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Conserved domains on  [gi|665402292|ref|NP_611491|]
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lateral muscles scarcer, isoform C [Drosophila melanogaster]

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;
87-143 3.37e-28

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 104.50  E-value: 3.37e-28
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292   87 KRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKR 143
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
Cnd2 super family cl19886
Condensin complex subunit 2; This family consists of several Barren protein homologs from ...
 33-106 3.78e-04

Condensin complex subunit 2; This family consists of several Barren protein homologs from several eukaryotic organizms. In Drosophila Barren (barr) is required for sister-chromatid segregation in mitosis. barr encodes a novel protein that is present in proliferating cells and has homologs in yeast and human. Mitotic defects in barr embryos become apparent during cycle 16, resulting in a loss of PNS and CNS neurons. Centromeres move apart at the metaphase-anaphase transition and Cyclin B is degraded, but sister chromatids remain connected, resulting in chromatin bridging. Barren protein localizes to chromatin throughout mitosis. Colocalization and biochemical experiments indicate that Barren associates with Topoisomerase II throughout mitosis and alters the activity of Topoisomerase II. It has been suggested that this association is required for proper chromosomal segregation by facilitating the decatenation of chromatids at anaphase. This family forms one of the three non-structural maintenance of chromosomes (SMC) subunits of the mitotic condensation complex along with Cnd1 and Cnd3.


The actual alignment was detected with superfamily member pfam05786:

Pssm-ID: 450400  Cd Length: 750  Bit Score: 42.40  E-value: 3.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 665402292   33 DSVQDESGR--GGncLGASRASSPATSSCLDDNMDDGKSDIDLASDDGNGLGDDRKKRPRTA-------FSAAQIKALET 103
Cdd:pfam05786 134 DSVATETGKllSG--LADSTLTKKKDNDGEDGSGEGDDEDEEGEGEDGNGAKKKKKKRQRSHeatlaknFESLNLKKLDL 211


                  ...
gi 665402292  104 EFE 106
Cdd:pfam05786 212 EFA 214
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
87-143 3.37e-28

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 104.50  E-value: 3.37e-28
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292   87 KRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKR 143
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 86-142 3.10e-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: 96.94  E-value: 3.10e-25
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292    86 KKRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWK 142
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 87-144 2.87e-24

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: 94.23  E-value: 2.87e-24
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 665402292  87 KRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKRK 144
Cdd:cd00086    1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
78-154 3.63e-11

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 60.91  E-value: 3.63e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292  78 GNGLGDDRKKRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKRKYTSDVETLAS 154
Cdd:COG5576   43 RKQDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGKVEQRPG 119
Cnd2 pfam05786
Condensin complex subunit 2; This family consists of several Barren protein homologs from ...
 33-106 3.78e-04

Condensin complex subunit 2; This family consists of several Barren protein homologs from several eukaryotic organizms. In Drosophila Barren (barr) is required for sister-chromatid segregation in mitosis. barr encodes a novel protein that is present in proliferating cells and has homologs in yeast and human. Mitotic defects in barr embryos become apparent during cycle 16, resulting in a loss of PNS and CNS neurons. Centromeres move apart at the metaphase-anaphase transition and Cyclin B is degraded, but sister chromatids remain connected, resulting in chromatin bridging. Barren protein localizes to chromatin throughout mitosis. Colocalization and biochemical experiments indicate that Barren associates with Topoisomerase II throughout mitosis and alters the activity of Topoisomerase II. It has been suggested that this association is required for proper chromosomal segregation by facilitating the decatenation of chromatids at anaphase. This family forms one of the three non-structural maintenance of chromosomes (SMC) subunits of the mitotic condensation complex along with Cnd1 and Cnd3.


Pssm-ID: 428627  Cd Length: 750  Bit Score: 42.40  E-value: 3.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 665402292   33 DSVQDESGR--GGncLGASRASSPATSSCLDDNMDDGKSDIDLASDDGNGLGDDRKKRPRTA-------FSAAQIKALET 103
Cdd:pfam05786 134 DSVATETGKllSG--LADSTLTKKKDNDGEDGSGEGDDEDEEGEGEDGNGAKKKKKKRQRSHeatlaknFESLNLKKLDL 211


                  ...
gi 665402292  104 EFE 106
Cdd:pfam05786 212 EFA 214
 
Name Accession Description Interval E-value
Homeodomain pfam00046
Homeodomain;
87-143 3.37e-28

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 104.50  E-value: 3.37e-28
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292   87 KRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKR 143
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 86-142 3.10e-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: 96.94  E-value: 3.10e-25
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292    86 KKRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWK 142
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 87-144 2.87e-24

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: 94.23  E-value: 2.87e-24
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 665402292  87 KRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKRK 144
Cdd:cd00086    1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
78-154 3.63e-11

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 60.91  E-value: 3.63e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 665402292  78 GNGLGDDRKKRPRTAFSAAQIKALETEFERGKYLSVAKRTALAKQLQLTETQIKIWFQNRRTKWKRKYTSDVETLAS 154
Cdd:COG5576   43 RKQDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGKVEQRPG 119
Cnd2 pfam05786
Condensin complex subunit 2; This family consists of several Barren protein homologs from ...
 33-106 3.78e-04

Condensin complex subunit 2; This family consists of several Barren protein homologs from several eukaryotic organizms. In Drosophila Barren (barr) is required for sister-chromatid segregation in mitosis. barr encodes a novel protein that is present in proliferating cells and has homologs in yeast and human. Mitotic defects in barr embryos become apparent during cycle 16, resulting in a loss of PNS and CNS neurons. Centromeres move apart at the metaphase-anaphase transition and Cyclin B is degraded, but sister chromatids remain connected, resulting in chromatin bridging. Barren protein localizes to chromatin throughout mitosis. Colocalization and biochemical experiments indicate that Barren associates with Topoisomerase II throughout mitosis and alters the activity of Topoisomerase II. It has been suggested that this association is required for proper chromosomal segregation by facilitating the decatenation of chromatids at anaphase. This family forms one of the three non-structural maintenance of chromosomes (SMC) subunits of the mitotic condensation complex along with Cnd1 and Cnd3.


Pssm-ID: 428627  Cd Length: 750  Bit Score: 42.40  E-value: 3.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 665402292   33 DSVQDESGR--GGncLGASRASSPATSSCLDDNMDDGKSDIDLASDDGNGLGDDRKKRPRTA-------FSAAQIKALET 103
Cdd:pfam05786 134 DSVATETGKllSG--LADSTLTKKKDNDGEDGSGEGDDEDEEGEGEDGNGAKKKKKKRQRSHeatlaknFESLNLKKLDL 211


                  ...
gi 665402292  104 EFE 106
Cdd:pfam05786 212 EFA 214
 
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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