SMTL ID : 4gde.1

Crystal structure of NADPH-reduced Aspergillus fumigatus UDP-galactopyranose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x FDA: DIHYDROFLAVINE-ADENINE DINUCLEOTIDE(Non-covalent)

FDA.1: 29 residues within 4Å: Chain A: G.17, G.19, P.20, T.21, D.41, S.42, G.47, G.48, L.49, A.50, V.63, G.65, H.66, V.67, G.243, K.244, V.245, M.272, T.298, R.330, E.376, G.421, Y.422, G.449, R.450, G.459, N.460, Q.461, S.464 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:V.63, A:T.298, A:Y.422 Hydrogen bonds: A:G.19, A:T.21, A:T.21, A:T.21, A:S.42, A:G.48, A:L.49, A:A.50, A:G.65, A:H.66, A:V.67, A:V.67, A:V.245, A:V.245, A:R.450, A:G.459, A:Q.461, A:Q.461, A:S.464 Water bridges: A:G.22, A:S.42, A:S.42, A:F.451, A:F.451, A:D.462 pi-Stacking: A:H.66 FDA.7: 30 residues within 4Å: Chain B: G.17, A.18, G.19, P.20, T.21, G.22, D.41, S.42, G.48, L.49, A.50, V.63, G.65, H.66, V.67, G.243, K.244, V.245, M.272, T.298, R.330, E.376, G.421, Y.422, G.449, R.450, G.459, N.460, Q.461, S.464 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:V.63, B:T.298, B:Y.422 Hydrogen bonds: B:A.18, B:G.19, B:T.21, B:T.21, B:T.21, B:G.22, B:S.42, B:G.48, B:L.49, B:G.65, B:H.66, B:V.67, B:V.67, B:V.245, B:V.245, B:T.271, B:R.450, B:G.459, B:Q.461, B:Q.461, B:S.464 Water bridges: B:D.41, B:F.69, B:F.451, B:F.451, B:F.451, B:N.460 pi-Stacking: B:H.66 FDA.11: 30 residues within 4Å: Chain C: G.17, G.19, P.20, T.21, G.22, D.41, S.42, G.48, L.49, A.50, V.63, G.65, H.66, V.67, G.243, K.244, V.245, T.271, M.272, T.298, R.330, E.376, G.421, Y.422, G.449, R.450, G.459, N.460, Q.461, S.464 26 PLIP interactions: 26 interactions with chain C Hydrophobic interactions: C:V.63, C:T.298, C:Y.422 Hydrogen bonds: C:G.19, C:T.21, C:T.21, C:T.21, C:G.22, C:S.42, C:G.47, C:G.48, C:L.49, C:G.65, C:H.66, C:V.67, C:V.67, C:V.245, C:V.245, C:R.450, C:G.459, C:Q.461, C:Q.461, C:S.464 Water bridges: C:F.451, C:F.451 pi-Cation interactions: C:H.66 FDA.14: 30 residues within 4Å: Chain D: G.17, G.19, P.20, T.21, D.41, S.42, G.47, G.48, L.49, A.50, V.63, G.65, H.66, V.67, G.243, K.244, V.245, T.271, M.272, T.298, R.330, E.376, G.421, Y.422, G.449, R.450, G.459, N.460, Q.461, S.464 27 PLIP interactions: 27 interactions with chain D Hydrophobic interactions: D:T.298, D:Y.422 Hydrogen bonds: D:A.18, D:G.19, D:T.21, D:T.21, D:T.21, D:S.42, D:G.47, D:G.48, D:L.49, D:G.65, D:H.66, D:V.67, D:V.67, D:V.245, D:V.245, D:T.271, D:R.450, D:G.459, D:Q.461, D:Q.461, D:S.464 Water bridges: D:G.22, D:F.451, D:D.462 pi-Cation interactions: D:H.66

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

SO4.2: 2 residues within 4Å: Chain A: T.140, K.141 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.141 Salt bridges: A:K.141 SO4.3: 3 residues within 4Å: Chain A: N.43, D.53, R.416 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.43, A:D.53 Salt bridges: A:R.416 SO4.4: 4 residues within 4Å: Chain A: P.310, E.311, R.312, K.405 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.312 Water bridges: A:E.311 Salt bridges: A:R.312, A:K.405 SO4.5: 2 residues within 4Å: Chain A: K.73, R.499 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.73, A:R.499 SO4.6: 4 residues within 4Å: Chain A: P.84, K.85, E.86, D.87 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.86, A:D.87 SO4.8: 2 residues within 4Å: Chain B: K.73, R.499 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.499 SO4.9: 2 residues within 4Å: Chain B: P.117, K.118 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.118 Salt bridges: B:K.118 SO4.10: 4 residues within 4Å: Chain B: P.310, E.311, R.312, K.405 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.312 Water bridges: B:E.311, B:E.311 Salt bridges: B:R.312, B:K.405 SO4.12: 3 residues within 4Å: Chain C: L.116, P.117, K.118 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.118 Water bridges: C:E.119 SO4.13: 4 residues within 4Å: Chain C: P.310, E.311, R.312, K.405 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:E.311, C:R.312 Salt bridges: C:R.312, C:K.405 SO4.15: 2 residues within 4Å: Chain D: T.155, R.163 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.155, D:T.155 Salt bridges: D:R.163 SO4.16: 4 residues within 4Å: Chain D: P.310, E.311, R.312, K.405 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.312 Salt bridges: D:R.312, D:K.405 SO4.17: 2 residues within 4Å: Chain D: P.117, K.118 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:K.118 Water bridges: D:E.119 Salt bridges: D:K.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dhatwalia, R. et al., Identification of the NAD(P)H Binding Site of Eukaryotic UDP-Galactopyranose Mutase. J.Am.Chem.Soc. (2012)

Release Date

2012-10-17

Peptides

UDP-galactopyranose mutase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

UDP-galactopyranose mutase

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