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Conserved domains on  [gi|1085573190|gb|OGX27194|]
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MAG: rubredoxin [Omnitrophica WOR_2 bacterium RIFCSPHIGHO2_02_FULL_45_21]

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];
1-52 5.52e-27

Flavorubredoxin [Inorganic ion transport and metabolism];


:

Pssm-ID: 441379 [Multi-domain]  Cd Length: 53  Bit Score: 91.38  E-value: 5.52e-27
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 1085573190  1 MDKYRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:COG1773    1 MKKYQCKVCGYVYDPAEGDPENGIPPGTPFEDLPDDWVCPVCGAGKEDFEPV 52
 
Name Accession Description Interval E-value
NorV COG1773
Flavorubredoxin [Inorganic ion transport and metabolism];
1-52 5.52e-27

Flavorubredoxin [Inorganic ion transport and metabolism];


Pssm-ID: 441379 [Multi-domain]  Cd Length: 53  Bit Score: 91.38  E-value: 5.52e-27
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 1085573190  1 MDKYRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:COG1773    1 MKKYQCKVCGYVYDPAEGDPENGIPPGTPFEDLPDDWVCPVCGAGKEDFEPV 52
rubredoxin cd00730
Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are ...
 3-52 3.81e-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: 78.89  E-value: 3.81e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 1085573190  3 KYRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:cd00730    1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDFEPL 50
Rubredoxin pfam00301
Rubredoxin;
4-49 1.08e-20

Rubredoxin;


Pssm-ID: 459752 [Multi-domain]  Cd Length: 46  Bit Score: 75.36  E-value: 1.08e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1085573190  4 YRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMF 49
Cdd:pfam00301  1 YECKVCGYVYDPAKGDPDNGIPPGTPFEDLPDDWVCPDCGAGKDQF 46
PRK05452 PRK05452
anaerobic nitric oxide reductase flavorubredoxin; Provisional
 5-52 3.41e-18

anaerobic nitric oxide reductase flavorubredoxin; Provisional


Pssm-ID: 235475 [Multi-domain]  Cd Length: 479  Bit Score: 75.18  E-value: 3.41e-18
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1085573190   5 RCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:PRK05452  427 QCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVFDEL 474
 
Name Accession Description Interval E-value
NorV COG1773
Flavorubredoxin [Inorganic ion transport and metabolism];
1-52 5.52e-27

Flavorubredoxin [Inorganic ion transport and metabolism];


Pssm-ID: 441379 [Multi-domain]  Cd Length: 53  Bit Score: 91.38  E-value: 5.52e-27
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 1085573190  1 MDKYRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:COG1773    1 MKKYQCKVCGYVYDPAEGDPENGIPPGTPFEDLPDDWVCPVCGAGKEDFEPV 52
rubredoxin cd00730
Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are ...
 3-52 3.81e-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: 78.89  E-value: 3.81e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 1085573190  3 KYRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:cd00730    1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDFEPL 50
Rubredoxin pfam00301
Rubredoxin;
4-49 1.08e-20

Rubredoxin;


Pssm-ID: 459752 [Multi-domain]  Cd Length: 46  Bit Score: 75.36  E-value: 1.08e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1085573190  4 YRCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMF 49
Cdd:pfam00301  1 YECKVCGYVYDPAKGDPDNGIPPGTPFEDLPDDWVCPDCGAGKDQF 46
PRK05452 PRK05452
anaerobic nitric oxide reductase flavorubredoxin; Provisional
 5-52 3.41e-18

anaerobic nitric oxide reductase flavorubredoxin; Provisional


Pssm-ID: 235475 [Multi-domain]  Cd Length: 479  Bit Score: 75.18  E-value: 3.41e-18
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1085573190   5 RCTVCGYIYDPAIGDSSQGINPASAFEDLPDTWVCPECGVGKEMFEKI 52
Cdd:PRK05452  427 QCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVFDEL 474
rubredoxin_like cd00350
Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family ...
 3-52 7.57e-09

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: 45.24  E-value: 7.57e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 1085573190  3 KYRCTVCGYIYDPAIgdssqginpasafedlpDTWVCPECGVGKEMFEKI 52
Cdd:cd00350    1 KYVCPVCGYIYDGEE-----------------APWVCPVCGAPKDKFEKL 33
YotD COG1592
Rubrerythrin [Energy production and conversion];
2-52 8.02e-06

Rubrerythrin [Energy production and conversion];


Pssm-ID: 441200 [Multi-domain]  Cd Length: 180  Bit Score: 39.80  E-value: 8.02e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1085573190   2 DKYRCTVCGYIYDpaiGDSSqginpasafedlPDtwVCPECGVGKEMFEKI 52
Cdd:COG1592   146 VVWVCPVCGYIHE---GKEA------------PE--KCPVCGHPKSYFELF 179
rubredoxin_SM cd00729
Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present ...
 2-52 2.45e-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: 31.40  E-value: 2.45e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1085573190  2 DKYRCTVCGYIYDPaigdssqginpasafEDLPDtwVCPECGVGKEMFEKI 52
Cdd:cd00729    1 KVWVCPVCGYIHEG---------------EEAPE--KCPICGAPKEKFEEF 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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