SMTL ID : 5mam.4 (3 other biounits)

Human insulin in complex with serotonin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-6-6-mer

Ligands

6 x SRO: SEROTONIN(Non-covalent)

SRO.1: 6 residues within 4Å: Chain A: L.13, Y.14, E.17 Chain K: L.13, Y.14, E.17 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain K Hydrophobic interactions: A:Y.14, A:Y.14, K:L.13, K:L.13, K:L.13, K:Y.14 Hydrogen bonds: A:Y.14, A:E.17 Water bridges: A:Y.14 SRO.4: 10 residues within 4Å: Chain B: L.17, E.21 Chain D: H.5 Chain K: C.6, S.9, I.10, C.11, S.12, L.16 Chain L: L.11 10 PLIP interactions: 4 interactions with chain K, 3 interactions with chain B, 2 interactions with chain D, 1 interactions with chain L Hydrophobic interactions: K:I.10, K:L.16, B:L.17, L:L.11 Hydrogen bonds: K:C.6, K:C.11, B:E.21 Water bridges: B:E.21 pi-Stacking: D:H.5, D:H.5 SRO.7: 6 residues within 4Å: Chain C: L.13, Y.14, E.17 Chain E: L.13, Y.14, E.17 9 PLIP interactions: 4 interactions with chain C, 5 interactions with chain E Hydrophobic interactions: C:L.13, C:L.13, C:L.13, C:Y.14, E:Y.14, E:Y.14 Hydrogen bonds: E:Y.14, E:E.17 Water bridges: E:Y.14 SRO.10: 10 residues within 4Å: Chain C: C.6, S.9, I.10, C.11, S.12, L.16 Chain D: L.11 Chain F: L.17, E.21 Chain H: H.5 10 PLIP interactions: 4 interactions with chain C, 3 interactions with chain F, 1 interactions with chain D, 2 interactions with chain H Hydrophobic interactions: C:I.10, C:L.16, F:L.17, D:L.11 Hydrogen bonds: C:C.6, C:C.11, F:E.21 Water bridges: F:E.21 pi-Stacking: H:H.5, H:H.5 SRO.13: 6 residues within 4Å: Chain G: L.13, Y.14, E.17 Chain I: L.13, Y.14, E.17 9 PLIP interactions: 4 interactions with chain G, 5 interactions with chain I Hydrophobic interactions: G:L.13, G:L.13, G:L.13, G:Y.14, I:Y.14, I:Y.14 Hydrogen bonds: I:Y.14, I:E.17 Water bridges: I:Y.14 SRO.16: 10 residues within 4Å: Chain G: C.6, S.9, I.10, C.11, S.12, L.16 Chain H: L.11 Chain J: L.17, E.21 Chain L: H.5 10 PLIP interactions: 4 interactions with chain G, 3 interactions with chain J, 1 interactions with chain H, 2 interactions with chain L Hydrophobic interactions: G:I.10, G:L.16, J:L.17, H:L.11 Hydrogen bonds: G:C.6, G:C.11, J:E.21 Water bridges: J:E.21 pi-Stacking: L:H.5, L:H.5

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 8 residues within 4Å: Chain B: H.10 Chain F: H.10 Chain J: H.10 Ligands: CL.3, ZN.8, CL.9, ZN.14, CL.15 3 PLIP interactions: 1 interactions with chain J, 1 interactions with chain F, 1 interactions with chain B Metal complexes: J:H.10, F:H.10, B:H.10 ZN.5: 8 residues within 4Å: Chain D: H.10 Chain H: H.10 Chain L: H.10 Ligands: CL.6, ZN.11, CL.12, ZN.17, CL.18 3 PLIP interactions: 1 interactions with chain H, 1 interactions with chain D, 1 interactions with chain L Metal complexes: H:H.10, D:H.10, L:H.10 ZN.8: 8 residues within 4Å: Chain B: H.10 Chain F: H.10 Chain J: H.10 Ligands: ZN.2, CL.3, CL.9, ZN.14, CL.15 3 PLIP interactions: 1 interactions with chain J, 1 interactions with chain F, 1 interactions with chain B Metal complexes: J:H.10, F:H.10, B:H.10 ZN.11: 8 residues within 4Å: Chain D: H.10 Chain H: H.10 Chain L: H.10 Ligands: ZN.5, CL.6, CL.12, ZN.17, CL.18 3 PLIP interactions: 1 interactions with chain H, 1 interactions with chain D, 1 interactions with chain L Metal complexes: H:H.10, D:H.10, L:H.10 ZN.14: 8 residues within 4Å: Chain B: H.10 Chain F: H.10 Chain J: H.10 Ligands: ZN.2, CL.3, ZN.8, CL.9, CL.15 3 PLIP interactions: 1 interactions with chain J, 1 interactions with chain F, 1 interactions with chain B Metal complexes: J:H.10, F:H.10, B:H.10 ZN.17: 8 residues within 4Å: Chain D: H.10 Chain H: H.10 Chain L: H.10 Ligands: ZN.5, CL.6, ZN.11, CL.12, CL.18 3 PLIP interactions: 1 interactions with chain H, 1 interactions with chain L, 1 interactions with chain D Metal complexes: H:H.10, L:H.10, D:H.10

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 7 residues within 4Å: Chain B: H.10 Chain J: H.10 Ligands: ZN.2, ZN.8, CL.9, ZN.14, CL.15 Ligand excluded by PLIP CL.6: 11 residues within 4Å: Chain D: L.6, H.10 Chain H: L.6, H.10 Chain L: L.6, H.10 Ligands: ZN.5, ZN.11, CL.12, ZN.17, CL.18 Ligand excluded by PLIP CL.9: 7 residues within 4Å: Chain B: H.10 Chain F: H.10 Ligands: ZN.2, CL.3, ZN.8, ZN.14, CL.15 Ligand excluded by PLIP CL.12: 11 residues within 4Å: Chain D: L.6, H.10 Chain H: L.6, H.10 Chain L: L.6, H.10 Ligands: ZN.5, CL.6, ZN.11, ZN.17, CL.18 Ligand excluded by PLIP CL.15: 7 residues within 4Å: Chain F: H.10 Chain J: H.10 Ligands: ZN.2, CL.3, ZN.8, CL.9, ZN.14 Ligand excluded by PLIP CL.18: 11 residues within 4Å: Chain D: L.6, H.10 Chain H: L.6, H.10 Chain L: L.6, H.10 Ligands: ZN.5, CL.6, ZN.11, CL.12, ZN.17 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Palivec, V. et al., Computational and structural evidence for neurotransmitter-mediated modulation of the oligomeric states of human insulin in storage granules. J. Biol. Chem. (2017)

Release Date

2017-04-05

Peptides

Insulin A chain: ACEGIK
Insulin B chain: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
2

C
4

E
2

G
4

I
2

K
4

B
3

D
5

F
3

H
5

J
3

L
5

Insulin A chain

Insulin B chain

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