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Conserved domains on  [gi|2755921287|gb|XAG26271|]
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DUF3346 domain-containing protein [bacterium 19CA03SA04]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF3346 super family cl13293
Protein of unknown function (DUF3346); This family of proteins are functionally ...
 290-514 2.26e-154

Protein of unknown function (DUF3346); This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 231 to 659 amino acids in length.


The actual alignment was detected with superfamily member pfam11826:

Pssm-ID: 288659  Cd Length: 225  Bit Score: 444.42  E-value: 2.26e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287 290 FTDFQLHELTGRWLSENMPEGFKSDRFRFLARTITASEEAPTEGSDGEIRIKPNLYILVWEPSFFEELMTKDYFFLFPPE 369
Cdd:pfam11826   1 FTDFQLHELTGRWLSENMPEGFKSDRFRFLARTITASEEAPKEGKDGEIRIKPNLYILVWEPSFFDELLTRDYFFLFPPE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287 370 ILKQHTLVFQLYSYFRSRMSRRHTDTMMLSELNQKLARNIEWRRFSMDLIRELRRLSNDQDKTGDFTVNLWGYHLTISEL 449
Cdd:pfam11826  81 ILKQHTLVFQLYSFFRSRMSRRMTDNMMLSELNQKLARNIEWRRFSLDLIRELRKLAEGKVTEDLFIVNLWGYHLTIKML 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2755921287 450 VEQSKVVDYQVAIKCDVEEVLRYSRAKTTNAGKRNMAPTLPNPLRNEMVSKQRLQELSEIIDGEF 514
Cdd:pfam11826 161 DSSEKLPDYQIDIKCDPEEVIRYSRAKTTNAGKRNMAPTMPNPLRNEIMPKQDLDQLSTIIDGEF 225
HTH_55 super family cl39941
RctB helix turn helix domain; RctB is a highly conserved 75.3 kD protein (658 residues), which ...
 13-119 3.35e-64

RctB helix turn helix domain; RctB is a highly conserved 75.3 kD protein (658 residues), which is unique to the Vibrionaceae. The first 500 amino acids of RctB are sufficient to mediate oriCII-based replication and its C-terminal 165 residues may mediate regulatory processes. RctB contains at least three DNA binding winged-helix-turn-helix motifs, and mutations within any of these severely compromise biological activity. This entry describes domain 1 located at the N-terminal region of RctB proteins. Mutational analysis show that it binds oriCII DNA, and that this function is critical for the capacity of RctB to mediate oriCII-based replication.


The actual alignment was detected with superfamily member pfam18622:

Pssm-ID: 408404  Cd Length: 107  Bit Score: 207.12  E-value: 3.35e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287  13 RSHKDGHLFVVSETAVDWIEQYQHFKGVTKSIIELLNLISLRGFRSKDGLVSTTELIEATDGQLTRAAIQQRLRAAVAIG 92
Cdd:pfam18622   1 RDHKGGHLFEVNESSVDWIEQYQHFKGVTKSILELLNLISLRGFSSKDGLVSTTEIIDATDGKLTRAAIQQRLRTAVNIG 80

                          90       100
                  ....*....|....*....|....*..
gi 2755921287  93 LFKQIPVRFEEGLAGKTMLHQFVNPNQ 119
Cdd:pfam18622  81 LFSQHPVRFEEGLAGKTMLHKFVNPSQ 107
 
Name Accession Description Interval E-value
DUF3346 pfam11826
Protein of unknown function (DUF3346); This family of proteins are functionally ...
 290-514 2.26e-154

Protein of unknown function (DUF3346); This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 231 to 659 amino acids in length.


Pssm-ID: 288659  Cd Length: 225  Bit Score: 444.42  E-value: 2.26e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287 290 FTDFQLHELTGRWLSENMPEGFKSDRFRFLARTITASEEAPTEGSDGEIRIKPNLYILVWEPSFFEELMTKDYFFLFPPE 369
Cdd:pfam11826   1 FTDFQLHELTGRWLSENMPEGFKSDRFRFLARTITASEEAPKEGKDGEIRIKPNLYILVWEPSFFDELLTRDYFFLFPPE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287 370 ILKQHTLVFQLYSYFRSRMSRRHTDTMMLSELNQKLARNIEWRRFSMDLIRELRRLSNDQDKTGDFTVNLWGYHLTISEL 449
Cdd:pfam11826  81 ILKQHTLVFQLYSFFRSRMSRRMTDNMMLSELNQKLARNIEWRRFSLDLIRELRKLAEGKVTEDLFIVNLWGYHLTIKML 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2755921287 450 VEQSKVVDYQVAIKCDVEEVLRYSRAKTTNAGKRNMAPTLPNPLRNEMVSKQRLQELSEIIDGEF 514
Cdd:pfam11826 161 DSSEKLPDYQIDIKCDPEEVIRYSRAKTTNAGKRNMAPTMPNPLRNEIMPKQDLDQLSTIIDGEF 225
HTH_55 pfam18622
RctB helix turn helix domain; RctB is a highly conserved 75.3 kD protein (658 residues), which ...
 13-119 3.35e-64

