SMTL ID : 3pqh.1 (2 other biounits)

Crystal structure of the C-terminal fragment of the bacteriophage phi92 membrane-piercing protein gp138

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-trimer

Ligands

3 x FE: FE (III) ION(Non-covalent)

FE.1: 8 residues within 4Å: Chain A: H.105, H.107 Chain B: H.105, H.107 Chain C: H.105, H.107 Ligands: FE.7, FE.13 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 2 interactions with chain C Metal complexes: B:H.105, B:H.107, A:H.105, A:H.107, C:H.105, C:H.107 FE.7: 8 residues within 4Å: Chain A: H.105, H.107 Chain B: H.105, H.107 Chain C: H.105, H.107 Ligands: FE.1, FE.13 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 2 interactions with chain C Metal complexes: B:H.105, B:H.107, A:H.105, A:H.107, C:H.105, C:H.107 FE.13: 8 residues within 4Å: Chain A: H.105, H.107 Chain B: H.105, H.107 Chain C: H.105, H.107 Ligands: FE.1, FE.7 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 2 interactions with chain C Metal complexes: B:H.105, B:H.107, A:H.105, A:H.107, C:H.105, C:H.107

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

NA.2: 1 residues within 4Å: Chain B: R.93 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.93, B:R.93 NA.3: 3 residues within 4Å: Chain A: T.87, T.89, T.95 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.87, A:T.87 Water bridges: A:T.95 NA.4: 5 residues within 4Å: Chain A: G.99, I.100, G.101, T.104, H.105 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.99, A:G.101 Water bridges: A:T.104, A:T.104 NA.5: 1 residues within 4Å: Chain B: K.123 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.123, B:K.123 NA.6: 3 residues within 4Å: Chain A: G.98, G.99 Chain C: G.126 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.98 NA.8: 1 residues within 4Å: Chain C: R.93 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.93, C:R.93 NA.9: 3 residues within 4Å: Chain B: T.87, T.89, T.95 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.87, B:T.87 Water bridges: B:T.95 NA.10: 5 residues within 4Å: Chain B: G.99, I.100, G.101, T.104, H.105 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.101, B:T.104 Water bridges: B:T.104, B:T.104 NA.11: 1 residues within 4Å: Chain C: K.123 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.123, C:K.123 NA.12: 3 residues within 4Å: Chain A: G.126 Chain B: G.98, G.99 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.99 NA.14: 1 residues within 4Å: Chain A: R.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.93, A:R.93 NA.15: 3 residues within 4Å: Chain C: T.87, T.89, T.95 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.87, C:T.87 Water bridges: C:T.95 NA.16: 5 residues within 4Å: Chain C: G.99, I.100, G.101, T.104, H.105 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.101, C:T.104 Water bridges: C:T.104, C:T.104 NA.17: 1 residues within 4Å: Chain A: K.123 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.123, A:K.123 NA.18: 3 residues within 4Å: Chain B: G.126 Chain C: G.98, G.99 2 PLIP interactions: 2 interactions with chain C Water bridges: C:G.98, C:G.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Browning, C. et al., Phage pierces the host cell membrane with the iron-loaded spike. Structure (2012)

Release Date

2012-02-22

Peptides

gene product 138: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

gene product 138

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