Ribonucleotide reductase: Difference between revisions
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== Function == | == Function == | ||
'''Ribonucleotide reductase''' (RNR) or '''ribonucleotide-diphosphate reductase''' catalyzes the formation of deoxyribonucleotides from ribonucleotides<ref>PMID:16756507</ref>. There are 3 classes of RNR.<br /> | '''Ribonucleotide reductase''' (RNR) or '''ribonucleotide-diphosphate reductase''' catalyzes the formation of deoxyribonucleotides from ribonucleotides<ref>PMID:16756507</ref>. There are 3 classes of RNR.<br /> | ||
* '''Class | * '''Class Ia RNR''' is a tetramer composed from large (RNR1) and small (RNR2) subunits. Class I RNR is iron-dependent and produces tyrosyl radical. Thimidine triphosphate (TTP) is an effector in the reaction<ref>PMID:21456967</ref>.<br /> | ||
* ''' Class Ib RNR''' contains 2 proteins: α (NrdE) and β (NrdF)<ref>PMID:21250660</ref>.<br /> | * ''' Class Ib RNR''' contains 2 proteins: α (NrdE) and β (NrdF)<ref>PMID:21250660</ref>.<br /> | ||
''E. Coli'' contains two types of RNR: the aerobic RNR belongs to class Ia and is composed of proteins R1 and R2, the anaerobic RNR belongs to class Ib. <br /> | |||
* ''' Class II RNR''' reduces ribonucleotide triphosphates using coenzyme B12<ref>PMID:11875520</ref>.<br /> | * ''' Class II RNR''' reduces ribonucleotide triphosphates using coenzyme B12<ref>PMID:11875520</ref>.<br /> | ||
* '''Class III RNR''' generate glycine radical using S-adenosyl methionine and Fe-S center<ref>PMID:17606358</ref>.<br /> | * '''Class III RNR''' generate glycine radical using S-adenosyl methionine and Fe-S center<ref>PMID:17606358</ref>.<br /> | ||
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**[[1zyz]], [[1zzd]], [[2cvs]], [[2cvt]], [[2cvu]], [[2cvv]], [[2cvw]], [[2cvx]], [[2cvy]] - yRNR R1 – yeast<BR /> | **[[1zyz]], [[1zzd]], [[2cvs]], [[2cvt]], [[2cvu]], [[2cvv]], [[2cvw]], [[2cvx]], [[2cvy]] - yRNR R1 – yeast<BR /> | ||
**[[1r1r | **[[1r1r]] - EcRNR R1 – ''Escherichia coli''<br /> | ||
**[[5r1r]], [[6r1r]], [[7r1r]] | **[[1mrr]] - EcRNR R1 + Mn<br /> | ||
**[[5r1r]], [[6r1r]], [[7r1r]], [[1r1r]] – EcRNR R1 (mutant) + R2<br /> | |||
*''Ribonucleotide reductase large subunit complex'' | *''Ribonucleotide reductase large subunit complex'' | ||
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**[[2zlf]], [[2zlg]] - yRNR R1 + peptide<BR /> | **[[2zlf]], [[2zlg]] - yRNR R1 + peptide<BR /> | ||