RctB helix turn helix domain; RctB is a highly conserved 75.3 kD protein (658 residues), which is unique to the Vibrionaceae. The first 500 amino acids of RctB are sufficient to mediate oriCII-based replication and its C-terminal 165 residues may mediate regulatory processes. RctB contains at least three DNA binding winged-helix-turn-helix motifs, and mutations within any of these severely compromise biological activity. This entry describes domain 1 located at the N-terminal region of RctB proteins. Mutational analysis show that it binds oriCII DNA, and that this function is critical for the capacity of RctB to mediate oriCII-based replication.


Pssm-ID: 408404  Cd Length: 107  Bit Score: 207.12  E-value: 3.35e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287  13 RSHKDGHLFVVSETAVDWIEQYQHFKGVTKSIIELLNLISLRGFRSKDGLVSTTELIEATDGQLTRAAIQQRLRAAVAIG 92
Cdd:pfam18622   1 RDHKGGHLFEVNESSVDWIEQYQHFKGVTKSILELLNLISLRGFSSKDGLVSTTEIIDATDGKLTRAAIQQRLRTAVNIG 80

                          90       100
                  ....*....|....*....|....*..
gi 2755921287  93 LFKQIPVRFEEGLAGKTMLHQFVNPNQ 119
Cdd:pfam18622  81 LFSQHPVRFEEGLAGKTMLHKFVNPSQ 107
 
Name Accession Description Interval E-value
DUF3346 pfam11826
Protein of unknown function (DUF3346); This family of proteins are functionally ...
 290-514 2.26e-154

Protein of unknown function (DUF3346); This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 231 to 659 amino acids in length.


Pssm-ID: 288659  Cd Length: 225  Bit Score: 444.42  E-value: 2.26e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287 290 FTDFQLHELTGRWLSENMPEGFKSDRFRFLARTITASEEAPTEGSDGEIRIKPNLYILVWEPSFFEELMTKDYFFLFPPE 369
Cdd:pfam11826   1 FTDFQLHELTGRWLSENMPEGFKSDRFRFLARTITASEEAPKEGKDGEIRIKPNLYILVWEPSFFDELLTRDYFFLFPPE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287 370 ILKQHTLVFQLYSYFRSRMSRRHTDTMMLSELNQKLARNIEWRRFSMDLIRELRRLSNDQDKTGDFTVNLWGYHLTISEL 449
Cdd:pfam11826  81 ILKQHTLVFQLYSFFRSRMSRRMTDNMMLSELNQKLARNIEWRRFSLDLIRELRKLAEGKVTEDLFIVNLWGYHLTIKML 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2755921287 450 VEQSKVVDYQVAIKCDVEEVLRYSRAKTTNAGKRNMAPTLPNPLRNEMVSKQRLQELSEIIDGEF 514
Cdd:pfam11826 161 DSSEKLPDYQIDIKCDPEEVIRYSRAKTTNAGKRNMAPTMPNPLRNEIMPKQDLDQLSTIIDGEF 225
HTH_55 pfam18622
RctB helix turn helix domain; RctB is a highly conserved 75.3 kD protein (658 residues), which ...
 13-119 3.35e-64

RctB helix turn helix domain; RctB is a highly conserved 75.3 kD protein (658 residues), which is unique to the Vibrionaceae. The first 500 amino acids of RctB are sufficient to mediate oriCII-based replication and its C-terminal 165 residues may mediate regulatory processes. RctB contains at least three DNA binding winged-helix-turn-helix motifs, and mutations within any of these severely compromise biological activity. This entry describes domain 1 located at the N-terminal region of RctB proteins. Mutational analysis show that it binds oriCII DNA, and that this function is critical for the capacity of RctB to mediate oriCII-based replication.


Pssm-ID: 408404  Cd Length: 107  Bit Score: 207.12  E-value: 3.35e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2755921287  13 RSHKDGHLFVVSETAVDWIEQYQHFKGVTKSIIELLNLISLRGFRSKDGLVSTTELIEATDGQLTRAAIQQRLRAAVAIG 92
Cdd:pfam18622   1 RDHKGGHLFEVNESSVDWIEQYQHFKGVTKSILELLNLISLRGFSSKDGLVSTTEIIDATDGKLTRAAIQQRLRTAVNIG 80

                          90       100
                  ....*....|....*....|....*..
gi 2755921287  93 LFKQIPVRFEEGLAGKTMLHQFVNPNQ 119
Cdd:pfam18622  81 LFSQHPVRFEEGLAGKTMLHKFVNPSQ 107
 
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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