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Conserved domains on  [gi|149068637|gb|EDM18189|]
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ribonucleotide reductase M1 (mapped), isoform CRA_a [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RNR_PFL super family cl38938
Ribonucleotide reductase and Pyruvate formate lyase; Ribonucleotide reductase (RNR) and ...
 1-56 1.22e-25

Ribonucleotide reductase and Pyruvate formate lyase; Ribonucleotide reductase (RNR) and pyruvate formate lyase (PFL) are believed to have diverged from a common ancestor. They have a structurally similar ten-stranded alpha-beta barrel domain that hosts the active site, and are radical enzymes. RNRs are found in all organisms and provide the only mechanism by which nucleotides are converted to deoxynucleotides. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs use a diiron-tyrosyl radical while Class II RNRs use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. PFL, an essential enzyme in anaerobic bacteria, catalyzes the conversion of pyruvate and CoA to acteylCoA and formate in a mechanism that uses a glycyl radical.


The actual alignment was detected with superfamily member PLN02437:

Pssm-ID: 476821 [Multi-domain]  Cd Length: 813  Bit Score: 96.74  E-value: 1.22e-25
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 149068637   1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPAQITMKVIQGLYSGVTTQTM 56
Cdd:PLN02437   1 MYVVKRDGRQETVHFDKITARLKKLSYGLSQDHCDPVLVAQKVCAGVYKGVTTSQL 56
 
Name Accession Description Interval E-value
PLN02437 PLN02437
ribonucleoside--diphosphate reductase large subunit
 1-56 1.22e-25

ribonucleoside--diphosphate reductase large subunit


Pssm-ID: 178056 [Multi-domain]  Cd Length: 813  Bit Score: 96.74  E-value: 1.22e-25
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 149068637   1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPAQITMKVIQGLYSGVTTQTM 56
Cdd:PLN02437   1 MYVVKRDGRQETVHFDKITARLKKLSYGLSQDHCDPVLVAQKVCAGVYKGVTTSQL 56
ATP-cone pfam03477
ATP cone domain;
1-54 1.10e-09

ATP cone domain;


Pssm-ID: 397513 [Multi-domain]  Cd Length: 86  Bit Score: 48.80  E-value: 1.10e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 149068637   1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPA-QITMKVIQGLYSGVTTQ 54
Cdd:pfam03477  1 MKVIKRDGRREPFDKEKIRRAIEKACEKSPDQADELAsEVEEELEKSLEDGISTE 55
 
Name Accession Description Interval E-value
PLN02437 PLN02437
ribonucleoside--diphosphate reductase large subunit
 1-56 1.22e-25

ribonucleoside--diphosphate reductase large subunit


Pssm-ID: 178056 [Multi-domain]  Cd Length: 813  Bit Score: 96.74  E-value: 1.22e-25
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 149068637   1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPAQITMKVIQGLYSGVTTQTM 56
Cdd:PLN02437   1 MYVVKRDGRQETVHFDKITARLKKLSYGLSQDHCDPVLVAQKVCAGVYKGVTTSQL 56
ATP-cone pfam03477
ATP cone domain;
1-54 1.10e-09

ATP cone domain;


Pssm-ID: 397513 [Multi-domain]  Cd Length: 86  Bit Score: 48.80  E-value: 1.10e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 149068637   1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPA-QITMKVIQGLYSGVTTQ 54
Cdd:pfam03477  1 MKVIKRDGRREPFDKEKIRRAIEKACEKSPDQADELAsEVEEELEKSLEDGISTE 55
PRK07111 PRK07111
anaerobic ribonucleoside triphosphate reductase; Provisional
 2-44 3.49e-03

anaerobic ribonucleoside triphosphate reductase; Provisional


Pssm-ID: 235937 [Multi-domain]  Cd Length: 735  Bit Score: 33.00  E-value: 3.49e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 149068637   2 HVIKRDGRQERVMFDKITSRIQKLC--YGLNMDFVDPAQITMKVI 44
Cdd:PRK07111   4 YIVKRDGREVPFDEEKITNAIFKAAeaVGGELDESEAIELTQKVI 48
nrdA PHA02572
ribonucleoside-diphosphate reductase subunit alpha; Provisional
 1-53 3.90e-03

ribonucleoside-diphosphate reductase subunit alpha; Provisional


Pssm-ID: 222883 [Multi-domain]  Cd Length: 753  Bit Score: 33.15  E-value: 3.90e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 149068637   1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNmdfVDPAQITMKVIQGLYSGVTT 53
Cdd:PHA02572   4 INVIKSSGVSQPFDLEKIHKVLEWACEGTG---VDPSELEENSKIQLRDGMTT 53
 
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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