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Conserved domains on  [gi|503971988|ref|WP_014205982|]
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MULTISPECIES: RnfH family protein [Acinetobacter]

Protein Classification

RnfH family protein( domain architecture ID 10006787)

RnfH family protein, a member of the ubiquitin superfamily, is involved in transporting electrons for various reductive reactions such as nitrogen fixation and may also play a role in the SmpB-tmRNA-based tagging and degradation system of bacteria

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PasI COG2914
Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH ...
 1-90 7.42e-33

Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH superfamily [Defense mechanisms];


:

Pssm-ID: 442158  Cd Length: 92  Bit Score: 109.44  E-value: 7.42e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988   1 MEKAQQVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGLQTQvsLPE----PLQLGIFGAKVEAHAILQAGDRVEVYRPL 76
Cdd:COG2914    1 MMEMIRVEVAYALPDKQVLLRLEVPEGTTVEQAIEASGILER--FPEidlaKNKVGIFGKLVKLDTVLRDGDRVEIYRPL 78

                         90
                 ....*....|....
gi 503971988  77 TINPKDIRRKRAEK 90
Cdd:COG2914   79 IADPKEARRRRAAK 92
 
Name Accession Description Interval E-value
PasI COG2914
Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH ...
 1-90 7.42e-33

Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH superfamily [Defense mechanisms];


Pssm-ID: 442158  Cd Length: 92  Bit Score: 109.44  E-value: 7.42e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988   1 MEKAQQVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGLQTQvsLPE----PLQLGIFGAKVEAHAILQAGDRVEVYRPL 76
Cdd:COG2914    1 MMEMIRVEVAYALPDKQVLLRLEVPEGTTVEQAIEASGILER--FPEidlaKNKVGIFGKLVKLDTVLRDGDRVEIYRPL 78

                         90
                 ....*....|....
gi 503971988  77 TINPKDIRRKRAEK 90
Cdd:COG2914   79 IADPKEARRRRAAK 92
Ub-RnfH pfam03658
RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of ...
 6-85 4.28e-28

RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of this family strongly co-occur in two distinct gene neighborhood contexts. In one it is associated with a START domain protein, a membrane protein SmpA and the transfer mRNA binding protein SmpB. This association suggests a possible role in the SmpB-tmRNA-based tagging and degadation system of bacteria, which is interesting given that other members of the ubiquitin system are analogously involved in protein-tagging and degradation across eukaryotes and various prokaryotes. The second context in which the RnfH genes are present is in a membrane associated complex involved in transporting electrons for various reductive reactions such as nitrogen fixation.


Pssm-ID: 427429  Cd Length: 83  Bit Score: 97.12  E-value: 4.28e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988    6 QVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGLQTQVslPE----PLQLGIFGAKVEAHAILQAGDRVEVYRPLTINPK 81
Cdd:pfam03658   2 KVEVAYALPDRQVLLKLEVPEGATVEQAIEASGILERF--PEidlaTNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPK 79


                  ....
gi 503971988   82 DIRR 85
Cdd:pfam03658  80 EARR 83
PRK01777 PRK01777
RnfH family protein;
6-90 3.13e-21

RnfH family protein;


Pssm-ID: 234982  Cd Length: 95  Bit Score: 80.41  E-value: 3.13e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988   6 QVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGL---QTQVSLPEPlQLGIFGAKVEAHAILQAGDRVEVYRPLTINPKD 82
Cdd:PRK01777   5 RVEVVYALPERQYLQRLTLQEGATVEEAIRASGLlelRTDIDLAKN-KVGIYSRPAKLTDVLRDGDRVEIYRPLLADPKE 83


                 ....*...
gi 503971988  83 IRRKRAEK 90
Cdd:PRK01777  84 LRRKRAEQ 91
 
Name Accession Description Interval E-value
PasI COG2914
Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH ...
 1-90 7.42e-33

Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH superfamily [Defense mechanisms];


Pssm-ID: 442158  Cd Length: 92  Bit Score: 109.44  E-value: 7.42e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988   1 MEKAQQVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGLQTQvsLPE----PLQLGIFGAKVEAHAILQAGDRVEVYRPL 76
Cdd:COG2914    1 MMEMIRVEVAYALPDKQVLLRLEVPEGTTVEQAIEASGILER--FPEidlaKNKVGIFGKLVKLDTVLRDGDRVEIYRPL 78

                         90
                 ....*....|....
gi 503971988  77 TINPKDIRRKRAEK 90
Cdd:COG2914   79 IADPKEARRRRAAK 92
Ub-RnfH pfam03658
RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of ...
 6-85 4.28e-28

RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of this family strongly co-occur in two distinct gene neighborhood contexts. In one it is associated with a START domain protein, a membrane protein SmpA and the transfer mRNA binding protein SmpB. This association suggests a possible role in the SmpB-tmRNA-based tagging and degadation system of bacteria, which is interesting given that other members of the ubiquitin system are analogously involved in protein-tagging and degradation across eukaryotes and various prokaryotes. The second context in which the RnfH genes are present is in a membrane associated complex involved in transporting electrons for various reductive reactions such as nitrogen fixation.


Pssm-ID: 427429  Cd Length: 83  Bit Score: 97.12  E-value: 4.28e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988    6 QVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGLQTQVslPE----PLQLGIFGAKVEAHAILQAGDRVEVYRPLTINPK 81
Cdd:pfam03658   2 KVEVAYALPDRQVLLKLEVPEGATVEQAIEASGILERF--PEidlaTNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPK 79


                  ....
gi 503971988   82 DIRR 85
Cdd:pfam03658  80 EARR 83
PRK01777 PRK01777
RnfH family protein;
6-90 3.13e-21

RnfH family protein;


Pssm-ID: 234982  Cd Length: 95  Bit Score: 80.41  E-value: 3.13e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503971988   6 QVWVAYAAPEQQFLVAIPFEAGMTALQAVEASGL---QTQVSLPEPlQLGIFGAKVEAHAILQAGDRVEVYRPLTINPKD 82
Cdd:PRK01777   5 RVEVVYALPERQYLQRLTLQEGATVEEAIRASGLlelRTDIDLAKN-KVGIYSRPAKLTDVLRDGDRVEIYRPLLADPKE 83


                 ....*...
gi 503971988  83 IRRKRAEK 90
Cdd:PRK01777  84 LRRKRAEQ 91
 
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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