SMTL ID : 1ek6.1

STRUCTURE OF HUMAN UDP-GALACTOSE 4-EPIMERASE COMPLEXED WITH NADH AND UDP-GLUCOSE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

NAI.2: 28 residues within 4Å: Chain A: G.9, A.11, G.12, Y.13, I.14, D.33, N.34, F.35, H.36, N.37, A.38, M.65, D.66, I.67, F.88, A.89, G.90, K.92, V.107, S.130, S.131, S.132, Y.157, K.161, Y.185, F.186, P.188 Ligands: UPG.3 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:Y.185, A:P.188 Hydrogen bonds: A:G.9, A:Y.13, A:I.14, A:N.34, A:N.34, A:F.35, A:H.36, A:N.37, A:N.37, A:D.66, A:I.67, A:F.88, A:G.90, A:K.92, A:S.130, A:K.161 Water bridges: A:G.12, A:G.15, A:L.91, A:K.92, A:K.161, A:N.207 Salt bridges: A:K.92, A:K.92 NAI.7: 29 residues within 4Å: Chain B: G.9, A.11, G.12, Y.13, I.14, D.33, N.34, F.35, H.36, N.37, A.38, M.65, D.66, I.67, F.88, A.89, G.90, L.91, K.92, V.107, S.130, S.131, S.132, Y.157, K.161, Y.185, F.186, P.188 Ligands: UPG.8 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:Y.185, B:Y.185 Hydrogen bonds: B:G.9, B:Y.13, B:I.14, B:N.34, B:N.34, B:F.35, B:H.36, B:N.37, B:N.37, B:D.66, B:I.67, B:F.88, B:G.90, B:L.91, B:K.92, B:K.92, B:S.130, B:K.161 Water bridges: B:G.12, B:G.15, B:N.37 Salt bridges: B:K.92, B:K.92

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

UPG.3: 21 residues within 4Å: Chain A: S.132, A.133, T.134, Y.157, Y.185, F.186, N.187, N.206, N.207, L.208, L.223, N.224, V.225, F.226, G.237, R.239, Y.241, V.277, R.300, D.303 Ligands: NAI.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.208 Hydrogen bonds: A:S.132, A:Y.157, A:N.187, A:N.206, A:N.207, A:N.207, A:L.208, A:N.224, A:F.226, A:R.300 Water bridges: A:M.209, A:G.237, A:R.239, A:R.239, A:R.239, A:R.300 Salt bridges: A:R.239, A:R.300, A:R.300 pi-Stacking: A:F.226 UPG.8: 22 residues within 4Å: Chain B: K.92, S.132, A.133, T.134, Y.157, Y.185, F.186, N.187, N.206, N.207, L.208, L.223, N.224, V.225, F.226, G.237, R.239, Y.241, V.277, R.300, D.303 Ligands: NAI.7 28 PLIP interactions: 28 interactions with chain B Hydrogen bonds: B:K.92, B:S.132, B:Y.157, B:Y.157, B:N.187, B:N.206, B:N.207, B:N.207, B:L.208, B:N.224, B:F.226 Water bridges: B:N.187, B:M.209, B:G.237, B:R.239, B:R.239, B:D.240, B:R.300, B:R.300, B:R.300, B:R.300, B:R.300, B:D.303, B:D.303 Salt bridges: B:R.239, B:R.300, B:R.300 pi-Stacking: B:F.226

3 x TMA: TETRAMETHYLAMMONIUM ION(Non-covalent)

TMA.4: 4 residues within 4Å: Chain A: K.257, E.260, E.317, L.318 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.260 TMA.5: 4 residues within 4Å: Chain A: M.1, A.25, G.26, Y.27 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:Y.27 TMA.9: 4 residues within 4Å: Chain B: P.139, Q.140, Y.141, L.142 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thoden, J.B. et al., Crystallographic evidence for Tyr 157 functioning as the active site base in human UDP-galactose 4-epimerase. Biochemistry (2000)

Release Date

2000-05-17

Peptides

UDP-GALACTOSE 4-EPIMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

UDP-GALACTOSE 4-EPIMERASE

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