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Conserved domains on  [gi|506427420|ref|WP_015947139|]
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rubredoxin [Desulfatibacillum aliphaticivorans]

Protein Classification

rubredoxin( domain architecture ID 11448379)

rubredoxin is a small nonheme, iron binding protein lacking an acid-labile sulfide that contains a [Fe(SCys)4] center and participates in electron transfer

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NorV COG1773
Flavorubredoxin [Inorganic ion transport and metabolism];
1-51 1.97e-27

Flavorubredoxin [Inorganic ion transport and metabolism];


:

Pssm-ID: 441379 [Multi-domain]  Cd Length: 53  Bit Score: 92.54  E-value: 1.97e-27
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 506427420  1 MDRWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFEK 51
Cdd:COG1773   1 MKKYQCKVCGYVYDPAEGDPENGIPPGTPFEDLPDDWVCPVCGAGKEDFEP 51
 
Name Accession Description Interval E-value
NorV COG1773
Flavorubredoxin [Inorganic ion transport and metabolism];
1-51 1.97e-27

Flavorubredoxin [Inorganic ion transport and metabolism];


Pssm-ID: 441379 [Multi-domain]  Cd Length: 53  Bit Score: 92.54  E-value: 1.97e-27
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 506427420  1 MDRWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFEK 51
Cdd:COG1773   1 MKKYQCKVCGYVYDPAEGDPENGIPPGTPFEDLPDDWVCPVCGAGKEDFEP 51
rubredoxin cd00730
Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are ...
 3-51 7.78e-22

Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.


Pssm-ID: 238372 [Multi-domain]  Cd Length: 50  Bit Score: 78.12  E-value: 7.78e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 506427420  3 RWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFEK 51
Cdd:cd00730   1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDFEP 49
PRK05452 PRK05452
anaerobic nitric oxide reductase flavorubredoxin; Provisional
 3-50 7.76e-21

anaerobic nitric oxide reductase flavorubredoxin; Provisional


Pssm-ID: 235475 [Multi-domain]  Cd Length: 479  Bit Score: 82.88  E-value: 7.76e-21
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 506427420   3 RWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFE 50
Cdd:PRK05452 425 RMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVFD 472
Rubredoxin pfam00301
Rubredoxin;
4-49 2.11e-20

Rubredoxin;


Pssm-ID: 459752 [Multi-domain]  Cd Length: 46  Bit Score: 74.59  E-value: 2.11e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 506427420   4 WVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDF 49
Cdd:pfam00301  1 YECKVCGYVYDPAKGDPDNGIPPGTPFEDLPDDWVCPDCGAGKDQF 46
 
Name Accession Description Interval E-value
NorV COG1773
Flavorubredoxin [Inorganic ion transport and metabolism];
1-51 1.97e-27

Flavorubredoxin [Inorganic ion transport and metabolism];


Pssm-ID: 441379 [Multi-domain]  Cd Length: 53  Bit Score: 92.54  E-value: 1.97e-27
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 506427420  1 MDRWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFEK 51
Cdd:COG1773   1 MKKYQCKVCGYVYDPAEGDPENGIPPGTPFEDLPDDWVCPVCGAGKEDFEP 51
rubredoxin cd00730
Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are ...
 3-51 7.78e-22

Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.


Pssm-ID: 238372 [Multi-domain]  Cd Length: 50  Bit Score: 78.12  E-value: 7.78e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 506427420  3 RWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFEK 51
Cdd:cd00730   1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDFEP 49
PRK05452 PRK05452
anaerobic nitric oxide reductase flavorubredoxin; Provisional
 3-50 7.76e-21

anaerobic nitric oxide reductase flavorubredoxin; Provisional


Pssm-ID: 235475 [Multi-domain]  Cd Length: 479  Bit Score: 82.88  E-value: 7.76e-21
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 506427420   3 RWVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDFE 50
Cdd:PRK05452 425 RMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVFD 472
Rubredoxin pfam00301
Rubredoxin;
4-49 2.11e-20

Rubredoxin;


Pssm-ID: 459752 [Multi-domain]  Cd Length: 46  Bit Score: 74.59  E-value: 2.11e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 506427420   4 WVCTVCGYVYDPADGDPDNGVAPGTAWEDVPDDWECPTCGASKDDF 49
Cdd:pfam00301  1 YECKVCGYVYDPAKGDPDNGIPPGTPFEDLPDDWVCPDCGAGKDQF 46
rubredoxin_like cd00350
Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family ...
 3-51 4.63e-08

Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.


Pssm-ID: 238210 [Multi-domain]  Cd Length: 33  Bit Score: 43.31  E-value: 4.63e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 506427420  3 RWVCTVCGYVYDPADgdpdngvapgtawedvpDDWECPTCGASKDDFEK 51
Cdd:cd00350   1 KYVCPVCGYIYDGEE-----------------APWVCPVCGAPKDKFEK 32
YotD COG1592
Rubrerythrin [Energy production and conversion];
4-51 3.68e-06

Rubrerythrin [Energy production and conversion];


Pssm-ID: 441200 [Multi-domain]  Cd Length: 180  Bit Score: 40.96  E-value: 3.68e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 506427420   4 WVCTVCGYVYDpadgdpdnGVAPgtawedvPDdwECPTCGASKDDFEK 51
Cdd:COG1592  148 WVCPVCGYIHE--------GKEA-------PE--KCPVCGHPKSYFEL 178
rubredoxin_SM cd00729
Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present ...
 4-52 1.65e-03

Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.


Pssm-ID: 238371 [Multi-domain]  Cd Length: 34  Bit Score: 31.78  E-value: 1.65e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 506427420  4 WVCTVCGYVYDpADGDPDNgvapgtawedvpddweCPTCGASKDDFEKE 52
Cdd:cd00729   3 WVCPVCGYIHE-GEEAPEK----------------CPICGAPKEKFEEF 34
 
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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