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Conserved domains on  [gi|223522610|gb|EEF26803|]
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conserved hypothetical protein [Ricinus communis]

Protein Classification

DNA-binding protein( domain architecture ID 10569863)

DNA-binding protein such as Paenibacillus popilliae plasmid KfrA proteins and Pseudomonas aeruginosa plasmid cointegrate resolution protein T (TnpT)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
KfrA_N pfam11740
Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to ...
 43-141 6.39e-07

Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.


:

Pssm-ID: 432038 [Multi-domain]  Cd Length: 117  Bit Score: 45.75  E-value: 6.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223522610   43 RAVSVRRLRARLGAGDPAVLSRALNAIEAElvQAGLTQVALPGLPEAIAEQM----HALWAAAVSVQLDDVVRLKTEARD 118
Cdd:pfam11740  17 ERPTVDAVRERLGTGSPTTIHRHLKEWRAE--RAAASAVPAAALPEALQDAAqellARLWQAALEEAEERLAAARAELQA 94

                          90       100
                  ....*....|....*....|...
gi 223522610  119 AMDGAETARHDAALRVELLRVEL 141
Cdd:pfam11740  95 ERAALEAERAEAEQRAEALEAEL 117
 
Name Accession Description Interval E-value
KfrA_N pfam11740
Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to ...
 43-141 6.39e-07

Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.


Pssm-ID: 432038 [Multi-domain]  Cd Length: 117  Bit Score: 45.75  E-value: 6.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223522610   43 RAVSVRRLRARLGAGDPAVLSRALNAIEAElvQAGLTQVALPGLPEAIAEQM----HALWAAAVSVQLDDVVRLKTEARD 118
Cdd:pfam11740  17 ERPTVDAVRERLGTGSPTTIHRHLKEWRAE--RAAASAVPAAALPEALQDAAqellARLWQAALEEAEERLAAARAELQA 94

                          90       100
                  ....*....|....*....|...
gi 223522610  119 AMDGAETARHDAALRVELLRVEL 141
Cdd:pfam11740  95 ERAALEAERAEAEQRAEALEAEL 117
 
Name Accession Description Interval E-value
KfrA_N pfam11740
Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to ...
 43-141 6.39e-07

Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.


Pssm-ID: 432038 [Multi-domain]  Cd Length: 117  Bit Score: 45.75  E-value: 6.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223522610   43 RAVSVRRLRARLGAGDPAVLSRALNAIEAElvQAGLTQVALPGLPEAIAEQM----HALWAAAVSVQLDDVVRLKTEARD 118
Cdd:pfam11740  17 ERPTVDAVRERLGTGSPTTIHRHLKEWRAE--RAAASAVPAAALPEALQDAAqellARLWQAALEEAEERLAAARAELQA 94

                          90       100
                  ....*....|....*....|...
gi 223522610  119 AMDGAETARHDAALRVELLRVEL 141
Cdd:pfam11740  95 ERAALEAERAEAEQRAEALEAEL 117
 
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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