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

Monoclinic crystalline form of human insulin, complexed with meta-cresol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-6-6-mer

Ligands

6 x CRS: M-CRESOL(Non-covalent)

CRS.1: 11 residues within 4Å: Chain A: C.6, S.9, I.10, C.11, L.16 Chain B: C.7, H.10, L.11, A.14 Chain F: L.17 Chain L: H.5 6 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A, 1 interactions with chain F Hydrophobic interactions: B:L.11, B:A.14, A:L.16, F:L.17 Hydrogen bonds: A:C.11, A:C.11 CRS.5: 11 residues within 4Å: Chain C: C.6, S.9, I.10, C.11, L.16 Chain D: C.7, H.10, L.11 Chain F: H.5, L.6 Chain L: L.17 8 PLIP interactions: 2 interactions with chain D, 2 interactions with chain F, 3 interactions with chain C, 1 interactions with chain L Hydrophobic interactions: D:H.10, D:L.11, F:L.6, C:L.16, L:L.17 pi-Cation interactions: F:H.5 Hydrogen bonds: C:C.6, C:C.11 CRS.9: 9 residues within 4Å: Chain B: L.17 Chain E: C.6, S.9, I.10, C.11, L.16 Chain F: C.7, A.14 Chain H: H.5 4 PLIP interactions: 2 interactions with chain E, 1 interactions with chain F, 1 interactions with chain B Hydrophobic interactions: E:L.16, F:A.14, B:L.17 Hydrogen bonds: E:C.11 CRS.12: 10 residues within 4Å: Chain D: H.5 Chain G: C.6, S.9, I.10, C.11, L.16 Chain H: C.7, L.11, A.14 Chain J: L.17 5 PLIP interactions: 1 interactions with chain J, 2 interactions with chain H, 2 interactions with chain G Hydrophobic interactions: J:L.17, H:L.11, H:A.14, G:L.16 Hydrogen bonds: G:C.11 CRS.15: 9 residues within 4Å: Chain B: H.5 Chain H: L.17 Chain I: C.6, S.9, 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, 2 interactions with chain I, 1 interactions with chain H pi-Cation interactions: B:H.5 Hydrophobic interactions: J:L.11, J:A.14, I:L.16, H:L.17 Hydrogen bonds: I:C.11 CRS.16: 9 residues within 4Å: Chain D: L.17 Chain J: H.5 Chain K: C.6, S.9, I.10, C.11, L.16 Chain L: L.11, A.14 7 PLIP interactions: 2 interactions with chain L, 3 interactions with chain K, 1 interactions with chain J, 1 interactions with chain D Hydrophobic interactions: L:L.11, L:A.14, K:L.16, D:L.17 Hydrogen bonds: K:C.11, K:C.11 pi-Stacking: J:H.5

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 4 residues within 4Å: Chain A: L.13, Y.14 Chain B: V.18 Chain E: L.13 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A Hydrogen bonds: E:E.17, A:E.17 EDO.7: 5 residues within 4Å: Chain D: E.13 Chain J: S.9, H.10, E.13 Chain L: H.10 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain J Hydrogen bonds: D:E.13, J:H.10 EDO.10: 2 residues within 4Å: Chain E: N.18 Chain F: F.25 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Y.19 EDO.11: 5 residues within 4Å: Chain D: H.10, E.13 Chain F: S.9, H.10 Chain L: E.13 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain F, 1 interactions with chain H Water bridges: B:E.13, F:S.9, H:S.9 Hydrogen bonds: F:S.9 EDO.13: 5 residues within 4Å: Chain H: L.17, G.20 Chain I: C.11, S.12, L.13 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:L.13 EDO.14: 4 residues within 4Å: Chain D: S.9 Chain H: H.10, E.13 Chain J: E.13 2 PLIP interactions: 1 interactions with chain H, 1 interactions with chain D Hydrogen bonds: H:H.10, D:S.9

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain B: H.10 Chain J: H.10 Chain L: H.10 Ligands: IS8.4 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain L, 1 interactions with chain J Metal complexes: B:H.10, L:H.10, J:H.10 ZN.6: 4 residues within 4Å: Chain D: H.10 Chain F: H.10 Chain H: H.10 Ligands: IS8.8 3 PLIP interactions: 1 interactions with chain H, 1 interactions with chain F, 1 interactions with chain D Metal complexes: H:H.10, F:H.10, D:H.10

2 x IS8: isothiocyanate(Non-covalent)

IS8.4: 7 residues within 4Å: Chain B: L.6, H.10 Chain J: L.6, H.10 Chain L: L.6, H.10 Ligands: ZN.3 No protein-ligand interaction detected (PLIP) IS8.8: 7 residues within 4Å: Chain D: L.6, H.10 Chain F: L.6, H.10 Chain H: L.6, H.10 Ligands: ZN.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Margiolaki, I. et al., Monoclinic crystalline form of human insulin, complexed with meta-cresol. To Be Published

Release Date

2019-06-12

Peptides

Insulin: ACEGIK
Insulin: 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

Insulin

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