SMTL ID : 1dzt.1

RMLC FROM SALMONELLA TYPHIMURIUM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: A.8, W.99, V.100, G.101 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.101, A:G.101 Water bridges: A:A.8, A:W.99, A:W.99 GOL.2: 3 residues within 4Å: Chain A: K.56, E.81, L.125 No protein-ligand interaction detected (PLIP) GOL.5: 2 residues within 4Å: Chain B: W.99, G.101 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.99, B:G.101, B:G.101 GOL.6: 4 residues within 4Å: Chain A: F.20, G.25, F.26 Chain B: R.60 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.60, A:G.25

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

SO4.3: 5 residues within 4Å: Chain A: R.60, H.63, K.73, H.120, Y.133 7 PLIP interactions: 7 interactions with chain A Water bridges: A:Q.71, A:K.73, A:K.73 Salt bridges: A:R.60, A:H.63, A:K.73, A:H.120 SO4.7: 5 residues within 4Å: Chain B: H.63, K.73, H.120, Y.133 Ligands: ATY.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:H.120, B:Y.133 Salt bridges: B:H.63, B:K.73, B:H.120

1 x TPE: 3'-O-ACETYLTHYMIDINE-(5' DIPHOSPHATE PHENYL ESTER)(Non-covalent)

TPE.4: 10 residues within 4Å: Chain A: Q.48, N.50, R.60, Y.139, S.167, K.169 Chain B: F.20, R.24, F.27, E.29 17 PLIP interactions: 6 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:F.20, B:F.27, A:Y.139, A:Y.139 Hydrogen bonds: B:D.22, B:E.29, A:Q.48, A:N.50, A:S.167 Salt bridges: B:R.24, B:R.24, A:R.60, A:K.169, A:K.169 Water bridges: A:K.169, A:K.169 pi-Stacking: A:Y.139

1 x ATY: 3'-O-ACETYLTHYMIDINE-5'-DIPHOSPHATE(Non-covalent)

ATY.8: 12 residues within 4Å: Chain A: F.27, E.29 Chain B: Q.48, N.50, H.63, Y.133, Y.139, E.144, S.167, K.169, D.170 Ligands: SO4.7 16 PLIP interactions: 11 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:Q.48, B:N.50, B:Y.133, B:S.167, A:E.29, A:E.29 Water bridges: B:H.63, B:K.169, B:K.169 Salt bridges: B:H.63, B:K.169, B:K.169 pi-Stacking: B:Y.139 Hydrophobic interactions: A:F.27, A:F.27, A:F.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Giraud, M.F. et al., Rmlc, the Third Enzyme of Dtdp-L-Rhamnose Pathway, is a New Class of Epimerase. Nat.Struct.Biol. (2000)

Release Date

2000-04-18

Peptides

DTDP-4-DEHYDRORHAMNOSE 3\,5-EPIMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DTDP-4-DEHYDRORHAMNOSE 3\,5-EPIMERASE

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