SMTL ID : 1zrq.3 (2 other biounits)

Escherichia coli Methylenetetrahydrofolate Reductase (reduced) complexed with NADH, pH 6.0

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-hexamer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: R.230, P.232, A.233, W.234 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.233, A:W.234 Salt bridges: A:R.230 SO4.2: 4 residues within 4Å: Chain A: S.44, R.279, A.280, E.281 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.280, A:E.281 Salt bridges: A:R.279 SO4.5: 4 residues within 4Å: Chain B: S.44, R.279, A.280, E.281 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:A.280, B:E.281 Water bridges: B:M.282 Salt bridges: B:R.279 SO4.8: 4 residues within 4Å: Chain C: S.44, R.279, A.280, E.281 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:S.44, C:R.47, C:A.280, C:E.281 Water bridges: C:M.282 Salt bridges: C:R.279 SO4.11: 4 residues within 4Å: Chain D: R.230, P.232, A.233, W.234 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:A.233, D:W.234 Salt bridges: D:R.230 SO4.12: 4 residues within 4Å: Chain D: S.44, R.279, A.280, E.281 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:A.280, D:E.281 Salt bridges: D:R.279 SO4.15: 4 residues within 4Å: Chain E: S.44, R.279, A.280, E.281 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:A.280, E:E.281 Water bridges: E:M.282 Salt bridges: E:R.279 SO4.18: 4 residues within 4Å: Chain F: S.44, R.279, A.280, E.281 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:S.44, F:R.47, F:A.280, F:E.281 Water bridges: F:M.282 Salt bridges: F:R.279

6 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.3: 24 residues within 4Å: Chain A: E.28, T.59, Y.60, H.88, T.90, L.117, R.118, G.119, D.120, Y.131, A.132, A.150, Y.152, H.156, E.158, A.159, D.165, N.168, R.171, K.172, I.181, Q.183, Y.275 Ligands: NAI.4 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:L.117, A:L.117, A:A.150, A:I.181 Hydrogen bonds: A:Y.60, A:Y.60, A:H.88, A:R.118, A:R.118, A:G.119, A:D.120, A:A.132, A:Y.152, A:Y.152, A:H.156, A:E.158, A:D.165, A:N.168, A:R.171 Water bridges: A:D.120, A:R.171 Salt bridges: A:K.172, A:K.172 pi-Stacking: A:Y.131, A:Y.131 FAD.6: 24 residues within 4Å: Chain B: E.28, T.59, Y.60, H.88, T.90, L.117, R.118, G.119, D.120, Y.131, A.132, A.150, Y.152, H.156, E.158, A.159, D.165, N.168, R.171, K.172, I.181, Q.183, Y.275 Ligands: NAI.7 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:L.117, B:A.150, B:I.181 Hydrogen bonds: B:Y.60, B:Y.60, B:R.118, B:R.118, B:G.119, B:D.120, B:D.120, B:A.132, B:Y.152, B:Y.152, B:H.156, B:E.158, B:D.165, B:D.165, B:N.168, B:R.171 Water bridges: B:D.120, B:D.120, B:D.120, B:S.133, B:A.150, B:N.168, B:R.171, B:Q.183 Salt bridges: B:K.172, B:K.172 pi-Stacking: B:Y.131, B:Y.131 FAD.9: 23 residues within 4Å: Chain C: T.59, Y.60, H.88, T.90, L.117, R.118, G.119, D.120, Y.131, A.132, A.150, Y.152, H.156, E.158, A.159, D.165, N.168, R.171, K.172, I.181, Q.183, Y.275 Ligands: NAI.10 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:A.150, C:I.181 Hydrogen bonds: C:Y.60, C:Y.60, C:H.88, C:R.118, C:R.118, C:G.119, C:D.120, C:D.120, C:A.132, C:Y.152, C:Y.152, C:H.156, C:D.165, C:D.165, C:N.168, C:R.171 Water bridges: C:R.118, C:D.120, C:A.150, C:N.168, C:R.171 Salt bridges: C:R.118, C:K.172, C:K.172 pi-Stacking: C:Y.131, C:Y.131 FAD.13: 24 residues within 4Å: Chain D: E.28, T.59, Y.60, H.88, T.90, L.117, R.118, G.119, D.120, Y.131, A.132, A.150, Y.152, H.156, E.158, A.159, D.165, N.168, R.171, K.172, I.181, Q.183, Y.275 Ligands: NAI.14 23 PLIP interactions: 23 interactions with chain D Hydrophobic interactions: D:L.117, D:L.117, D:A.150, D:I.181 Hydrogen bonds: D:Y.60, D:Y.60, D:R.118, D:R.118, D:G.119, D:D.120, D:A.132, D:Y.152, D:Y.152, D:D.165, D:D.165, D:N.168, D:R.171 Water bridges: D:D.120, D:R.171 Salt bridges: D:K.172, D:K.172 pi-Stacking: D:Y.131, D:Y.131 FAD.16: 24 residues within 4Å: Chain E: E.28, T.59, Y.60, H.88, T.90, L.117, R.118, G.119, D.120, Y.131, A.132, A.150, Y.152, H.156, E.158, A.159, D.165, N.168, R.171, K.172, I.181, Q.183, Y.275 Ligands: NAI.17 30 PLIP interactions: 30 interactions with chain E Hydrophobic interactions: E:L.117, E:A.150, E:I.181 Hydrogen bonds: E:Y.60, E:Y.60, E:H.88, E:R.118, E:R.118, E:G.119, E:D.120, E:A.132, E:Y.152, E:Y.152, E:H.156, E:E.158, E:D.165, E:N.168, E:R.171 Water bridges: E:D.120, E:D.120, E:D.120, E:S.133, E:A.150, E:N.168, E:R.171, E:Q.183 Salt bridges: E:K.172, E:K.172 pi-Stacking: E:Y.131, E:Y.131 FAD.19: 23 residues within 4Å: Chain F: T.59, Y.60, H.88, T.90, L.117, R.118, G.119, D.120, Y.131, A.132, A.150, Y.152, H.156, E.158, A.159, D.165, N.168, R.171, K.172, I.181, Q.183, Y.275 Ligands: NAI.20 25 PLIP interactions: 25 interactions with chain F Hydrophobic interactions: F:A.150, F:I.181 Hydrogen bonds: F:Y.60, F:Y.60, F:R.118, F:R.118, F:G.119, F:D.120, F:A.132, F:Y.152, F:Y.152, F:H.156, F:D.165, F:N.168, F:R.171 Water bridges: F:R.118, F:D.120, F:A.150, F:N.168, F:R.171 Salt bridges: F:R.118, F:K.172, F:K.172 pi-Stacking: F:Y.131, F:Y.131

