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Conserved domains on  [gi|181342129|ref|NP_001116762|]
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uncharacterized protein LOC568385 [Danio rerio]

Protein Classification

myb/SANT-like DNA-binding domain-containing protein( domain architecture ID 10619758)

nyb/SANT (SWI3, ADA2, N-CoR and TFIIIB)-like DNA-binding domain-containing protein may bind DNA and function as a transcription factor

CATH:  1.20.58.1880
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  8882580
SCOP:  4000317

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Myb_DNA-bind_4 pfam13837
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb ...
 58-122 7.46e-06

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


:

Pssm-ID: 463994  Cd Length: 84  Bit Score: 43.79  E-value: 7.46e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 181342129   58 DALFTGKRNSSTLAYRAI---LKELGLQReiSASQARRKWENLKMKYKEMKNpppGVSVNPTNWPWFS 122
Cdd:pfam13837  21 ELRFQESKKRNKKLWEEIaekMAELGYNR--SPEQCKEKWENLKKKYRKEKE---GNNGSGSSWPFFE 83
EnvC super family cl34844
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 203-293 9.29e-05

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


The actual alignment was detected with superfamily member COG4942:

Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 43.98  E-value: 9.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 203 RAILESDKAAIEYERMVLERekmvLDRERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQLEKDRAILDRERAK 282
Cdd:COG4942  142 KYLAPARREQAEELRADLAE----LAALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAE 217

                         90
                 ....*....|.
gi 181342129 283 LERERAILDQQ 293
Cdd:COG4942  218 LQQEAEELEAL 228
 
Name Accession Description Interval E-value
Myb_DNA-bind_4 pfam13837
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb ...
 58-122 7.46e-06

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


Pssm-ID: 463994  Cd Length: 84  Bit Score: 43.79  E-value: 7.46e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 181342129   58 DALFTGKRNSSTLAYRAI---LKELGLQReiSASQARRKWENLKMKYKEMKNpppGVSVNPTNWPWFS 122
Cdd:pfam13837  21 ELRFQESKKRNKKLWEEIaekMAELGYNR--SPEQCKEKWENLKKKYRKEKE---GNNGSGSSWPFFE 83
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 203-293 9.29e-05

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 43.98  E-value: 9.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 203 RAILESDKAAIEYERMVLERekmvLDRERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQLEKDRAILDRERAK 282
Cdd:COG4942  142 KYLAPARREQAEELRADLAE----LAALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAE 217

                         90
                 ....*....|.
gi 181342129 283 LERERAILDQQ 293
Cdd:COG4942  218 LQQEAEELEAL 228
SPFH_like_u3 cd03406
Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; This ...
 198-289 2.53e-03

Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; This model summarizes an uncharacterized family of proteins similar to stomatin, prohibitin, flotillin, HflK/C (SPFH) and podocin. The conserved domain common to the SPFH superfamily has also been referred to as the Band 7 domain. Many superfamily members are associated with lipid rafts. Individual proteins of the SPFH superfamily may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic HflK/C plays a role in the decision between lysogenic and lytic cycle growth during lambda phage infection. Flotillins have been implicated in the progression of prion disease, in the pathogenesis of neurodegenerative diseases such as Parkinson's and Alzheimer's disease and, in cancer invasion and metastasis. Mutations in the podocin gene give rise to autosomal recessive steroid resistant nephritic syndrome.


Pssm-ID: 259804 [Multi-domain]  Cd Length: 293  Bit Score: 39.20  E-value: 2.53e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 198 EMEHERAILESDKAA----IEYERMVLEREKmvlDRERAGVErelaaldrDRASLEREKAaverdRASVEYIRAQLEKD- 272
Cdd:cd03406  193 ETERKRAVIEAEKDAevakIQMQQKIMEKEA---EKKISEIE--------DEMHLAREKA-----RADAEYYRALREAEa 256

                         90
                 ....*....|....*...
gi 181342129 273 -RAILDRERAKLERERAI 289
Cdd:cd03406  257 nKLKLTPEYLELKKYQAI 274
valS PRK14900
valyl-tRNA synthetase; Provisional
 227-317 2.99e-03

valyl-tRNA synthetase; Provisional


Pssm-ID: 237855 [Multi-domain]  Cd Length: 1052  Bit Score: 39.59  E-value: 2.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129  227 LDRERAGVERELAALDRDRASLERE-----------KAAVERDRASVEYIRaqlekdraildRERAKLERERAILDQQRG 295
Cdd:PRK14900  840 LAAETARVDKEIGKVDQDLAVLERKlqnpsfvqnapPAVVEKDRARAEELR-----------EKRGKLEAHRAMLSGSEA 908

