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Conserved domains on  [gi|1476411789|ref|NP_001352779|]
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protein SOGA3a [Danio rerio]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF4482 super family cl20732
Domain of unknown function (DUF4482); This family is found in eukaryotes, and is approximately ...
 201-254 1.66e-14

Domain of unknown function (DUF4482); This family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with pfam11365.


The actual alignment was detected with superfamily member pfam14818:

Pssm-ID: 464333 [Multi-domain]  Cd Length: 138  Bit Score: 71.26  E-value: 1.66e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1476411789 201 MDLRCRLENSERGWMKEKSELLERFESERKEWENQLMDMQRKIEELYSEVKAHR 254
Cdd:pfam14818   1 MDLRWQLQHTEKNWHREKMELLDRFDRERQEWESQKKIMQKKIEQLQREVSLRR 54
SMC_prok_B super family cl37069
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 70-249 9.98e-05

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


The actual alignment was detected with superfamily member TIGR02168:

Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 46.20  E-value: 9.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789   70 RMKKKLEELRKRYDFEKDEWRMEKESLLRQVAEIQGGENRRMLLELKcvLEEVQSGVKREESKRGELELQYTQDRCAWEL 149
Cdd:TIGR02168  723 ELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEER--LEEAEEELAEAEAEIEELEAQIEQLKEELKA 800

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789  150 ERS---ELKSRITQLEARGCSVVVESVRspelgdtLKRERAEQKKLLADTHSAAMDLRCRLENSErGWMKEKSELLERFE 226
Cdd:TIGR02168  801 LREaldELRAELTLLNEEAANLRERLES-------LERRIAATERRLEDLEEQIEELSEDIESLA-AEIEELEELIEELE 872

                          170       180
                   ....*....|....*....|...
gi 1476411789  227 SERKEWENQLMDMQRKIEELYSE 249
Cdd:TIGR02168  873 SELEALLNERASLEEALALLRSE 895
 
Name Accession Description Interval E-value
DUF4482 pfam14818
Domain of unknown function (DUF4482); This family is found in eukaryotes, and is approximately ...
 201-254 1.66e-14

Domain of unknown function (DUF4482); This family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with pfam11365.


Pssm-ID: 464333 [Multi-domain]  Cd Length: 138  Bit Score: 71.26  E-value: 1.66e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1476411789 201 MDLRCRLENSERGWMKEKSELLERFESERKEWENQLMDMQRKIEELYSEVKAHR 254
Cdd:pfam14818   1 MDLRWQLQHTEKNWHREKMELLDRFDRERQEWESQKKIMQKKIEQLQREVSLRR 54
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 70-249 9.98e-05

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 46.20  E-value: 9.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789   70 RMKKKLEELRKRYDFEKDEWRMEKESLLRQVAEIQGGENRRMLLELKcvLEEVQSGVKREESKRGELELQYTQDRCAWEL 149
Cdd:TIGR02168  723 ELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEER--LEEAEEELAEAEAEIEELEAQIEQLKEELKA 800

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789  150 ERS---ELKSRITQLEARGCSVVVESVRspelgdtLKRERAEQKKLLADTHSAAMDLRCRLENSErGWMKEKSELLERFE 226
Cdd:TIGR02168  801 LREaldELRAELTLLNEEAANLRERLES-------LERRIAATERRLEDLEEQIEELSEDIESLA-AEIEELEELIEELE 872

                          170       180
                   ....*....|....*....|...
gi 1476411789  227 SERKEWENQLMDMQRKIEELYSE 249
Cdd:TIGR02168  873 SELEALLNERASLEEALALLRSE 895
GumC COG3206
Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];
135-252 1.15e-04

Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442439 [Multi-domain]  Cd Length: 687  Bit Score: 45.78  E-value: 1.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789 135 ELELQYTQDRcaweLERSELKSRITQLE---ARGCSVVVESVRSPELGD------TLKRERAEQKKLLADTHSAAMDLRC 205
Cdd:COG3206   223 ELESQLAEAR----AELAEAEARLAALRaqlGSGPDALPELLQSPVIQQlraqlaELEAELAELSARYTPNHPDVIALRA 298

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1476411789 206 RLENSERGWMKEKSELLERFESERKEWENQLMDMQRKIEELYSEVKA 252
Cdd:COG3206   299 QIAALRAQLQQEAQRILASLEAELEALQAREASLQAQLAQLEARLAE 345
Striatin pfam08232
Striatin family; Striatin is an intracellular protein which has a caveolin-binding motif, a ...
 143-163 2.19e-03

Striatin family; Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (pfam00400) repeat domain. It acts as a scaffold protein and is involved in signalling pathways.


Pssm-ID: 462401  Cd Length: 85  Bit Score: 37.87  E-value: 2.19e-03
                          10        20
                  ....*....|....*....|.
gi 1476411789 143 DRCAWELERSELKSRITQLEA 163
Cdd:pfam08232  18 DRNAWEIERAEMKARIAKLEG 38
 
Name Accession Description Interval E-value
DUF4482 pfam14818
Domain of unknown function (DUF4482); This family is found in eukaryotes, and is approximately ...
 201-254 1.66e-14

Domain of unknown function (DUF4482); This family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with pfam11365.


