SMTL ID : 6y0x.1 (1 other biounit)

Fucosylated antimicrobial peptide SB6 in complex with the lectin LecRSL from Ralstonia solanacearum at 2.4 Angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

hetero-3-2-2-mer

Ligands

6 x ZDC: 3,7-anhydro-2,8-dideoxy-L-glycero-D-gluco-octonic acid(Non-covalent)(Post Translational Modification)

ZDC.1: 8 residues within 4Å: Chain A: R.18, E.29, G.40, A.41, F.42, W.77, W.82 Ligands: DLY.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.18, A:R.18, A:E.29, A:A.41, A:F.42, A:W.82 ZDC.3: 10 residues within 4Å: Chain A: W.54, R.63, E.74, C.76, G.85, A.86, Y.87 Chain B: I.17, W.32, W.37 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.54, B:I.17 Hydrogen bonds: A:R.63, A:A.86, A:Y.87, B:W.37 ZDC.4: 11 residues within 4Å: Chain B: R.18, E.29, C.31, Y.38, G.40, A.41, F.42, W.77, W.82 Chain C: K.1, Y.2 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.18, B:Y.20, B:E.29, B:Y.38, B:A.41, B:F.42, B:W.82 ZDC.5: 12 residues within 4Å: Chain B: W.54, R.63, E.74, G.85, A.86, Y.87 Chain D: K.1, Y.2 Chain E: P.15, I.17, W.32, W.37 8 PLIP interactions: 3 interactions with chain E, 5 interactions with chain B Hydrophobic interactions: E:P.15, E:I.17, B:W.54 Hydrogen bonds: E:W.37, B:R.63, B:E.74, B:A.86, B:Y.87 ZDC.6: 11 residues within 4Å: Chain E: R.18, E.29, C.31, Y.38, G.40, A.41, F.42, W.77, W.82 Chain F: K.1, Y.2 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:R.18, E:E.29, E:Y.38, E:A.41, E:F.42, E:W.82 ZDC.7: 13 residues within 4Å: Chain A: P.15, I.17, W.32, W.37 Chain E: W.54, R.63, E.74, C.76, G.85, A.86, Y.87 Chain G: K.1, Y.2 6 PLIP interactions: 4 interactions with chain E, 2 interactions with chain A Hydrophobic interactions: E:W.54, A:I.17 Hydrogen bonds: E:R.63, E:A.86, E:Y.87, A:W.37

1 x DLY: D-LYSINE(Non-covalent)

DLY.2: 3 residues within 4Å: Chain A: D.33, Y.38 Ligands: ZDC.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baeriswyl, S. et al., Fucosylated antimicrobial peptide SB6 in complex with the lectin LecRSL from Ralstonia solanacearum at 2.4 Angstrom resolution. To Be Published

Release Date

2021-02-17

Peptides

Fucose-binding lectin protein: ABE
SB6: CF
SB6: DG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E
C

C
I

F
K

D
J

G
L

Fucose-binding lectin protein

SB6

SB6

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