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Conserved domains on  [gi|1036466606|ref|WP_064702545|]
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MULTISPECIES: DUF6290 family protein [Halomonas]

Protein Classification

COG4710 family protein( domain architecture ID 10008736)

COG4710 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG4710 COG4710
Predicted DNA-binding protein with an HTH domain [General function prediction only];
1-74 3.86e-28

Predicted DNA-binding protein with an HTH domain [General function prediction only];


:

Pssm-ID: 443745  Cd Length: 76  Bit Score: 95.74  E-value: 3.86e-28
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1036466606  1 MLAIRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLEDVYLAEQTLERLRRGEETTHSLDDVERELGLAN 74
Cdd:COG4710    3 MLSIRLPEELEARLDALAKRTGRSKSFYVREAIEEYLDDLEDYYLAEERLERVRAGREKTYSLEEVERDLGLED 76
 
Name Accession Description Interval E-value
COG4710 COG4710
Predicted DNA-binding protein with an HTH domain [General function prediction only];
1-74 3.86e-28

Predicted DNA-binding protein with an HTH domain [General function prediction only];


Pssm-ID: 443745  Cd Length: 76  Bit Score: 95.74  E-value: 3.86e-28
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1036466606  1 MLAIRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLEDVYLAEQTLERLRRGEETTHSLDDVERELGLAN 74
Cdd:COG4710    3 MLSIRLPEELEARLDALAKRTGRSKSFYVREAIEEYLDDLEDYYLAEERLERVRAGREKTYSLEEVERDLGLED 76
DUF6290 pfam19807
Family of unknown function (DUF6290); This family of proteins is functionally uncharacterized, ...
 4-70 1.06e-08

Family of unknown function (DUF6290); This family of proteins is functionally uncharacterized, they are predominantly found in bacteria but also in viruses. Proteins in this family are approximately 80 amino acids in length and presumably contain a ribbon-helix-helix DNA-binding motif.


Pssm-ID: 437639  Cd Length: 72  Bit Score: 46.40  E-value: 1.06e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1036466606  4 IRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLEDVYLAEQTLERLRRGEETTHSLDDVEREL 70
Cdd:pfam19807  6 VRLNEEEEELIKKYAKLKGISLSELIRQALLEKIEDEYDLKIYEEYAAEKKKGDPKTYSHDEVKKEL 72
RHH_CopAso-like cd22233
ribbon-helix-helix domain of Shewanella oneidensis type II antitoxin CopA(SO), and similar ...
 2-42 3.93e-07

ribbon-helix-helix domain of Shewanella oneidensis type II antitoxin CopA(SO), and similar proteins; This family includes the N-terminal ribbon-helix-helix (RHH) domain of Shewanella oneidensis CopA(SO), a newly identified type II antitoxin, as well as the N-terminal RHH domain of Escherichia coli PutA flavoprotein, among other similar proteins, many of which are as yet uncharacterized. CopA(SO) is a typical RHH antitoxin that includes an ordered N-terminal domain (CopA(SO)-N) and a disordered C-terminal domain (CopA(SO)-C). Biophysical investigation indicates allosteric effects of CopA(SO)-N on CopA(SO)-C; DNA binding of CopA(SO)-N appears to induce CopA(SO)-C to fold and self-associate the C-terminal domain. The multifunctional E. coli proline utilization A (PutA) flavoprotein functions as a membrane-associated proline catabolic enzyme as well as a transcriptional repressor of the proline utilization genes putA and putP. The N-terminal domain of PutA is a transcriptional regulator with an RHH fold; structure studies show that it forms a homodimer to bind one DNA duplex. This family also includes orphan antitoxin ParD2, an antitoxin component of a non-functional type II toxin-antitoxin (TA system); it does not neutralize the effect of any of the RelE or ParE toxins.


