SMTL ID : 1gup.1 (1 other biounit)

STRUCTURE OF NUCLEOTIDYLTRANSFERASE COMPLEXED WITH UDP-GALACTOSE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

GDU.1: 25 residues within 4Å: Chain A: F.53, R.60, V.61, F.75, N.77, D.78, F.79, V.108, F.151, N.153, G.159, C.160, S.161, N.162, Q.168, W.170 Chain B: R.28, R.31, W.33, K.311, F.312, V.314, G.315, Y.316, E.317 30 PLIP interactions: 15 interactions with chain A, 15 interactions with chain B Hydrophobic interactions: A:F.53 Hydrogen bonds: A:V.61, A:N.77, A:D.78, A:D.78, A:D.78, A:N.153, A:G.159, A:S.161, A:S.161, A:S.161, A:N.162, A:Q.168, B:R.28, B:R.28, B:R.31, B:F.312, B:V.314, B:Y.316, B:E.317, B:E.317, B:E.317 Water bridges: A:N.153, A:G.166, B:K.311, B:D.325 Salt bridges: B:R.28, B:R.28, B:R.31, B:R.31 GDU.5: 27 residues within 4Å: Chain A: R.28, R.31, P.32, W.33, K.311, F.312, V.314, G.315, Y.316, E.317, Q.323 Chain B: F.53, R.60, V.61, F.75, N.77, D.78, F.79, V.108, F.151, N.153, G.159, C.160, S.161, N.162, Q.168, W.170 25 PLIP interactions: 11 interactions with chain B, 14 interactions with chain A Hydrophobic interactions: B:F.53, A:P.32 Hydrogen bonds: B:V.61, B:N.77, B:D.78, B:D.78, B:N.153, B:G.159, B:S.161, B:S.161, B:N.162, B:Q.168, A:R.28, A:R.28, A:R.31, A:V.314, A:Y.316, A:E.317 Water bridges: A:R.31, A:F.312, A:F.312 Salt bridges: A:R.28, A:R.28, A:R.31, A:R.31

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.52, C.55, H.115, H.164 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.52, A:C.55, A:H.115, A:H.164 ZN.6: 4 residues within 4Å: Chain B: C.52, C.55, H.115, H.164 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.52, B:C.55, B:H.115, B:H.164

2 x FE: FE (III) ION(Non-covalent)

FE.3: 5 residues within 4Å: Chain A: L.17, E.182, H.281, H.296, H.298 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.182, A:E.182, A:H.281, A:H.296, A:H.298 FE.7: 5 residues within 4Å: Chain B: L.17, E.182, H.281, H.296, H.298 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.182, B:E.182, B:H.281, B:H.296, B:H.298

2 x K: POTASSIUM ION(Non-covalent)

K.4: 2 residues within 4Å: Chain B: N.153, G.166 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:N.153, B:G.166, H2O.19 K.8: 2 residues within 4Å: Chain A: N.153, G.166 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:N.153, A:G.166, H2O.3, H2O.4, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thoden, J.B. et al., Structural analysis of the H166G site-directed mutant of galactose-1-phosphate uridylyltransferase complexed with either UDP-glucose or UDP-galactose: detailed description of the nucleotide sugar binding site. Biochemistry (1997)

Release Date

1997-11-12

Peptides

GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GALACTOSE-1-PHOSPHATE URIDYLYLTRANSFERASE

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