SMTL ID : 6p4z.1

Structure of gadolinium-caged cobalt (III) insulin hexamer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-6-6-mer

Ligands

6 x CO: COBALT (II) ION(Non-covalent)

CO.1: 5 residues within 4Å: Chain B: H.10 Chain F: H.10 Chain J: H.10 Ligands: CO.5, CO.9 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain J, 3 Ligand-Water interactions Metal complexes: B:H.10, J:H.10, H2O.1, H2O.3, H2O.5 CO.4: 5 residues within 4Å: Chain D: H.10 Chain H: H.10 Chain L: H.10 Ligands: CO.8, CO.12 5 PLIP interactions: 1 interactions with chain L, 1 interactions with chain H, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: L:H.10, H:H.10, D:H.10, H2O.2, H2O.6 CO.5: 5 residues within 4Å: Chain B: H.10 Chain F: H.10 Chain J: H.10 Ligands: CO.1, CO.9 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain J, 3 Ligand-Water interactions Metal complexes: B:H.10, J:H.10, H2O.1, H2O.3, H2O.5 CO.8: 5 residues within 4Å: Chain D: H.10 Chain H: H.10 Chain L: H.10 Ligands: CO.4, CO.12 5 PLIP interactions: 1 interactions with chain L, 1 interactions with chain H, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: L:H.10, H:H.10, D:H.10, H2O.2, H2O.6 CO.9: 5 residues within 4Å: Chain B: H.10 Chain F: H.10 Chain J: H.10 Ligands: CO.1, CO.5 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain J, 3 Ligand-Water interactions Metal complexes: B:H.10, J:H.10, H2O.1, H2O.3, H2O.5 CO.12: 5 residues within 4Å: Chain D: H.10 Chain H: H.10 Chain L: H.10 Ligands: CO.4, CO.8 5 PLIP interactions: 1 interactions with chain L, 1 interactions with chain H, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: L:H.10, H:H.10, D:H.10, H2O.2, H2O.6

3 x GD: GADOLINIUM ATOM(Non-covalent)

GD.2: 8 residues within 4Å: Chain B: E.13 Chain J: E.13 Chain L: E.13 Ligands: CL.3, GD.6, CL.7, GD.10, CL.11 2 PLIP interactions: 1 interactions with chain L, 1 Ligand-Water interactions Metal complexes: L:E.13, H2O.4 GD.6: 8 residues within 4Å: Chain B: E.13 Chain D: E.13 Chain F: E.13 Ligands: GD.2, CL.3, CL.7, GD.10, CL.11 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.13, H2O.1 GD.10: 8 residues within 4Å: Chain F: E.13 Chain H: E.13 Chain J: E.13 Ligands: GD.2, CL.3, GD.6, CL.7, CL.11 2 PLIP interactions: 1 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:E.13, H2O.3

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

CL.3: 5 residues within 4Å: Ligands: GD.2, GD.6, CL.7, GD.10, CL.11 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Ligands: GD.2, CL.3, GD.6, GD.10, CL.11 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Ligands: GD.2, CL.3, GD.6, CL.7, GD.10 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taylor, S.K. et al., Insulin Hexamer-Caged Gadolinium Ion as MRI Contrast-o-phore. ChemBioChem (2018)

Release Date

2019-06-12

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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