYHAAYQHRAANQPAANLPTANQPAANNFHGAAGNSVGNPFASRPFGS 530

                          90
                  ....*....|....*.
gi 569006577  307 APPGLAPAAVSSGAVS 322
Cdd:PTZ00395  531 APYGGNAATTADPNGI 546
KREPA2 cd23959
Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of ...
 219-324 6.38e-03

Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of the parasitic protozoan's KREPA RNA editing catalytic complex (RECC). Kinetoplastid RNA editing (KRE) proteins occur as pairs or sets of related proteins in multiple complexes. KREPA complex is composed of six components (KREPA1-6), which share a conserved C-terminal region containing an oligonucleotide-binding (OB)-fold-like domain. KREPAs are responsible for the site-specific insertion and deletion of U nucleotides in the kinetoplastid mitochondria pre-messenger RNA. Apart from the conserved C-terminal OB-fold domain, KREPA1, KREPA2, and KREPA3 contain two conserved C2H2 zinc-finger domains. KREPA2 and kinetoplastid RNA editing ligase 1 (KREL1) are specific for ligation post-U-deletion and are paralogous to KREL2 and KREPA1 that are specific for ligation post-U-insertion. KREPA2, is critical for RECC stability and KREL1 integration into the complex.


Pssm-ID: 467780 [Multi-domain]  Cd Length: 424  Bit Score: 38.31  E-value: 6.38e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577 219 FAAPLGGLVPPYEEV-YPGYSYGNWPPKALAPPLAAKTF-------PFAFNSVNVGPLASqPVFSPPSSIAASMVPSAAA 290
Cdd:cd23959  139 KAEPQTAPVTPFGQLpMFGQHPPPAKPLPAAAAAQQSSAspgevasPFASGTVSASPFAT-ATDTAPSSGAPDGFPAEAS 217

                         90       100       110
                 ....*....|....*....|....*....|....
gi 569006577 291 APGTVpGPGALQGLGGAPPGLAPAAVSSGAVsCP 324
Cdd:cd23959  218 APSPF-AAPASAASFPAAPVANGEAATPTHA-CT 249
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
149-205 2.65e-30

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 110.28  E-value: 2.65e-30
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 569006577  149 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 205
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 149-207 5.93e-26

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: 98.85  E-value: 5.93e-26
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 569006577 149 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 207
Cdd:cd00086    1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 148-204 1.29e-25

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: 98.09  E-value: 1.29e-25
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 569006577   148 QRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWR 204
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
128-216 2.91e-12

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 63.99  E-value: 2.91e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577 128 EKASASLPGGSP-EDGSLKKKQRRQRThfTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 206
Cdd:COG5576   32 VEAADSEMKLERkQDGSSPPKSKRRRT--TDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKK 109

                         90
                 ....*....|
gi 569006577 207 ERSQQAELCK 216
Cdd:COG5576  110 RSGKVEQRPG 119
OAR pfam03826
OAR motif; The entry represents the OAR motif.
 344-361 1.44e-05

OAR motif; The entry represents the OAR motif.


Pssm-ID: 461067  Cd Length: 19  Bit Score: 41.24  E-value: 1.44e-05
                          10
                  ....*....|....*...
gi 569006577  344 DPCNSSLASLRLKAKQHA 361
Cdd:pfam03826   1 DRRSSSIASLRLKAKEHS 18
PTZ00395 PTZ00395
Sec24-related protein; Provisional
 228-322 6.50e-05

Sec24-related protein; Provisional


Pssm-ID: 185594 [Multi-domain]  Cd Length: 1560  Bit Score: 45.07  E-value: 6.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577  228 PPYEEV-YPGYSYGNwPPKALAPPLAAKTFPFAFNSVNVGPLASQPVFSPPSSIAASMVPSAAAAPGTVPGPGALQGLGG 306
Cdd:PTZ00395  452 PPYSNLpYSNTPYSN-APLSNAPPSSAKDHHSAYHAAYQHRAANQPAANLPTANQPAANNFHGAAGNSVGNPFASRPFGS 530

                          90
                  ....*....|....*.
gi 569006577  307 APPGLAPAAVSSGAVS 322
Cdd:PTZ00395  531 APYGGNAATTADPNGI 546
KREPA2 cd23959
Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of ...
 219-324 6.38e-03

Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of the parasitic protozoan's KREPA RNA editing catalytic complex (RECC). Kinetoplastid RNA editing (KRE) proteins occur as pairs or sets of related proteins in multiple complexes. KREPA complex is composed of six components (KREPA1-6), which share a conserved C-terminal region containing an oligonucleotide-binding (OB)-fold-like domain. KREPAs are responsible for the site-specific insertion and deletion of U nucleotides in the kinetoplastid mitochondria pre-messenger RNA. Apart from the conserved C-terminal OB-fold domain, KREPA1, KREPA2, and KREPA3 contain two conserved C2H2 zinc-finger domains. KREPA2 and kinetoplastid RNA editing ligase 1 (KREL1) are specific for ligation post-U-deletion and are paralogous to KREL2 and KREPA1 that are specific for ligation post-U-insertion. KREPA2, is critical for RECC stability and KREL1 integration into the complex.


Pssm-ID: 467780 [Multi-domain]  Cd Length: 424  Bit Score: 38.31  E-value: 6.38e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569006577 219 FAAPLGGLVPPYEEV-YPGYSYGNWPPKALAPPLAAKTF-------PFAFNSVNVGPLASqPVFSPPSSIAASMVPSAAA 290
Cdd:cd23959  139 KAEPQTAPVTPFGQLpMFGQHPPPAKPLPAAAAAQQSSAspgevasPFASGTVSASPFAT-ATDTAPSSGAPDGFPAEAS 217

                         90       100       110
                 ....*....|....*....|....*....|....
gi 569006577 291 APGTVpGPGALQGLGGAPPGLAPAAVSSGAVsCP 324
Cdd:cd23959  218 APSPF-AAPASAASFPAAPVANGEAATPTHA-CT 249
 
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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