SMTL ID : 4bbo.1

Crystal structure of core-bradavidin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

4 x BTN: BIOTIN(Non-covalent)

BTN.1: 17 residues within 4Å: Chain A: N.9, Y.11, S.13, Y.31, N.33, A.35, S.38, C.39, F.66, C.69, S.71, T.73, W.75, W.89, L.91, D.107 Chain B: W.99 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.66, A:F.66, A:L.91, B:W.99 Hydrogen bonds: A:N.9, A:S.13, A:Y.31, A:N.33, A:C.39, A:S.71, A:S.71, A:D.107 BTN.3: 16 residues within 4Å: Chain A: W.99 Chain B: N.9, Y.11, S.13, Y.31, N.33, A.35, S.38, C.39, F.66, S.71, T.73, W.75, W.89, L.91, D.107 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.66, B:F.66, B:L.91 Hydrogen bonds: B:N.9, B:S.13, B:N.33, B:C.39, B:S.71, B:S.71, B:D.107 BTN.5: 16 residues within 4Å: Chain C: N.9, Y.11, S.13, Y.31, N.33, A.35, S.38, C.39, F.66, S.71, T.73, W.75, W.89, L.91, D.107 Chain D: W.99 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:F.66, C:F.66, C:L.91, D:W.99 Hydrogen bonds: C:N.9, C:S.13, C:N.33, C:C.39, C:S.71, C:D.107 pi-Stacking: C:Y.11 BTN.7: 16 residues within 4Å: Chain C: W.99 Chain D: N.9, Y.11, S.13, Y.31, N.33, A.35, S.38, C.39, F.66, S.71, T.73, W.75, W.89, L.91, D.107 12 PLIP interactions: 11 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:F.66, D:F.66, D:L.91, C:W.99 Hydrogen bonds: D:N.9, D:S.13, D:Y.31, D:N.33, D:C.39, D:S.71, D:D.107 pi-Stacking: D:Y.11

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: W.5, Y.53, L.79, T.83, F.111 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.53

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 4 residues within 4Å: Chain B: W.5, W.7, T.83, F.111 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.5, B:W.7, B:T.83, B:F.111 ACT.6: 4 residues within 4Å: Chain C: N.80, A.82, G.84, T.110 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:T.110 Hydrogen bonds: C:N.80, C:G.84 Water bridges: C:F.85 ACT.8: 4 residues within 4Å: Chain D: W.5, L.51, L.79, T.83 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:L.51, D:L.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Airenne, T.T. et al., Crystal Structure of Core-Bradavidin. To be Published

Release Date

2013-10-16

Peptides

BLR5658 PROTEIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

BLR5658 PROTEIN