SMTL ID : 3rho.1

Crystal structure of the E673Q MUTANT OF C-Terminal domain of 10'FORMYLTETRAHYDROFOLATE DEHYDROGENASE in complex with NADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

homo-tetramer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)(Covalent)

NAP.1: 26 residues within 4Å: Chain A: V.185, I.186, P.187, W.188, K.212, A.214, Q.215, S.244, G.245, G.249, Q.250, F.263, T.264, G.265, S.266, V.269, H.272, I.273, Q.288, L.289, G.290, C.322, K.372, E.419, F.421, L.449 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:P.187 Hydrogen bonds: A:I.186, A:W.188, A:K.212, A:Q.215, A:G.245, A:Q.250, A:S.266, A:Q.288, A:K.372, A:E.419, A:E.419 Water bridges: A:W.188, A:Q.215, A:S.246, A:Q.250, A:S.253 Salt bridges: A:K.212 pi-Stacking: A:F.421 NAP.10: 27 residues within 4Å: Chain B: V.185, I.186, P.187, W.188, K.212, A.214, Q.215, S.244, G.245, G.249, Q.250, F.263, T.264, G.265, S.266, V.269, H.272, I.273, Q.288, L.289, G.290, G.291, C.322, K.372, E.419, F.421, L.449 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:P.187 Hydrogen bonds: B:I.186, B:W.188, B:K.212, B:Q.215, B:G.245, B:Q.250, B:S.266, B:Q.288, B:G.291, B:K.372, B:E.419, B:E.419 Water bridges: B:W.188, B:S.253, B:H.369 Salt bridges: B:K.212 pi-Stacking: B:F.421 NAP.20: 27 residues within 4Å: Chain C: V.185, I.186, P.187, W.188, K.212, A.214, Q.215, S.244, G.245, S.246, G.249, Q.250, F.263, T.264, G.265, S.266, V.269, H.272, I.273, Q.288, L.289, G.290, C.322, K.372, E.419, F.421, L.449 23 PLIP interactions: 23 interactions with chain C Hydrophobic interactions: C:P.187 Hydrogen bonds: C:I.186, C:W.188, C:K.212, C:Q.215, C:G.245, C:Q.250, C:S.266, C:S.266, C:Q.288, C:K.372, C:E.419, C:E.419, C:E.419 Water bridges: C:W.188, C:V.216, C:S.246, C:Q.250, C:S.253, C:H.369, C:K.372 Salt bridges: C:K.212 pi-Stacking: C:F.421 NAP.30: 27 residues within 4Å: Chain D: V.185, I.186, P.187, W.188, K.212, A.214, Q.215, S.244, G.245, G.249, Q.250, F.263, T.264, G.265, S.266, V.269, H.272, I.273, Q.288, L.289, G.290, G.291, C.322, K.372, E.419, F.421, L.449 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:P.187 Hydrogen bonds: D:I.186, D:W.188, D:K.212, D:Q.215, D:G.245, D:Q.250, D:S.266, D:Q.288, D:G.291, D:C.322, D:K.372, D:E.419, D:E.419 Water bridges: D:W.188, D:V.216, D:S.246, D:S.253, D:H.369 Salt bridges: D:K.212 pi-Stacking: D:F.421

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

SO4.2: 2 residues within 4Å: Chain A: R.251, P.256 Ligand excluded by PLIP SO4.3: 2 residues within 4Å: Chain A: R.379, Y.414 Ligand excluded by PLIP SO4.4: 8 residues within 4Å: Chain A: K.284, L.508, R.509, I.510 Chain B: F.490, F.495, G.496, K.497 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: R.166, R.169 Chain C: Y.463 Ligand excluded by PLIP SO4.6: 2 residues within 4Å: Chain A: N.163 Chain B: Q.143 Ligand excluded by PLIP SO4.7: 4 residues within 4Å: Chain A: T.60, N.353, E.356, R.396 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain A: D.466, K.467 Chain C: R.169 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain B: R.169 Chain D: D.466, K.467 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: D.466, K.467 Chain D: R.169 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain B: R.251, P.256 Ligand excluded by PLIP SO4.14: 2 residues within 4Å: Chain B: R.379, Y.414 Ligand excluded by PLIP SO4.15: 8 residues within 4Å: Chain A: F.490, F.495, G.496, K.497 Chain B: K.284, L.508, R.509, I.510 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain B: R.166, R.169 Chain D: Y.463 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain A: K.135, Q.143 Chain B: N.163 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain B: T.60, N.353, E.356, R.396 Ligand excluded by PLIP SO4.21: 3 residues within 4Å: Chain A: R.169 Chain C: D.466, K.467 Ligand excluded by PLIP SO4.22: 2 residues within 4Å: Chain C: R.251, P.256 Ligand excluded by PLIP SO4.23: 2 residues within 4Å: Chain C: R.379, Y.414 Ligand excluded by PLIP SO4.24: 8 residues within 4Å: Chain C: K.284, L.508, R.509, I.510 Chain D: F.490, F.495, G.496, K.497 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain A: Y.463, K.467 Chain C: R.166, R.169 Ligand excluded by PLIP SO4.26: 2 residues within 4Å: Chain C: N.163 Chain D: Q.143 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain C: T.60, N.353, E.356, R.396 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain C: K.30, R.357 Ligand excluded by PLIP SO4.31: 8 residues within 4Å: Chain C: F.490, F.495, G.496, K.497 Chain D: K.284, L.508, R.509, I.510 Ligand excluded by PLIP SO4.32: 2 residues within 4Å: Chain D: R.251, P.256 Ligand excluded by PLIP SO4.33: 1 residues within 4Å: Chain D: R.379 Ligand excluded by PLIP SO4.34: 3 residues within 4Å: Chain B: Y.463 Chain D: R.166, R.169 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain D: T.60, N.353, E.356, R.396 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 7 residues within 4Å: Chain A: Y.190, M.193, W.197, N.321, C.322, N.479, T.481 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.321, A:T.481 Water bridges: A:N.479, A:T.481 GOL.19: 9 residues within 4Å: Chain B: Y.190, M.193, W.197, F.316, N.321, C.322, I.323, N.479, T.481 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.321, B:N.479, B:T.481 GOL.29: 8 residues within 4Å: Chain C: T.136, Y.190, M.193, W.197, N.321, I.323, N.479, T.481 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.321 Water bridges: C:N.479, C:T.481 GOL.36: 9 residues within 4Å: Chain D: T.136, Y.190, M.193, W.197, F.316, N.321, I.323, N.479, T.481 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:N.321, D:N.479 Water bridges: D:T.136, D:T.481

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tsybovsky, Y. et al., Conserved catalytic residues of the ALDH1L1 aldehyde dehydrogenase domain control binding and discharging of the coenzyme. J.Biol.Chem. (2011)

Release Date

2011-04-27

Peptides

Aldehyde dehydrogenase 1 family, member L1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Aldehyde dehydrogenase 1 family, member L1

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