SMTL ID : 1nah.1

UDP-GALACTOSE 4-EPIMERASE FROM ESCHERICHIA COLI, REDUCED

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

4 x NA: SODIUM ION(Non-functional Binders)

NA.1: 2 residues within 4Å: Chain A: Q.334, Y.336 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.336 Water bridges: A:Q.334 NA.2: 1 residues within 4Å: Chain B: Q.91 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.91 Water bridges: A:K.165, A:K.165, A:A.166 NA.7: 2 residues within 4Å: Chain B: Q.334, Y.336 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.334 Water bridges: B:Q.334 NA.8: 1 residues within 4Å: Chain A: Q.91 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Water bridges: B:K.165, B:K.165, B:A.166 Hydrogen bonds: A:Q.91

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.3: 29 residues within 4Å: Chain A: G.7, S.9, G.10, Y.11, I.12, D.31, N.32, L.33, C.34, N.35, S.36, G.57, D.58, I.59, R.60, F.80, A.81, G.82, K.84, N.99, S.122, S.123, S.124, Y.149, K.153, Y.177, F.178, P.180 Ligands: EDO.5 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:I.12, A:Y.177, A:P.180 Hydrogen bonds: A:Y.11, A:I.12, A:N.32, A:N.32, A:L.33, A:C.34, A:N.35, A:N.35, A:S.36, A:I.59, A:F.80, A:G.82, A:N.99, A:S.122, A:Y.149, A:K.153, A:F.178 Water bridges: A:G.10, A:G.13, A:L.83, A:N.99, A:T.126, A:T.126, A:K.153 Salt bridges: A:K.84, A:K.84 NAD.9: 29 residues within 4Å: Chain B: G.7, S.9, G.10, Y.11, I.12, D.31, N.32, L.33, C.34, N.35, S.36, G.57, D.58, I.59, R.60, F.80, A.81, G.82, K.84, N.99, S.122, S.123, S.124, Y.149, K.153, Y.177, F.178, P.180 Ligands: EDO.11 29 PLIP interactions: 29 interactions with chain B Hydrophobic interactions: B:I.12, B:Y.177, B:P.180 Hydrogen bonds: B:Y.11, B:I.12, B:N.32, B:N.32, B:L.33, B:C.34, B:N.35, B:N.35, B:S.36, B:I.59, B:F.80, B:G.82, B:N.99, B:S.122, B:Y.149, B:K.153, B:F.178 Water bridges: B:G.10, B:G.13, B:L.83, B:N.99, B:T.126, B:T.126, B:K.153 Salt bridges: B:K.84, B:K.84

2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.4: 15 residues within 4Å: Chain A: N.179, N.198, N.199, L.200, L.215, A.216, I.217, F.218, G.229, R.231, Y.233, V.269, R.292, D.295, Y.299 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:F.218 Hydrogen bonds: A:N.179, A:N.179, A:N.199, A:L.200, A:A.216, A:F.218, A:Y.233 Water bridges: A:M.201, A:A.216, A:R.231, A:R.231, A:R.292, A:R.292, A:D.295, A:D.295 Salt bridges: A:R.231, A:R.292, A:R.292 UDP.10: 15 residues within 4Å: Chain B: N.179, N.198, N.199, L.200, L.215, A.216, I.217, F.218, G.229, R.231, Y.233, V.269, R.292, D.295, Y.299 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:F.218 Hydrogen bonds: B:N.179, B:N.179, B:N.199, B:L.200, B:A.216, B:F.218, B:Y.299 Water bridges: B:M.201, B:A.216, B:R.231, B:R.231, B:R.231, B:R.292, B:R.292 Salt bridges: B:R.231, B:R.292, B:R.292

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 7 residues within 4Å: Chain A: Y.11, N.35, G.190, E.191, D.192, P.193 Ligands: NAD.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.35, A:D.192 Water bridges: A:G.10, A:N.35 EDO.11: 7 residues within 4Å: Chain B: Y.11, N.35, G.190, E.191, D.192, P.193 Ligands: NAD.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.35, B:D.192 Water bridges: B:G.10, B:N.35

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 5 residues within 4Å: Chain A: K.249, L.250, K.253, Y.259, E.309 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.253 PEG.12: 5 residues within 4Å: Chain B: K.249, L.250, K.253, Y.259, E.309 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thoden, J.B. et al., Crystal structures of the oxidized and reduced forms of UDP-galactose 4-epimerase isolated from Escherichia coli. Biochemistry (1996)

Release Date

1996-12-23

Peptides

UDP-GALACTOSE 4-EPIMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

UDP-GALACTOSE 4-EPIMERASE

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