                          90       100
                  ....*....|....*....|...
gi 181342129  296 IEKSEQTV-NLNDNSEGTDTSIP 317
Cdd:PRK14900  909 NSARRDTMeIQNEQKPTQDGPAA 931
GT1 cd12203
GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription ...
 45-105 9.97e-03

GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcription pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resembles the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 213402  Cd Length: 66  Bit Score: 34.18  E-value: 9.97e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 181342129  45 EEFVRFVKLRVTNDALFTGKRNSSTLaYRAI---LKELGLQReiSASQARRKWENLKMKYKEMK 105
Cdd:cd12203    6 EETLSLIRLRREMESRFQETKSKKAL-WEEIaakMRELGYNR--SAKQCKEKWENLNKYYKKVK 66
 
Name Accession Description Interval E-value
Myb_DNA-bind_4 pfam13837
Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb ...
 58-122 7.46e-06

Myb/SANT-like DNA-binding domain; This presumed domain appears to be related to other Myb/SANT-like DNA binding domains. In particular pfam10545 seems most related. This family is greatly expanded in plants and appears in several proteins annotated as transposon proteins.


Pssm-ID: 463994  Cd Length: 84  Bit Score: 43.79  E-value: 7.46e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 181342129   58 DALFTGKRNSSTLAYRAI---LKELGLQReiSASQARRKWENLKMKYKEMKNpppGVSVNPTNWPWFS 122
Cdd:pfam13837  21 ELRFQESKKRNKKLWEEIaekMAELGYNR--SPEQCKEKWENLKKKYRKEKE---GNNGSGSSWPFFE 83
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 203-293 9.29e-05

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 43.98  E-value: 9.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 203 RAILESDKAAIEYERMVLERekmvLDRERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQLEKDRAILDRERAK 282
Cdd:COG4942  142 KYLAPARREQAEELRADLAE----LAALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAE 217

                         90
                 ....*....|.
gi 181342129 283 LERERAILDQQ 293
Cdd:COG4942  218 LQQEAEELEAL 228
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
198-293 7.57e-04

Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 41.44  E-value: 7.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129  198 EMEHERAILESDKAAIEYERMVLEREkmVLDRERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQ--------L 269
Cdd:COG4913   266 AARERLAELEYLRAALRLWFAQRRLE--LLEAELEELRAELARLEAELERLEARLDALREELDELEAQIRGnggdrleqL 343

                          90       100
                  ....*....|....*....|....
gi 181342129  270 EKDRAILDRERAKLERERAILDQQ 293
Cdd:COG4913   344 EREIERLERELEERERRRARLEAL 367
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 162-302 1.09e-03

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 41.08  E-value: 1.09e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 162 RAREPDRSEIELFVEEDDIMSEEMGRDRGDLDRDRDEMEHERAILESDKAAIEYERMVLEREKMVLDRERAGVERELAAL 241
Cdd:COG1196  263 AELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEEL 342

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 181342129 242 DRDRASLEREKAAVERDRASVEYIRAQLEKDRAILDRERAKLERERAILDQQRGIEKSEQT 302
Cdd:COG1196  343 EEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLE 403
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 206-288 1.48e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 40.13  E-value: 1.48e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 206 LESDKAAIEYERMVLEREKMVLDRERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQLEKDRAILDRERAKLER 285
Cdd:COG4942  155 LRADLAELAALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAELQQEAEELEALIARLEA 234


                 ...
gi 181342129 286 ERA 288
Cdd:COG4942  235 EAA 237
SPFH_like_u3 cd03406
Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; This ...
 198-289 2.53e-03

Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; This model summarizes an uncharacterized family of proteins similar to stomatin, prohibitin, flotillin, HflK/C (SPFH) and podocin. The conserved domain common to the SPFH superfamily has also been referred to as the Band 7 domain. Many superfamily members are associated with lipid rafts. Individual proteins of the SPFH superfamily may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic HflK/C plays a role in the decision between lysogenic and lytic cycle growth during lambda phage infection. Flotillins have been implicated in the progression of prion disease, in the pathogenesis of neurodegenerative diseases such as Parkinson's and Alzheimer's disease and, in cancer invasion and metastasis. Mutations in the podocin gene give rise to autosomal recessive steroid resistant nephritic syndrome.


