SMTL ID : 7cn7.1

T4 phage spackle protein gp61.3 complex with lysozyme domain of gp5 tail lysozyme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

hetero-1-1-mer

Ligands

1 x 1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL(Non-covalent)

1PG.1: 9 residues within 4Å: Chain A: A.16, R.20, L.25, I.41, M.77, A.80, T.81, F.84 Chain B: Y.55 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.20

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

EDO.2: 7 residues within 4Å: Chain A: S.14, M.15, A.16, L.88, Q.92, R.110, M.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.15, A:Q.92, A:R.110 Water bridges: A:R.110 EDO.6: 3 residues within 4Å: Chain B: R.32, D.33, K.66 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.32 EDO.7: 5 residues within 4Å: Chain B: E.23, Q.42, L.45, K.46, V.50 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.42 EDO.8: 3 residues within 4Å: Chain B: D.5, L.6, W.9 No protein-ligand interaction detected (PLIP)

3 x NA: SODIUM ION(Non-functional Binders)

NA.3: 4 residues within 4Å: Chain A: Q.92, W.105, R.110, E.117 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.92, A:R.110, A:R.110 Water bridges: A:Q.92 NA.4: 2 residues within 4Å: Chain A: T.81, E.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.85 NA.9: 4 residues within 4Å: Chain B: Y.2, K.4, C.7, E.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.2, B:K.4, B:E.8

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

CL.5: 3 residues within 4Å: Chain A: V.50, R.51, D.52 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kanamaru, S. et al., Structure and Function of the T4 Spackle Protein Gp61.3. Viruses (2020)

Release Date

2020-10-14

Peptides

Baseplate central spike complex protein gp5: A
Protein spackle: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Baseplate central spike complex protein gp5

Protein spackle

Related Entries With Identical Sequence