Ribonucleotide reductase 3D structures

3D Structures of Ribonucleotide reductase3D Structures of Ribonucleotide reductase

Updated on 18-October-2023

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• Class Ia ribonucleotide reductase
• Ribonucleotide reductase large subunit R1
  • 1zyz, 1zzd, 2cvs, 2cvt, 2cvu, 2cvv, 2cvw, 2cvx, 2cvy - yRNR R1 – yeast
    
  • 1rlr - EcRNR R1 – Escherichia coli
    
  • 1mrr - EcRNR R1 + Mn
    
  • 5r1r, 6r1r, 7r1r, 1r1r – EcRNR R1 (mutant) + R2
    
• Ribonucleotide reductase large subunit complex
  • 3hnc – hRNR M1 + TTP – human
    
  • 3hnd – hRNR M1 + GDP + TTP
    
  • 3hne, 3hnf – hRNR M1 + ATP + TTP
    
  • 2wgh, 5d1y - hRNR M1 + ATP + Mg
    
  • 6aui - hRNR M1 + ATP + CDP
    
  • 5tus, 4x3v, 6l3r, 6l7l, 6lkm - hRNR M1 + inhibitor + TTP
    
  • 3paw - yRNR R1 + ATP
    
  • 3k8t - yRNR R1 + ADP analog
    
  • 3s87 - yRNR R1 + ADP + GTP
    
  • 3s8a - yRNR R1 (mutant) + GTP
    
  • 3tba - yRNR R1 (mutant) + GTP + ADP
    
  • 3s8b - yRNR R1 + AMPPNP + CDP
    
  • 3s8c, 3tb9 - yRNR R1 (mutant) + AMPPNP + CDP
    
  • 2zlf, 2zlg - yRNR R1 + peptide
    
  • 2eud - yRNR R1 + ligand
    
  • 3rsr – yRNR R1 + inhibitor
    
  • 1qfn - EcRNR R1 + glutaredoxin 1
    
  • 7agj - AaRNR R1 + ATP – "Aquifex aeolicus
    
• RNR small subunit R2
  • 3hf1, 2vux, 2uw2, 4djn, 3olj – hRNR M2
    
  • 3vpm, 3vpn, 3vpo – hRNR M2 (mutant)
    
  • 1w68, 1h0n, 1h0o, 1xsm – mRNR R2 – mouse
    
  • 1smq, 1sms – yRNR 2
    
  • 1jk0 – yRNR Y2+Y4
    
  • 2xof, 1av8, 1rib – EcRNR R2 + Fe2O
    
  • 2alx, 1jqc, 1jpr - EcRNR R2 + Mn
    
  • 1piy, 1r65, 1mxr, 1xik, 7ai8, 7ai9, 7bet - EcRNR R2 + Fe
    
  • 1piz, 1pj0, 1pj1, 1pim, 1piu, 1biq, 1pfr - EcRNR R2 (mutant) + Fe
    
  • 1yfd, 2av8 - EcRNR R2 (mutant) + Fe2O
    
  • 1pm2 - EcRNR R2 (mutant) + Mn
    
  • 2p1i – RNR R2 – Plasmodium yoelii
    
  • 2o1z - RNR R2 – Plasmodium vivax
    
  • 4d8f, 4d8g, 4m1i - CtRNR R2 + Fe + Mn
    
  • 1syy - CtRNR R2 + Fe + Pb– Chlamydia trachomatis
    
  • 2ani - CtRNR R2 (mutant) + Fe + Pb
    
  • 4m1h - CtRNR R2
    
  • 1uzr – MtRNR R2 – Mycobacterium tuberculosis
    
  • 2rcc – RNR – Bacillus halodurans
    
  • 4n83 - SsRNR + Mn
    
  • 4hr5 - GkRNR – Geobacillus kaustophilus
    
  • 5omj, 5omk - GkRNR + Fe
    
  • 4hr0, 4hr4 - GkRNR + Fe + Mn
    
  • 6f6c, 6f6e, 6f6f, 6f6g, 6f6h, 6f6k, 6qjv, 6qk0, 6qk1, 6qk2 - GkRNR (mutant) + Fe + Mn
    
