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Conserved domains on  [gi|972543964|gb|KUJ20580|]
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hypothetical protein LY89DRAFT_447301 [Mollisia scopiformis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TMF_TATA_bd pfam12325
TATA element modulatory factor 1 TATA binding; This is the C-terminal conserved coiled coil ...
 136-250 1.80e-54

TATA element modulatory factor 1 TATA binding; This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organization in animal and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family.


:

Pssm-ID: 432481 [Multi-domain]  Cd Length: 115  Bit Score: 171.19  E-value: 1.80e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  136 SVSTAGAGPSVQLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETKRAADTRVAELEAEVKDLNQRY 215
Cdd:pfam12325   1 SVSTSGAGPSVQLVERLSSTIRRLEGELASLKEELARLEAQRDEARQEIVKLMKENEELKELKKELEELEKELKELEQRY 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 972543964  216 ETTLEMLGEKSEMVDELKSDIDDIKAMYRELVERT 250
Cdd:pfam12325  81 ETTLELLGEKSEEVEELKADVEDLKEMYREQVQQL 115
 
Name Accession Description Interval E-value
TMF_TATA_bd pfam12325
TATA element modulatory factor 1 TATA binding; This is the C-terminal conserved coiled coil ...
 136-250 1.80e-54

TATA element modulatory factor 1 TATA binding; This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organization in animal and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family.


Pssm-ID: 432481 [Multi-domain]  Cd Length: 115  Bit Score: 171.19  E-value: 1.80e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  136 SVSTAGAGPSVQLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETKRAADTRVAELEAEVKDLNQRY 215
Cdd:pfam12325   1 SVSTSGAGPSVQLVERLSSTIRRLEGELASLKEELARLEAQRDEARQEIVKLMKENEELKELKKELEELEKELKELEQRY 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 972543964  216 ETTLEMLGEKSEMVDELKSDIDDIKAMYRELVERT 250
Cdd:pfam12325  81 ETTLELLGEKSEEVEELKADVEDLKEMYREQVQQL 115
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
147-249 6.33e-05

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 43.75  E-value: 6.33e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  147 QLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVEtkRAADTRVAELEAEVKDLNQRYETTLEMLGEKS 226
Cdd:COG4913   288 RRLELLEAELEELRAELARLEAELERLEARLDALREELDELEAQIR--GNGGDRLEQLEREIERLERELEERERRRARLE 365

                          90       100
                  ....*....|....*....|...
gi 972543964  227 EMVDELKSDIDDIKAMYRELVER 249
Cdd:COG4913   366 ALLAALGLPLPASAEEFAALRAE 388
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 147-249 3.05e-04

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: 41.97  E-value: 3.05e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964   147 QLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETkraADTRVAELEAEVKDLNQRYETTLEMLGEKS 226
Cdd:TIGR02168  726 RQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEE---AEEELAEAEAEIEELEAQIEQLKEELKALR 802

                           90       100
                   ....*....|....*....|...
gi 972543964   227 EMVDELKSDIDDIKAMYRELVER 249
Cdd:TIGR02168  803 EALDELRAELTLLNEEAANLRER 825
PRK02224 PRK02224
DNA double-strand break repair Rad50 ATPase;
155-246 7.34e-03

DNA double-strand break repair Rad50 ATPase;


Pssm-ID: 179385 [Multi-domain]  Cd Length: 880  Bit Score: 37.33  E-value: 7.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964 155 AVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETKRAA----DTRVAELEAEVKDLNQRYETTLEMLGEKSEMVD 230
Cdd:PRK02224 336 AAQAHNEEAESLREDADDLEERAEELREEAAELESELEEAREAvedrREEIEELEEEIEELRERFGDAPVDLGNAEDFLE 415

                         90
                 ....*....|....*.
gi 972543964 231 ELKSDIDDIKAMYREL 246
Cdd:PRK02224 416 ELREERDELREREAEL 431
 
Name Accession Description Interval E-value
TMF_TATA_bd pfam12325
TATA element modulatory factor 1 TATA binding; This is the C-terminal conserved coiled coil ...
 136-250 1.80e-54

TATA element modulatory factor 1 TATA binding; This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organization in animal and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family.


Pssm-ID: 432481 [Multi-domain]  Cd Length: 115  Bit Score: 171.19  E-value: 1.80e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  136 SVSTAGAGPSVQLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETKRAADTRVAELEAEVKDLNQRY 215
Cdd:pfam12325   1 SVSTSGAGPSVQLVERLSSTIRRLEGELASLKEELARLEAQRDEARQEIVKLMKENEELKELKKELEELEKELKELEQRY 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 972543964  216 ETTLEMLGEKSEMVDELKSDIDDIKAMYRELVERT 250
Cdd:pfam12325  81 ETTLELLGEKSEEVEELKADVEDLKEMYREQVQQL 115
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
147-249 6.33e-05

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 43.75  E-value: 6.33e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  147 QLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVEtkRAADTRVAELEAEVKDLNQRYETTLEMLGEKS 226
Cdd:COG4913   288 RRLELLEAELEELRAELARLEAELERLEARLDALREELDELEAQIR--GNGGDRLEQLEREIERLERELEERERRRARLE 365

                          90       100
                  ....*....|....*....|...
gi 972543964  227 EMVDELKSDIDDIKAMYRELVER 249
Cdd:COG4913   366 ALLAALGLPLPASAEEFAALRAE 388
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 147-249 3.05e-04

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: 41.97  E-value: 3.05e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964   147 QLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETkraADTRVAELEAEVKDLNQRYETTLEMLGEKS 226
Cdd:TIGR02168  726 RQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEE---AEEELAEAEAEIEELEAQIEQLKEELKALR 802

