SMTL ID : 2fyd.2 (1 other biounit)

catalytic domain of bovine beta 1, 4-galactosyltransferase in complex with alpha-lactalbumin, glucose, Mn, and UDP-N-acetylgalactosamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: K.79, D.82, E.84, D.87, D.88 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:K.79, A:D.82, A:E.84, A:D.87, H2O.1

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 11 residues within 4Å: Chain A: F.31, H.32, T.33, S.34, G.35, D.37, A.40 Chain B: W.198, R.233, R.243 Ligands: BGC.4 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.163, B:K.163, B:R.233, B:R.233 Water bridges: B:R.233, A:D.37

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 6 residues within 4Å: Chain A: E.49, Q.54, S.56, Y.103, W.104, K.105 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:E.49, A:S.56 Water bridges: A:S.47, A:E.49, A:E.49, A:K.105 Salt bridges: A:D.44, A:E.49

1 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.4: 12 residues within 4Å: Chain A: F.31, H.32 Chain B: F.164, Y.170, Y.173, W.198, G.199, G.200, D.202, D.203 Ligands: PG4.2, NGA.5 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:G.200, B:D.202, B:D.203 Water bridges: A:H.32 Salt bridges: A:H.32

1 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Non-covalent)

NGA.5: 14 residues within 4Å: Chain B: R.112, D.136, L.139, M.161, Y.173, G.175, G.176, W.198, G.199, E.201, D.202, M.228 Ligands: BGC.4, UDP.7 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.139 Hydrogen bonds: B:R.112, B:Y.173, B:Y.173, B:G.176, B:G.199 Water bridges: B:G.197, B:G.199

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.6: 4 residues within 4Å: Chain B: D.138, M.228, H.231 Ligands: UDP.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.138, B:H.231, H2O.4

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

UDP.7: 15 residues within 4Å: Chain B: P.71, F.72, R.73, R.75, F.110, D.136, V.137, D.138, W.198, M.228, H.231, D.234, N.237 Ligands: NGA.5, MN.6 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:P.71, B:R.73, B:R.73, B:R.75, B:V.137, B:D.138, B:D.234, B:N.237 Water bridges: B:R.233 Salt bridges: B:R.75, B:K.163, B:H.231, B:H.231 pi-Stacking: B:F.110 pi-Cation interactions: B:R.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramakrishnan, B. et al., Structural Snapshots of beta-1,4-Galactosyltransferase-I Along the Kinetic Pathway. J.Mol.Biol. (2006)

Release Date

2006-03-14

Peptides

Alpha-lactalbumin: A
beta-1,4-galactosyltransferase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Alpha-lactalbumin

beta-1,4-galactosyltransferase

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