  • 6cwo, 6cwq - FjRNR + Mn – Flavobacterium johnsoniae
    
  • 6gp2, 6gp3 - RNR R2 – Mesoplasma florum
    
  • 7aik, 7ail, 7q39, 7q3c - AaRNR R2
    
  • 6y2n - RNR R2 – Saccharopolyspora erythraea
    
  • 6ebz, 6ebz - AuRNR R2 – Aerococcus urinae
    
  • 6qrz - RNR R2 – Sulfolobus acidocaldarius
    
  • 6zjk - RNR R2 – Clostridium botulinum
    
• Ribonucleotide reductase small subunit complex
  • 1w69 – mRNR R2 + acetate
    
  • 1rsr, 1rsv - EcRNR R2 (mutant) + Fe + N3
    
  • 1rnr – EcRNR R2 (mutant) + Fe + dopa
    
  • 5ci4 – EcRNR R2 (mutant) + Fe2O
    
  • 5ci3, 5ci0, 5ci1, 5ci2 – EcRNR R2 (mutant) + fluoro-tyrosine + Fe₂O
    
  • 6cwp – FjRNR + Mn + peptide
    
  • 4xbw – GkRNR + Mn
    
  • 6i94 – GkRNR (mutant) + Mn
    
  • 5dco, 4xb9, 4xbv – GkRNR + Fe
    
  • 6i93 – GkRNR (mutant) + Fe
    
  • 5dcr, 5dcs – GkRNR + Mn + Fe
    
  • 6i90, 6i92, 6i95, 6f65, 6f6b, 6f6l, 6f6m, 5ekb, 6qjv, 6qk0, 6qk1, 6qk2 – GkRNR (mutant) + Mn + Fe
    
  • 4ac8 – MtRNR + Mn + Fe
    
• Ribonucleotide reductase small+large subunit
  • 1r1r, 5r1r, 6r1r, 7r1r, 1r1r – EcRNR R1 (mutant) + R2
    
  • 3uus - EcRNR R1+ R2 + Fe + ATP
    
  • 4erm - EcRNR R1+ R2 + Fe2O + ATP + ADP
    
  • 4erp - EcRNR R1+ R2 + Fe2O + ATP
    
  • 2xak, 2xap, 2xo4, 2xo5 - EcRNR R1 modified+ R2 peptide
    
  • 2xav, 2xaw, 2xax, 2xay, 2xaz, 2x0x - EcRNR R1 (mutant) modified + R2 peptide
    
  • 5cns, 5cnt, 5cnv, 5cnu - EcRNR R1 + R2 + Fe2O + 2 nucleotides
    
  • 2r1r - EcRNR R1 + R2 + TTP
    
  • 3r1r - EcRNR R1 + R2 + AMPPNP
    
  • 6w4x - EcRNR R1 + R2 + GDP + TTP – Cryo EM
    
  • 4r1r - EcRNR R1 + R2 + GDP + TTP
    
  • 2bq1 - StRNR R1+ R2
    
  • 5im3 - RNR + dATP – Pseudomonas aeruginosa
    
  • 7mdi - RNR R1 + R2 + CDP + DTP – Neisseria gonorrhoea - Cryo EM
    
• Class Ib RNR ; NrdE – large subunit; NrdF – small subunit; NrdI – FMN containing flavoprotein
  • 6cgm - BaRNR NrdE – Bacillus subtilis
    
  • 6qo5, 6qo7, 6qo8, 6qo9, 6qob, 6tqv, 6tqw, 6tqx - BaRNR NrdF
    
  • 6tqy, 6tqz - BaRNR NrdF (mutant)
    
