SMTL ID : 5hpu.1

Insulin with proline analog HyP at position B28 in the R6 state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-6-6-mer

Ligands

6 x IPH: PHENOL(Non-covalent)

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

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 L, 1 interactions with chain D, 1 interactions with chain H Metal complexes: L:H.10, D:H.10, H: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 L, 1 interactions with chain D, 1 interactions with chain H Metal complexes: L:H.10, D:H.10, H: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 L, 1 interactions with chain H, 1 interactions with chain D Metal complexes: L:H.10, H:H.10, D:H.10

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

CL.3: 11 residues within 4Å: Chain B: L.6, H.10 Chain F: L.6, H.10 Chain J: L.6, 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: 11 residues within 4Å: Chain B: L.6, H.10 Chain F: L.6, H.10 Chain J: L.6, 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: 11 residues within 4Å: Chain B: L.6, H.10 Chain F: L.6, H.10 Chain J: L.6, 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

Lieblich, S.A. et al., 4S-Hydroxylation of Insulin at ProB28 Accelerates Hexamer Dissociation and Delays Fibrillation. J. Am. Chem. Soc. (2017)

Release Date

2017-01-25

Peptides

Insulin, chain A: ACEGIK
Insulin, chain B: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
A

G
C

I
A

K
C

B
B

D
D

F
B

H
D

J
B

L
D

Insulin, chain A

Insulin, chain B

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