6 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.4: 10 residues within 4Å: Chain A: F.30, R.33, T.59, G.61, Q.183, F.184, F.223, T.227, L.277 Ligands: FAD.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:T.59 Hydrogen bonds: A:E.28, A:E.28, A:T.59, A:T.59, A:Q.183, A:Q.183 Salt bridges: A:R.33 pi-Stacking: A:F.223, A:F.223 NAI.7: 11 residues within 4Å: Chain B: E.28, F.30, T.59, D.120, Q.183, F.184, F.223, T.227, Y.275, L.277 Ligands: FAD.6 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:T.59 Hydrogen bonds: B:T.59, B:T.59, B:Q.183, B:Q.183 pi-Stacking: B:F.223, B:F.223 NAI.10: 12 residues within 4Å: Chain C: E.28, F.30, T.59, Y.60, G.61, S.64, Q.183, F.184, F.223, Y.275, L.277 Ligands: FAD.9 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:T.59 Hydrogen bonds: C:E.28, C:E.28, C:T.59, C:T.59, C:S.64, C:Q.183 pi-Stacking: C:F.223, C:F.223 NAI.14: 10 residues within 4Å: Chain D: F.30, R.33, T.59, G.61, Q.183, F.184, F.223, T.227, L.277 Ligands: FAD.13 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:T.59 Hydrogen bonds: D:E.28, D:T.59, D:T.59, D:Q.183, D:Q.183 Salt bridges: D:R.33 pi-Stacking: D:F.223, D:F.223 NAI.17: 11 residues within 4Å: Chain E: E.28, F.30, T.59, D.120, Q.183, F.184, F.223, T.227, Y.275, L.277 Ligands: FAD.16 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:T.59 Hydrogen bonds: E:T.59, E:T.59, E:D.120, E:Q.183, E:Q.183 pi-Stacking: E:F.223, E:F.223 NAI.20: 12 residues within 4Å: Chain F: E.28, F.30, T.59, Y.60, G.61, S.64, Q.183, F.184, F.223, Y.275, L.277 Ligands: FAD.19 9 PLIP interactions: 9 interactions with chain F Hydrophobic interactions: F:T.59 Hydrogen bonds: F:E.28, F:T.59, F:S.64, F:D.120, F:Q.183, F:Y.275 pi-Stacking: F:F.223, F:F.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pejchal, R. et al., Structures of NADH and CH(3)-H(4)Folate Complexes of Escherichia coli Methylenetetrahydrofolate Reductase Reveal a Spartan Strategy for a Ping-Pong Reaction. Biochemistry (2005)

Release Date

2005-08-09

Peptides

5,10-methylenetetrahydrofolate reductase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

5,10-methylenetetrahydrofolate reductase

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