Pssm-ID: 464333 [Multi-domain]  Cd Length: 138  Bit Score: 71.26  E-value: 1.66e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1476411789 201 MDLRCRLENSERGWMKEKSELLERFESERKEWENQLMDMQRKIEELYSEVKAHR 254
Cdd:pfam14818   1 MDLRWQLQHTEKNWHREKMELLDRFDRERQEWESQKKIMQKKIEQLQREVSLRR 54
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 70-249 9.98e-05

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 46.20  E-value: 9.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789   70 RMKKKLEELRKRYDFEKDEWRMEKESLLRQVAEIQGGENRRMLLELKcvLEEVQSGVKREESKRGELELQYTQDRCAWEL 149
Cdd:TIGR02168  723 ELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEER--LEEAEEELAEAEAEIEELEAQIEQLKEELKA 800

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789  150 ERS---ELKSRITQLEARGCSVVVESVRspelgdtLKRERAEQKKLLADTHSAAMDLRCRLENSErGWMKEKSELLERFE 226
Cdd:TIGR02168  801 LREaldELRAELTLLNEEAANLRERLES-------LERRIAATERRLEDLEEQIEELSEDIESLA-AEIEELEELIEELE 872

                          170       180
                   ....*....|....*....|...
gi 1476411789  227 SERKEWENQLMDMQRKIEELYSE 249
Cdd:TIGR02168  873 SELEALLNERASLEEALALLRSE 895
GumC COG3206
Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];
135-252 1.15e-04

Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442439 [Multi-domain]  Cd Length: 687  Bit Score: 45.78  E-value: 1.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789 135 ELELQYTQDRcaweLERSELKSRITQLE---ARGCSVVVESVRSPELGD------TLKRERAEQKKLLADTHSAAMDLRC 205
Cdd:COG3206   223 ELESQLAEAR----AELAEAEARLAALRaqlGSGPDALPELLQSPVIQQlraqlaELEAELAELSARYTPNHPDVIALRA 298

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1476411789 206 RLENSERGWMKEKSELLERFESERKEWENQLMDMQRKIEELYSEVKA 252
Cdd:COG3206   299 QIAALRAQLQQEAQRILASLEAELEALQAREASLQAQLAQLEARLAE 345
Striatin pfam08232
Striatin family; Striatin is an intracellular protein which has a caveolin-binding motif, a ...
 143-163 2.19e-03

Striatin family; Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (pfam00400) repeat domain. It acts as a scaffold protein and is involved in signalling pathways.


Pssm-ID: 462401  Cd Length: 85  Bit Score: 37.87  E-value: 2.19e-03
                          10        20
                  ....*....|....*....|.
gi 1476411789 143 DRCAWELERSELKSRITQLEA 163
Cdd:pfam08232  18 DRNAWEIERAEMKARIAKLEG 38
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
 69-250 2.40e-03

chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 41.98  E-value: 2.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789   69 SRMKKKLEELRKRYDFEKDEWRMEKE---SLLRQVAEIQGG--ENRRMLLELKCVLEEVQSGVKREESKRGELELQYTQD 143
Cdd:TIGR02169  712 SDASRKIGEIEKEIEQLEQEEEKLKErleELEEDLSSLEQEieNVKSELKELEARIEELEEDLHKLEEALNDLEARLSHS 791

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789  144 RC--------AWELERSELKSRITQLEARGCSVVVESVRSPELGDTLKRERAEQKKLLADTHSAAMDLRCRLENSE---- 211
Cdd:TIGR02169  792 RIpeiqaelsKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEeele 871

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 1476411789  212 --RGWMKEKSELLERFESERKEWENQLMDMQRKIEELYSEV 250
Cdd:TIGR02169  872 elEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQI 912
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 68-254 2.52e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 41.58  E-value: 2.52e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789   68 HSRMKKKLEELRKRYDFEKDEWRMEKESLLRQVAEIQggenrRMLLELKCVLEEVQSGVKREESKRGELELQYTQDRCAW 147
Cdd:TIGR02168  307 LRERLANLERQLEELEAQLEELESKLDELAEELAELE-----EKLEELKEELESLEAELEELEAELEELESRLEELEEQL 381

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789  148 ELERS---ELKSRITQLEARgcsVVVESVRSPELGDTLKRERAEQKKLLADTHSAAMD-LRCRLENSERGwMKEKSELLE 223
Cdd:TIGR02168  382 ETLRSkvaQLELQIASLNNE---IERLEARLERLEDRRERLQQEIEELLKKLEEAELKeLQAELEELEEE-LEELQEELE 457

                          170       180       190
                   ....*....|....*....|....*....|.
gi 1476411789  224 RFESERKEWENQLMDMQRKIEELYSEVKAHR 254
Cdd:TIGR02168  458 RLEEALEELREELEEAEQALDAAERELAQLQ 488
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
 68-257 4.34e-03

chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 40.82  E-value: 4.34e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789   68 HSRMKKKLEELRKRYDFEKDEWRMEKESLLRQVAEIQggENRRMLLELKCVLEEVQSGVKREESKRGELELQytqdrcAW 147
Cdd:TIGR02169  732 EEKLKERLEELEEDLSSLEQEIENVKSELKELEARIE--ELEEDLHKLEEALNDLEARLSHSRIPEIQAELS------KL 803

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476411789  148 ELERSELKSRITQLEARgcsvvvESVRSPELgDTLKRERAEQKKLLADTHSAAMDLRCRLENSeRGWMKEKSELLERFES 227
Cdd:TIGR02169  804 EEEVSRIEARLREIEQK------LNRLTLEK-EYLEKEIQELQEQRIDLKEQIKSIEKEIENL-NGKKEELEEELEELEA 875

                          170       180       190
                   ....*....|....*....|....*....|
gi 1476411789  228 ERKEWENQLMDMQRKIEELYSEVKAHRTGI 257
Cdd:TIGR02169  876 ALRDLESRLGDLKKERDELEAQLRELERKI 905
 
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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