**[[2eud]] - yRNR R1 + ligand<BR /> | **[[2eud]] - yRNR R1 + ligand<BR /> | ||
**[[3rsr]] – yRNR + inhibitor<br | **[[3rsr]] – yRNR R1 + inhibitor<br /> | ||
**[[1qfn]] - EcRNR R1 + glutaredoxin 1<br /> | **[[1qfn]] - EcRNR R1 + glutaredoxin 1<br /> | ||
*RNR small subunit | *RNR small subunit | ||
**[[2xof]], [[ | **[[2xof]], [[1av8]], [[1rib]] – EcRNR R2 + Fe2O<BR /> | ||
** | **[[2alx]], [[1jqc]], [[1jpr]] - EcRNR R2 + Mn<br /> | ||
**[[1piy]], [[1r65]], [[1mxr]], [[1xik]] - EcRNR R2 + Fe<br /> | |||
**[[1piz]], [[1pj0]], [[1pj1]], [[1pim]], [[1piu]], [[1biq]], [[1pfr]] - EcRNR R2 (mutant) + Fe<BR /> | |||
**[[1yfd]], [[2av8]] - EcRNR R2 (mutant) + Fe2O<br /> | |||
**[[1pm2]] - EcRNR R2 (mutant) + Mn<br /> | |||
**[[3hf1]], [[2vux]], [[2uw2]], [[4djn]] – hRNR M2<BR /> | **[[3hf1]], [[2vux]], [[2uw2]], [[4djn]] – hRNR M2<BR /> | ||
**[[2p1i]] – RNR R2 – ''Plasmodium yoelii''<BR /> | **[[2p1i]] – RNR R2 – ''Plasmodium yoelii''<BR /> | ||
**[[2o1z]] - RNR R2 – ''Plasmodium vivax''<BR /> | **[[2o1z]] - RNR R2 – ''Plasmodium vivax''<BR /> | ||
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*''Ribonucleotide reductase small subunit complex'' | *''Ribonucleotide reductase small subunit complex'' | ||
**[[1rsr]], [[1rsv]] - EcRNR R2 (mutant) + N3 | **[[1rsr]], [[1rsv]] - EcRNR R2 (mutant) + Fe + N3<BR /> | ||
**[[1rnr]] – EcRNR R2 (mutant) + Fe + dopa<BR /> | |||
**[[1rnr]] – EcRNR R2 (mutant) + dopa<BR /> | **[[5ci4]] – EcRNR R2 (mutant) + Fe2O<br /> | ||
**[[5ci4]] – EcRNR R2 (mutant) + | **[[5ci3]], [[5ci0]], [[5ci1]], [[5ci2]] – EcRNR R2 (mutant) + fluoro-tyrosine + Fe<sub>2</sub>O<br /> | ||
**[[5ci3]], [[5ci0]], [[5ci1]], [[5ci2]] – EcRNR R2 (mutant) + fluoro-tyrosine + | |||
**[[1w69]] – mRNR R2 + acetate<br /> | **[[1w69]] – mRNR R2 + acetate<br /> | ||
**[[6cwp]] – FjRNR + Mn + peptide<br /> | **[[6cwp]] – FjRNR + Mn + peptide<br /> | ||
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*Ribonucleotide reductase small+large subunit | *Ribonucleotide reductase small+large subunit | ||
**[[3uus]] | **[[3uus]] - EcRNR R1+ R2 + Fe + ATP<br /> | ||
**[[4erp]] - EcRNR R1+ R2 + | **[[4erm]] - EcRNR R1+ R2 + Fe2O + ATP + ADP<br /> | ||
**[[2xak]], [[2xap]], [[2xo4]], [[2xo5]] - EcRNR R1+ R2 peptide<BR /> | **[[4erp]] - EcRNR R1+ R2 + Fe2O + ATP<br /> | ||
**[[2xav]], [[2xaw]], [[2xax]], [[2xay]], [[2xaz]], [[2x0x]] - EcRNR R1 (mutant) + R2 peptide<BR /> | **[[2xak]], [[2xap]], [[2xo4]], [[2xo5]] - EcRNR R1 modified+ R2 peptide<BR /> | ||
**[[5cns]], [[5cnt]], [[5cnv]], [[5cnu]] - EcRNR R1 + R2 + 2 nucleotides<br /> | **[[2xav]], [[2xaw]], [[2xax]], [[2xay]], [[2xaz]], [[2x0x]] - EcRNR R1 (mutant) modified + R2 peptide<BR /> | ||
**[[5cns]], [[5cnt]], [[5cnv]], [[5cnu]] - EcRNR R1 + R2 + Fe2O + 2 nucleotides<br /> | |||
**[[2r1r]] - EcRNR R1 + R2 + TTP<BR /> | |||
**[[3r1r]] - EcRNR R1 + R2 + AMPPNP<BR /> | |||
**[[4r1r]] - EcRNR R1 + R2 + GDP + TTP<BR /> | |||
**[[2bq1]] - StRNR R1+ R2<br /> | **[[2bq1]] - StRNR R1+ R2<br /> | ||
**[[5im3]] - RNR + dATP – ''Pseudomonas aeruginosa''<br /> | **[[5im3]] - RNR + dATP – ''Pseudomonas aeruginosa''<br /> | ||
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**[[6cgm]] - BaRNR subunit NrdE – ''Bacillus subtilis''<br /> | **[[6cgm]] - BaRNR subunit NrdE – ''Bacillus subtilis''<br /> | ||
**[[6cgn]], [[6cgl]] - BaRNR subunit NrdE + AMP derivative <br /> | **[[6cgn]], [[6cgl]] - BaRNR subunit NrdE + AMP derivative <br /> | ||
**[[1pem]] - StRNR NrdE – Salmonella typhimurium<br /> | |||
**[[1peo]], [[1peq]], [[1peu]] - StRNR NrdE + nucleotide<br /> | |||
**[[2bq1]] - StRNR NrdE + NrdF + Fe + GTP<br /> | |||
**[[4dr0]] - BaRNR subunit NrdF + Mn <br /> | **[[4dr0]] - BaRNR subunit NrdF + Mn <br /> | ||
**[[4bmq]], [[4bmr]], [[4bmt]] - BcRNR NrdF + Fe – ''Bacillus cereus''<br /> | **[[4bmq]], [[4bmr]], [[4bmt]] - BcRNR NrdF + Fe – ''Bacillus cereus''<br /> | ||
**[[4bmu]] - BcRNR NrdF + Mn<br /> | **[[4bmu]] - BcRNR NrdF + Mn<br /> | ||
**[[4bmo]], [[4bmp]] - BcRNR NrdF + NrdI + Fe + FMN<br /> | **[[4bmo]], [[4bmp]] - BcRNR NrdF + NrdI + Fe + FMN<br /> | ||
**[[4m1f]] - EcRNR NrdF<br /> | |||
**[[3n37]] - EcRNR NrdF + Mn<br /> | |||
**[[3n38]] - EcRNR NrdF + Fe<br /> | |||
**[[3n39]], [[3n3a]] - EcRNR NrdF + NrdI + Mn + FMN<br /> | |||
**[[3n3b]] - EcRNR NrdF + NrdI + Mn + FMN + Fe2O<br /> | |||
**[[4n82]] – SsRNR + FMN – ''Streptococcus sanguinis''<br /> | |||
**[[4n83]] - SsRNR NrdF + Mn<br /> | |||
**[[1r2f]] - StRNR NrdF + Fe<br /> | |||
**[[2r2f]] - StRNR NrdF + Fe2O<br /> | |||
**[[3mjo]] - CcRNR NrdF + Mn - ''Corynebacterium ammoniagenes'' <br /> | |||
**[[1kgn]], [[1kgo]], [[1kgp]], [[1oqu]], [[3dhz]] - CcRNR NrdF + Fe<br /> | |||
*'''Class II ribonucleotide reductase''' | *'''Class II ribonucleotide reductase''' | ||
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**[[3o0o]] - TmRNR + TTP + GDP + Mg + deoxyadenosine + B12<br /> | **[[3o0o]] - TmRNR + TTP + GDP + Mg + deoxyadenosine + B12<br /> | ||
**[[3o0q]] - TmRNR + TTP + GDP + Mg + adenosine <br /> | **[[3o0q]] - TmRNR + TTP + GDP + Mg + adenosine <br /> | ||
**[[1l1l]] – RNR (mutant) – ''Lactobacillus leichmannii''<br /> | **[[1l1l]] – RNR (mutant) – ''Lactobacillus leichmannii''<br /> | ||