SMTL ID : 4s37.4 (5 other biounits)

Crystal structure of R2 pyocin membrane-piercing spike

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

7 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: E.127, R.129, E.134 Chain C: R.118, E.120 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:R.136, C:E.120, C:E.120 Salt bridges: A:R.129, C:R.118 Water bridges: C:R.118 SO4.2: 2 residues within 4Å: Chain A: R.116, R.118 6 PLIP interactions: 6 interactions with chain A Water bridges: A:D.111, A:R.116, A:R.118, A:R.118 Salt bridges: A:R.116, A:R.118 SO4.3: 2 residues within 4Å: Chain A: R.54 Chain C: R.101 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Water bridges: C:R.101, A:R.54 Salt bridges: A:R.54 SO4.8: 5 residues within 4Å: Chain A: R.118, E.120 Chain B: E.127, R.129, E.134 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.127, B:E.134, A:E.120 Salt bridges: B:R.129, A:R.118 SO4.9: 2 residues within 4Å: Chain A: R.101 Chain B: R.54 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Water bridges: B:R.54, A:R.101, A:R.101 Salt bridges: B:R.54, A:R.101 SO4.13: 4 residues within 4Å: Chain B: R.116, R.118 Chain C: T.125, R.136 7 PLIP interactions: 3 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:T.125 Water bridges: C:R.136, B:R.118, B:R.118 Salt bridges: C:R.136, B:R.116, B:R.118 SO4.14: 2 residues within 4Å: Chain B: R.101 Chain C: R.54 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Water bridges: C:R.54, C:R.54, C:R.54 Salt bridges: C:R.54 Hydrogen bonds: B:R.101

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 4 residues within 4Å: Chain A: S.5, H.8 Chain C: S.5, H.8 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:S.5

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

CL.5: 3 residues within 4Å: Chain A: G.73, V.74, S.75 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: A.28, A.29, R.30, R.44 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: G.73, V.74, S.75 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain B: R.34, T.39 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain C: G.73, V.74, S.75 Ligand excluded by PLIP

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

EDO.7: 1 residues within 4Å: Chain B: W.38 No protein-ligand interaction detected (PLIP) EDO.12: 1 residues within 4Å: Chain C: W.38 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Browning, C.B. et al., Crystal structure of R2 pyocin membrane-piercing spike. To be Published

Release Date

2016-01-27

Peptides

Phage baseplate protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
J

B
K

C
L

Phage baseplate protein

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