                           90       100
                   ....*....|....*....|...
gi 972543964   227 EMVDELKSDIDDIKAMYRELVER 249
Cdd:TIGR02168  803 EALDELRAELTLLNEEAANLRER 825
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 147-252 6.42e-04

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: 40.81  E-value: 6.42e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964   147 QLVERMSSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETKRAA----DTRVAELEAEVKDLNQRYettleml 222
Cdd:TIGR02168  747 ERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEElkalREALDELRAELTLLNEEA------- 819

                           90       100       110
                   ....*....|....*....|....*....|
gi 972543964   223 GEKSEMVDELKSDIDDIKAMYRELVERTVK 252
Cdd:TIGR02168  820 ANLRERLESLERRIAATERRLEDLEEQIEE 849
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
 149-250 1.11e-03

Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General function prediction only];


Pssm-ID: 441187 [Multi-domain]  Cd Length: 236  Bit Score: 39.14  E-value: 1.11e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964 149 VERMSSAVRRLESEKVATKEDLARLSAQRDEARA--EIVSLMREVETkraADTRVAELEAEVKDLNQRYETTLEMLGEKS 226
Cdd:COG1579   54 LEDLEKEIKRLELEIEEVEARIKKYEEQLGNVRNnkEYEALQKEIES---LKRRISDLEDEILELMERIEELEEELAELE 130

                         90       100
                 ....*....|....*....|....
gi 972543964 227 EMVDELKSDIDDIKAMYRELVERT 250
Cdd:COG1579  131 AELAELEAELEEKKAELDEELAEL 154
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 153-249 1.54e-03

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 39.53  E-value: 1.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964 153 SSAVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVEtkrAADTRVAELEAEVKDLNQRYETTLEMLGEKSEMVDEL 232
Cdd:COG1196  294 LAELARLEQDIARLEERRRELEERLEELEEELAELEEELE---ELEEELEELEEELEEAEEELEEAEAELAEAEEALLEA 370

                         90
                 ....*....|....*..
gi 972543964 233 KSDIDDIKAMYRELVER 249
Cdd:COG1196  371 EAELAEAEEELEELAEE 387
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
155-251 5.23e-03

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 37.97  E-value: 5.23e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  155 AVRRLESEK---VATKEDLARLSAQRDEARAEIVSLMREvetKRAADTRVAELEAEVKDLNQRYETTLEMLGEKSEMVDE 231
Cdd:COG4913   669 EIAELEAELerlDASSDDLAALEEQLEELEAELEELEEE---LDELKGEIGRLEKELEQAEEELDELQDRLEAAEDLARL 745

                          90       100
                  ....*....|....*....|
gi 972543964  232 LksDIDDIKAMYRELVERTV 251
Cdd:COG4913   746 E--LRALLEERFAAALGDAV 763
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
 159-249 6.53e-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: 37.74  E-value: 6.53e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964   159 LESEKVATKEDLARLSAQRDEARAEIVSLMREvetKRAADTRVAELEAEVKDLNQRYEttlemlgeksemvdELKSDIDD 238
Cdd:TIGR02169  831 LEKEIQELQEQRIDLKEQIKSIEKEIENLNGK---KEELEEELEELEAALRDLESRLG--------------DLKKERDE 893

                           90
                   ....*....|.
gi 972543964   239 IKAMYRELVER 249
Cdd:TIGR02169  894 LEAQLRELERK 904
PRK02224 PRK02224
DNA double-strand break repair Rad50 ATPase;
155-246 7.34e-03

DNA double-strand break repair Rad50 ATPase;


Pssm-ID: 179385 [Multi-domain]  Cd Length: 880  Bit Score: 37.33  E-value: 7.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964 155 AVRRLESEKVATKEDLARLSAQRDEARAEIVSLMREVETKRAA----DTRVAELEAEVKDLNQRYETTLEMLGEKSEMVD 230
Cdd:PRK02224 336 AAQAHNEEAESLREDADDLEERAEELREEAAELESELEEAREAvedrREEIEELEEEIEELRERFGDAPVDLGNAEDFLE 415

                         90
                 ....*....|....*.
gi 972543964 231 ELKSDIDDIKAMYREL 246
Cdd:PRK02224 416 ELREERDELREREAEL 431
GumC COG3206
Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];
145-251 8.93e-03

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


Pssm-ID: 442439 [Multi-domain]  Cd Length: 687  Bit Score: 37.30  E-value: 8.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964 145 SVQLVERMSSAVRRLESekvaTKEDLARLSAQRDEARAEIVSLMREVETKRAA------DTRVAELEAEVKDLNQRYETT 218
Cdd:COG3206  207 LVDLSEEAKLLLQQLSE----LESQLAEARAELAEAEARLAALRAQLGSGPDAlpellqSPVIQQLRAQLAELEAELAEL 282

                         90       100       110
                 ....*....|....*....|....*....|...
gi 972543964 219 LEMLGEKSEMVDELKSDIDDIKAMYRELVERTV 251
Cdd:COG3206  283 SARYTPNHPDVIALRAQIAALRAQLQQEAQRIL 315
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
149-241 9.32e-03

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 37.20  E-value: 9.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972543964  149 VERMSSAVRRLESEKVATKEDLARLSAQRD-----------------------EARAEIVSLMREVETKRAADTRVAELE 205
Cdd:COG4913   612 LAALEAELAELEEELAEAEERLEALEAELDalqerrealqrlaeyswdeidvaSAEREIAELEAELERLDASSDDLAALE 691

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 972543964  206 AEVKDLNQRYETTLEMLGEKSEMVDELKSDIDDIKA 241
Cdd:COG4913   692 EQLEELEAELEELEEELDELKGEIGRLEKELEQAEE 727
 
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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