Pssm-ID: 259804 [Multi-domain]  Cd Length: 293  Bit Score: 39.20  E-value: 2.53e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 198 EMEHERAILESDKAA----IEYERMVLEREKmvlDRERAGVErelaaldrDRASLEREKAaverdRASVEYIRAQLEKD- 272
Cdd:cd03406  193 ETERKRAVIEAEKDAevakIQMQQKIMEKEA---EKKISEIE--------DEMHLAREKA-----RADAEYYRALREAEa 256

                         90
                 ....*....|....*...
gi 181342129 273 -RAILDRERAKLERERAI 289
Cdd:cd03406  257 nKLKLTPEYLELKKYQAI 274
valS PRK14900
valyl-tRNA synthetase; Provisional
 227-317 2.99e-03

valyl-tRNA synthetase; Provisional


Pssm-ID: 237855 [Multi-domain]  Cd Length: 1052  Bit Score: 39.59  E-value: 2.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129  227 LDRERAGVERELAALDRDRASLERE-----------KAAVERDRASVEYIRaqlekdraildRERAKLERERAILDQQRG 295
Cdd:PRK14900  840 LAAETARVDKEIGKVDQDLAVLERKlqnpsfvqnapPAVVEKDRARAEELR-----------EKRGKLEAHRAMLSGSEA 908

                          90       100
                  ....*....|....*....|...
gi 181342129  296 IEKSEQTV-NLNDNSEGTDTSIP 317
Cdd:PRK14900  909 NSARRDTMeIQNEQKPTQDGPAA 931
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 211-300 3.98e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 38.59  E-value: 3.98e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 211 AAIEYERMVLEREKMVLDRERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQLEKDRAILDRERAKLERERAIL 290
Cdd:COG4942   16 AAQADAAAEAEAELEQLQQEIAELEKELAALKKEEKALLKQLAALERRIAALARRIRALEQELAALEAELAELEKEIAEL 95

                         90
                 ....*....|
gi 181342129 291 DQQRGIEKSE 300
Cdd:COG4942   96 RAELEAQKEE 105
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 167-301 4.66e-03

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 38.76  E-value: 4.66e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129 167 DRSEIELFVEEDDIMSEEMGRDRGDLDRDRDEMEHERAILESDKAAIEYERMVLEREKMVLDRERAgverELAALDRDRA 246
Cdd:COG1196  223 KELEAELLLLKLRELEAELEELEAELEELEAELEELEAELAELEAELEELRLELEELELELEEAQA----EEYELLAELA 298

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 181342129 247 SLEREKAAVERDRASVEYIRAQLEKDRAILDRERAKLERERAILDQQRGIEKSEQ 301
Cdd:COG1196  299 RLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEEAEEEL 353
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
198-294 5.56e-03

Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 38.74  E-value: 5.56e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 181342129  198 EMEHERAILESDKAAIEYERMVLEREKMVLDR--ERAGVERELAALDRDRASLEREKAAVERDRASVEYIRAQLE---KD 272
Cdd:COG4913   621 ELEEELAEAEERLEALEAELDALQERREALQRlaEYSWDEIDVASAEREIAELEAELERLDASSDDLAALEEQLEeleAE 700

                          90       100
                  ....*....|....*....|..
gi 181342129  273 RAILDRERAKLERERAILDQQR 294
Cdd:COG4913   701 LEELEEELDELKGEIGRLEKEL 722
GT1 cd12203
GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription ...
 45-105 9.97e-03

GT1, myb-like, SANT family; GT-1, a myb-like protein, is one of the GT trihelix transcription factors. GT-1 binds the GT cis-element of rbcS-3A, a light-induced gene, as a dimer. Arabidopsis GT-1 is a trans-activator and acts in the stabilization of components of the transcription pre-initiation complex comprised of TFIIA-TBP-TATA. The isolated GT-1 DNA-binding domain is sufficient to bind DNA. This region closely resembles the myb domain, but with longer helices. It has been proposed that GT-1 may respond to light signals via calcium-dependent phosphorylation to create a light-modulated molecular switch. These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 213402  Cd Length: 66  Bit Score: 34.18  E-value: 9.97e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 181342129  45 EEFVRFVKLRVTNDALFTGKRNSSTLaYRAI---LKELGLQReiSASQARRKWENLKMKYKEMK 105
Cdd:cd12203    6 EETLSLIRLRREMESRFQETKSKKAL-WEEIaakMRELGYNR--SAKQCKEKWENLNKYYKKVK 66
 
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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