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Conserved domains on  [gi|82946559|dbj|BAE51423|]
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Uncharacterized protein conserved in bacteria [Magnetospirillum magneticum AMB-1]

Protein Classification

RnfH family protein( domain architecture ID 10508429)

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
Ub-RnfH pfam03658
RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of ...
 1-81 5.34e-48

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: 147.19  E-value: 5.34e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 82946559    1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPKT 80
Cdd:pfam03658  1 IKVEVAYALPDRQVLLKLEVPEGATVEQAIEASGILERFPEIDLATNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPKE 80


                 .
gi 82946559   81 V 81
Cdd:pfam03658 81 A 81
 
Name Accession Description Interval E-value
Ub-RnfH pfam03658
RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of ...
 1-81 5.34e-48

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: 147.19  E-value: 5.34e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 82946559    1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPKT 80
Cdd:pfam03658  1 IKVEVAYALPDRQVLLKLEVPEGATVEQAIEASGILERFPEIDLATNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPKE 80


                 .
gi 82946559   81 V 81
Cdd:pfam03658 81 A 81
PasI COG2914
Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH ...
 1-81 5.57e-48

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


Pssm-ID: 442158  Cd Length: 92  Bit Score: 147.57  E-value: 5.57e-48
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 82946559  1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPKT 80
Cdd:COG2914  5 IRVEVAYALPDKQVLLRLEVPEGTTVEQAIEASGILERFPEIDLAKNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPKE 84


               .
gi 82946559 81 V 81
Cdd:COG2914 85 A 85
PRK01777 PRK01777
RnfH family protein;
1-79 1.06e-31

RnfH family protein;


Pssm-ID: 234982  Cd Length: 95  Bit Score: 106.60  E-value: 1.06e-31
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 82946559   1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPK 79
Cdd:PRK01777  4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKLTDVLRDGDRVEIYRPLLADPK 82
 
Name Accession Description Interval E-value
Ub-RnfH pfam03658
RnfH family Ubiquitin; A member of the RnfH family of the ubiquitin superfamily. Members of ...
 1-81 5.34e-48

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: 147.19  E-value: 5.34e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 82946559    1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPKT 80
Cdd:pfam03658  1 IKVEVAYALPDRQVLLKLEVPEGATVEQAIEASGILERFPEIDLATNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPKE 80


                 .
gi 82946559   81 V 81
Cdd:pfam03658 81 A 81
PasI COG2914
Putative antitoxin component PasI (RatB) of the RatAB toxin-antitoxin module, ubiquitin-RnfH ...
 1-81 5.57e-48

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


Pssm-ID: 442158  Cd Length: 92  Bit Score: 147.57  E-value: 5.57e-48
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 82946559  1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPKT 80
Cdd:COG2914  5 IRVEVAYALPDKQVLLRLEVPEGTTVEQAIEASGILERFPEIDLAKNKVGIFGKLVKLDTVLRDGDRVEIYRPLIADPKE 84


               .
gi 82946559 81 V 81
Cdd:COG2914 85 A 85
PRK01777 PRK01777
RnfH family protein;
1-79 1.06e-31

RnfH family protein;


Pssm-ID: 234982  Cd Length: 95  Bit Score: 106.60  E-value: 1.06e-31
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 82946559   1 MKIGVVYALPSRQSWLSIDVPEGTTVKEAIQKSGILNQFPEIDLETQKVGIFGKAAALDAVVEEGARIEIYRPITVDPK 79
Cdd:PRK01777  4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKLTDVLRDGDRVEIYRPLLADPK 82
MoaD COG1977
Molybdopterin synthase sulfur carrier subunit MoaD [Coenzyme transport and metabolism]; ...
 16-75 1.26e-03

Molybdopterin synthase sulfur carrier subunit MoaD [Coenzyme transport and metabolism]; Molybdopterin synthase sulfur carrier subunit MoaD is part of the Pathway/BioSystem: Molybdopterin biosynthesis


Pssm-ID: 441580 [Multi-domain]  Cd Length: 82  Bit Score: 34.41  E-value: 1.26e-03
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 82946559 16 LSIDVPEGTTVKEAIQKsgILNQFPEID--LETQKVGIF--GKAAALDAVVEEGARIEIYRPIT 75
Cdd:COG1977 19 EEVELPEGATVGDLLEA--LAARYPGLAerLLRRRVRVAvnGEDVRLDTPLKDGDEVALFPPVA 80
 
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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