Pssm-ID: 409023  Cd Length: 44  Bit Score: 41.97  E-value: 3.93e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 1036466606  2 LAIRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLED 42
Cdd:cd22233    3 LSVRLDDDLKERLDRLAAATDRSRSWIIKEAIEEYLEREEW 43
 
Name Accession Description Interval E-value
COG4710 COG4710
Predicted DNA-binding protein with an HTH domain [General function prediction only];
1-74 3.86e-28

Predicted DNA-binding protein with an HTH domain [General function prediction only];


Pssm-ID: 443745  Cd Length: 76  Bit Score: 95.74  E-value: 3.86e-28
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1036466606  1 MLAIRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLEDVYLAEQTLERLRRGEETTHSLDDVERELGLAN 74
Cdd:COG4710    3 MLSIRLPEELEARLDALAKRTGRSKSFYVREAIEEYLDDLEDYYLAEERLERVRAGREKTYSLEEVERDLGLED 76
DUF6290 pfam19807
Family of unknown function (DUF6290); This family of proteins is functionally uncharacterized, ...
 4-70 1.06e-08

Family of unknown function (DUF6290); This family of proteins is functionally uncharacterized, they are predominantly found in bacteria but also in viruses. Proteins in this family are approximately 80 amino acids in length and presumably contain a ribbon-helix-helix DNA-binding motif.


Pssm-ID: 437639  Cd Length: 72  Bit Score: 46.40  E-value: 1.06e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1036466606  4 IRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLEDVYLAEQTLERLRRGEETTHSLDDVEREL 70
Cdd:pfam19807  6 VRLNEEEEELIKKYAKLKGISLSELIRQALLEKIEDEYDLKIYEEYAAEKKKGDPKTYSHDEVKKEL 72
RHH_CopAso-like cd22233
ribbon-helix-helix domain of Shewanella oneidensis type II antitoxin CopA(SO), and similar ...
 2-42 3.93e-07

ribbon-helix-helix domain of Shewanella oneidensis type II antitoxin CopA(SO), and similar proteins; This family includes the N-terminal ribbon-helix-helix (RHH) domain of Shewanella oneidensis CopA(SO), a newly identified type II antitoxin, as well as the N-terminal RHH domain of Escherichia coli PutA flavoprotein, among other similar proteins, many of which are as yet uncharacterized. CopA(SO) is a typical RHH antitoxin that includes an ordered N-terminal domain (CopA(SO)-N) and a disordered C-terminal domain (CopA(SO)-C). Biophysical investigation indicates allosteric effects of CopA(SO)-N on CopA(SO)-C; DNA binding of CopA(SO)-N appears to induce CopA(SO)-C to fold and self-associate the C-terminal domain. The multifunctional E. coli proline utilization A (PutA) flavoprotein functions as a membrane-associated proline catabolic enzyme as well as a transcriptional repressor of the proline utilization genes putA and putP. The N-terminal domain of PutA is a transcriptional regulator with an RHH fold; structure studies show that it forms a homodimer to bind one DNA duplex. This family also includes orphan antitoxin ParD2, an antitoxin component of a non-functional type II toxin-antitoxin (TA system); it does not neutralize the effect of any of the RelE or ParE toxins.


Pssm-ID: 409023  Cd Length: 44  Bit Score: 41.97  E-value: 3.93e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 1036466606  2 LAIRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLED 42
Cdd:cd22233    3 LSVRLDDDLKERLDRLAAATDRSRSWIIKEAIEEYLEREEW 43
TraY pfam05509
TraY domain; This family consists of several enterobacterial TraY proteins. TraY is involved ...
 4-48 6.83e-05

TraY domain; This family consists of several enterobacterial TraY proteins. TraY is involved in bacterial conjugation where it is required for efficient nick formation in the F plasmid. These proteins have a ribbon-helix-helix fold and are likely to be DNA-binding proteins.


Pssm-ID: 428502  Cd Length: 49  Bit Score: 36.46  E-value: 6.83e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 1036466606  4 IRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLEDVYLAEQ 48
Cdd:pfam05509  3 LQLDEETNKLLEEAAERSGRSKRKEAALRLKDHLDRFPDIYESEK 47
PutA1 COG3905
Predicted transcriptional regulator, contains ribbon-helix-helix (RHH_1) domain [Transcription] ...
 1-61 1.10e-04

Predicted transcriptional regulator, contains ribbon-helix-helix (RHH_1) domain [Transcription];


Pssm-ID: 443111  Cd Length: 69  Bit Score: 36.34  E-value: 1.10e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1036466606  1 MLAIRLPSDIEERLEALAKATGRTKTYYAREAILEHLEDLED-VYLAEQTLERLRRGEETTH 61
Cdd:COG3905    4 TTTVRLDDELKERLDALAAALDRSRSWLIKEAIAQYVEREEWrEALIQEGLAAADAGEFVSH 65
 
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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