SMTL ID : 1zpt.1

Escherichia coli Methylenetetrahydrofolate Reductase (reduced) complexed with NADH, pH 7.25

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-tetramer

Ligands

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

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

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

FAD.2: 24 residues within 4Å: Chain A: T.59, Y.60, A.62, 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.3 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:L.117, A:A.150, A:I.181 Hydrogen bonds: A:Y.60, A:Y.60, A:A.62, 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:D.120, A:S.133, A:A.150, A:K.160, A:K.160, A:N.168, A:R.171 Salt bridges: A:R.118, A:K.172, A:K.172 pi-Stacking: A:Y.131, A:Y.131 FAD.6: 23 residues within 4Å: Chain B: E.28, T.59, Y.60, H.88, T.90, L.117, R.118, G.119, 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 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:A.150, B:I.181 Hydrogen bonds: B:Y.60, B:R.118, B:R.118, B:G.119, B:A.132, B:Y.152, B:Y.152, B:H.156, B:E.158, B:D.165, B:N.168, B:R.171 Water bridges: B:A.150, B:N.168 Salt bridges: B:K.172, B:K.172 pi-Stacking: B:Y.131 FAD.9: 24 residues within 4Å: Chain C: T.59, Y.60, A.62, 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 33 PLIP interactions: 33 interactions with chain C Hydrophobic interactions: C:L.117, C:A.150, C:I.181 Hydrogen bonds: C:Y.60, C:Y.60, C:A.62, 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:E.158, C:D.165, C:D.165, C:N.168, C:R.171 Water bridges: C:D.120, C:D.120, C:S.133, C:A.150, C:K.160, C:K.160, 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.12: 23 residues within 4Å: Chain D: 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.13 34 PLIP interactions: 34 interactions with chain D Hydrophobic interactions: D:L.117, D:A.150, D:Y.152, D:I.181 Hydrogen bonds: D:Y.60, D:Y.60, D:R.118, D:R.118, D:G.119, D:D.120, D:D.120, D:A.132, D:Y.152, D:Y.152, D:H.156, D:D.165, D:D.165, D:N.168, D:R.171 Water bridges: D:T.90, D:R.118, D:D.120, D:L.121, D:S.133, D:A.150, D:H.156, D:K.160, D:N.168, D:R.171 Salt bridges: D:R.118, D:K.172, D:K.172 pi-Stacking: D:Y.131, D:Y.131

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

NAI.3: 12 residues within 4Å: Chain A: E.28, F.30, T.59, G.61, D.120, Q.183, F.184, F.223, M.226, Y.275, L.277 Ligands: FAD.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.59 Hydrogen bonds: A:T.59, A:Q.183, A:Q.183 Water bridges: A:T.59, A:G.61 pi-Stacking: A:F.223, A:Y.275 NAI.7: 10 residues within 4Å: Chain B: E.28, F.30, T.59, Q.183, F.184, F.223, M.226, 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:Q.183, B:Q.183, B:Y.275 pi-Stacking: B:F.223, B:Y.275 NAI.10: 12 residues within 4Å: Chain C: E.28, F.30, T.59, G.61, D.120, Q.183, F.184, F.223, M.226, Y.275, L.277 Ligands: FAD.9 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:T.59 Hydrogen bonds: C:T.59, C:T.59, C:Q.183, C:Q.183 Water bridges: C:T.59, C:G.61 pi-Stacking: C:F.223, C:Y.275 NAI.13: 12 residues within 4Å: Chain D: E.28, F.30, T.59, S.64, D.120, Q.183, F.184, F.223, M.226, Y.275, L.277 Ligands: FAD.12 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:T.59 Hydrogen bonds: D:T.59, D:T.59, D:S.64, D:D.120, D:Q.183, D:Q.183, D:Q.183 Water bridges: D:E.28, D:T.59, D:Y.60 pi-Stacking: D:F.223, D:F.223, D:Y.275

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: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
B

D
C

5,10-methylenetetrahydrofolate reductase

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