SMTL ID : 6egn.1

Crystal Structure of a Three-stranded Coiled Coil Peptide Containing a Trigonal Planar Hg(II)S3 Site Modified by D-Leu in the Second Coordination Sphere

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

homo-trimer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: X.1, E.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.4, A:E.4 ZN.7: 3 residues within 4Å: Chain B: E.32, E.35, H.36 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.32, B:E.32, B:E.35, B:H.36 ZN.9: 2 residues within 4Å: Chain C: E.35, H.36 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.35, C:H.36, H2O.5

2 x PRO: PROLINE(Non-covalent)

PRO.2: 2 residues within 4Å: Chain A: E.35 Ligands: CL.5 0 PLIP interactions: PRO.8: 1 residues within 4Å: Chain B: K.29 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Ligand interactions Hydrogen bonds: B:K.29, P.8, P.8 Salt bridges: B:K.29

2 x 15P: POLYETHYLENE GLYCOL (N=34)(Non-functional Binders)

15P.3: 3 residues within 4Å: Chain A: A.26, K.30 Ligands: 15P.4 1 PLIP interactions: 1 interactions with chain C Water bridges: C:E.32 15P.4: 3 residues within 4Å: Chain A: A.26, K.29 Ligands: 15P.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.29, A:K.29

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

CL.5: 3 residues within 4Å: Chain A: E.35 Chain B: L.34 Ligands: PRO.2 Ligand excluded by PLIP

1 x HG: MERCURY (II) ION(Non-covalent)

HG.6: 3 residues within 4Å: Chain A: C.17 Chain B: C.17 Chain C: C.17 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:C.17, A:C.17, C:C.17, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruckthong, L. et al., How Outer Coordination Sphere Modifications Can Impact Metal Structures in Proteins: A Crystallographic Evaluation. Chemistry (2019)

Release Date

2019-04-03

Peptides

Hg(II)(GRAND CoilSerL16CL19(DLE))3-: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Hg(II)(GRAND CoilSerL16CL19(DLE))3-