SMTL ID : 9utk.1

Monoclinic crystal structure of acid-stable protracted insulin (293 K)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

hetero-6-6-mer

Ligands

6 x IPH: PHENOL(Non-covalent)

IPH.1: 10 residues within 4Å: Chain A: C.6, S.9, I.10, C.11 Chain B: C.7, H.10, L.11 Chain J: V.2, H.5, L.6 6 PLIP interactions: 1 interactions with chain A, 3 interactions with chain J, 2 interactions with chain B Hydrogen bonds: A:C.11 Hydrophobic interactions: J:V.2, J:L.6, B:H.10, B:L.11 pi-Cation interactions: J:H.5 IPH.5: 6 residues within 4Å: Chain C: C.6, S.9, C.11 Chain D: C.7, L.11 Chain F: H.5 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:L.11 Hydrogen bonds: C:C.11 IPH.7: 8 residues within 4Å: Chain E: C.6, S.9, I.10, C.11, L.16 Chain F: H.10, L.11 Chain L: H.5 5 PLIP interactions: 2 interactions with chain E, 1 interactions with chain L, 2 interactions with chain F Hydrophobic interactions: E:L.16, F:H.10, F:L.11 Hydrogen bonds: E:C.11 pi-Cation interactions: L:H.5 IPH.10: 6 residues within 4Å: Chain B: H.5 Chain G: C.6, S.9, I.10, C.11 Chain H: L.11 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain H Hydrogen bonds: G:C.6, G:C.11 Hydrophobic interactions: H:L.11 IPH.11: 6 residues within 4Å: Chain H: H.5 Chain I: C.6, S.9, I.10, C.11 Chain J: L.11 4 PLIP interactions: 1 interactions with chain J, 2 interactions with chain I, 1 interactions with chain H Hydrophobic interactions: J:L.11 Hydrogen bonds: I:C.6, I:C.11 pi-Stacking: H:H.5 IPH.13: 7 residues within 4Å: Chain D: H.5 Chain K: C.6, S.9, I.10, C.11 Chain L: H.10, L.11 5 PLIP interactions: 2 interactions with chain L, 2 interactions with chain K, 1 interactions with chain D Hydrophobic interactions: L:H.10, L:L.11 Hydrogen bonds: K:C.6, K:C.11 pi-Cation interactions: D:H.5

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain B: H.10 Chain H: H.10 Chain J: H.10 Ligands: CL.3 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain H, 1 interactions with chain J Metal complexes: B:H.10, H:H.10, J:H.10 ZN.6: 4 residues within 4Å: Chain D: H.10 Chain F: H.10 Chain L: H.10 Ligands: CL.8 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain D, 1 interactions with chain L Metal complexes: F:H.10, D:H.10, L:H.10

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

CL.3: 6 residues within 4Å: Chain B: L.6, H.10 Chain H: H.10 Chain J: L.6, H.10 Ligands: ZN.2 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain D: L.6, H.10 Chain F: L.6, H.10 Chain L: H.10 Ligands: ZN.6 Ligand excluded by PLIP

3 x CA: CALCIUM ION(Non-covalent)

CA.4: 6 residues within 4Å: Chain B: E.13 Chain D: E.13 Chain F: E.13 Chain J: E.13 Ligands: CA.9, CA.12 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain D Metal complexes: B:E.13, B:E.13, D:E.13, D:E.13 CA.9: 5 residues within 4Å: Chain B: E.13 Chain F: E.13 Chain H: E.13 Ligands: CA.4, CA.12 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain H Metal complexes: F:E.13, F:E.13, H:E.13, H:E.13 CA.12: 5 residues within 4Å: Chain H: E.13 Chain J: E.13 Chain L: E.13 Ligands: CA.4, CA.9 2 PLIP interactions: 1 interactions with chain J, 1 interactions with chain L Metal complexes: J:E.13, L:E.13

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ayan, E. et al., Triple Calcium Binding Stoichiometry in the Monoclinic Crystal Form of Protracted Insulin. Small Struct (2025)

Release Date

2025-10-29

Peptides

Insulin A chain: ACEGIK
Insulin B chain: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

I
I

K
K

B
B

D
D

F
F

H
H

J
J

L
L

Insulin A chain

Insulin B chain

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