  • 4dr0 - BaRNR NrdF + Mn
    
  • 6myx - BaRNR NrdE + DTP – Cryo EM
    
  • 6mv9 - BaRNR NrdE + TTP + ADP
    
  • 6mt9, 6mve - BaRNR NrdE + TTP + ADP + ATP
    
  • 6mw3 - BaRNR NrdE + NrdF + DTP – Cryo EM
    
  • 6cgn, 6cgl - BaRNR NrdE + AMP derivative
    
  • 1pem - StRNR NrdE – Salmonella typhimurium
    
  • 1peo, 1peq, 1peu - StRNR NrdE + nucleotide
    
  • 2bq1 - StRNR NrdE + NrdF + Fe + GTP
    
  • 1r2f - StRNR NrdF + Fe
    
  • 2r2f - StRNR NrdF + Fe2O
    
  • 4dr0 - BaRNR NrdF + Mn
    
  • 4bmq, 4bmr, 4bmt - BcRNR NrdF + Fe – Bacillus cereus
    
  • 4bmu - BcRNR NrdF + Mn
    
  • 4bmo, 4bmp - BcRNR NrdF + NrdI + Fe + FMN
    
  • 7z3d, 7z3e - BcRNR NrdF + NrdI + Mn + FMN
    
  • 4m1f - EcRNR NrdF
    
  • 3n37 - EcRNR NrdF + Mn
    
  • 3n38 - EcRNR NrdF + Fe
    
  • 3n39, 3n3a - EcRNR NrdF + NrdI + Mn + FMN
    
  • 3n3b - EcRNR NrdF + NrdI + Mn + FMN + Fe2O
    
  • 4n82 – SsRNR + FMN – Streptococcus sanguinis
    
  • 4n83 - SsRNR NrdF + Mn
    
  • 3mjo - CaRNR NrdF + Mn - Corynebacterium ammoniagenes
    
  • 1kgn, 1kgo, 1kgp, 1oqu, 3dhz - CaRNR NrdF + Fe
    
• Class Id RNR or ribonucleotide-diphosphate reductase; NrdB – small subunit
  • 6sf4, 6sf5 - RNR β subunit – Leeuwenhoekiella blandensis
    
  • 6cwo, 6cwq - FjRNR b subunit 1-324 + Mn – Flavobacterium johnsoniae
    
  • 8dq4, 8dq5 - FjRNR b subunit (mutant) + Mn
    
  • 6dqw - FjRNR a subunit 1-565
    
  • 6dqx - RNR a subunit – Actinobacillus ureae
    
  • 8dq3 - RNR b subunit + Mn – Aggregatibacter actinomycetemcomitans
    
• Class Ie RNR
  • 6ebo - AuRNR beta subunit - Aerococcus urinae
    
  • 7mms, 7mmt, 7mmu, 7mmv, 7mmw - AuRNR beta subunit + Cu
    
  • 6ebp - AuRNR beta subunit + L-Dopa
    
  • 6ebz - AuRNR beta subunit + L-Dopa + SCN
    
  • 6ebq - AuRNR NrdI + FMN
    
  • 7mmp, 7mmq - AuRNR + NrdI + FMN
    
  • 7mmr - AuRNR + NrdI + FMN + Cu
    
  • 6dqx - RNR α subunit – Actinobacillu

s ureae

• Class II ribonucleotide reductase
  • 1xjf, 4col – TmRNR + DATP – Thermotoga maritima
    
  • 4coi, 4com, 4con – TmRNR
    
  • 1xjg, 1xjk, 1xje, 1xjn, 4coj - TmRNR + 2 nucleotides
    
  • 1xjj - TmRNR + GTP
    
  • 1xjm - TmRNR + TTP
    
  • 3o0n - TmRNR + TTP + Co + Mg + deoxyadenosine + B12
    
  • 3o0o - TmRNR + TTP + GDP + Mg + deoxyadenosine + B12
    
  • 3o0q - TmRNR + TTP + GDP + Mg + adenosine
    
  • 1l1l – RNR (mutant) – Lactobacillus leichmannii
    
• Class III ribonucleotide reductase
  • 1h78, 1h79, 1h7a, 1hk8 – T4RNR (mutant) + nucleotide triphosphate – bacteriophage T4
    
  • 1h7b – T4RNR (mutant)
    
  • 4u3e – TmRNR large subunit
    
• Vitamin B12-dependent RNR
  • 7b9p, 7b9q – RNR + DTP – Rhodobacter sphaeroides
    
• Anaerobic ribonucleotide-triphosphate reductase
  • 8p23, 8p27, 8p28, 8p2c, 8p2d, 8p2s, 8p39 – ARNR + DTP – Segatella copri - Cryo EM
    
• RNR
  • 7urg – RNR + TTP – Synechococcus phage – Cryo EM