SMTL ID : 5i55.1

Crystal Structure of the Virulent PSM-alpha3 Peptide Forming a Cross-alpha amyloid-like Fibril

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-20-mer

Ligands

20 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 2 residues within 4Å: Chain A: F.18 Chain F: F.3 Ligand excluded by PLIP MPD.3: 7 residues within 4Å: Chain B: F.18 Chain F: V.4 Chain G: F.3 Chain P: F.11, L.14, L.15, F.18 Ligand excluded by PLIP MPD.5: 7 residues within 4Å: Chain C: F.18 Chain G: V.4 Chain H: F.3 Chain Q: F.11, L.14, L.15, F.18 Ligand excluded by PLIP MPD.7: 7 residues within 4Å: Chain D: F.18 Chain H: V.4 Chain I: F.3 Chain R: F.11, L.14, L.15, F.18 Ligand excluded by PLIP MPD.9: 7 residues within 4Å: Chain E: F.18 Chain I: V.4 Chain J: F.3 Chain S: F.11, L.14, L.15, F.18 Ligand excluded by PLIP MPD.11: 1 residues within 4Å: Chain F: F.18 Ligand excluded by PLIP MPD.13: 1 residues within 4Å: Chain G: F.18 Ligand excluded by PLIP MPD.15: 1 residues within 4Å: Chain H: F.18 Ligand excluded by PLIP MPD.17: 1 residues within 4Å: Chain I: F.18 Ligand excluded by PLIP MPD.19: 1 residues within 4Å: Chain J: F.18 Ligand excluded by PLIP MPD.21: 1 residues within 4Å: Chain K: F.18 Ligand excluded by PLIP MPD.23: 1 residues within 4Å: Chain L: F.18 Ligand excluded by PLIP MPD.25: 1 residues within 4Å: Chain M: F.18 Ligand excluded by PLIP MPD.27: 1 residues within 4Å: Chain N: F.18 Ligand excluded by PLIP MPD.29: 1 residues within 4Å: Chain O: F.18 Ligand excluded by PLIP MPD.31: 6 residues within 4Å: Chain A: F.11, L.14, L.15, F.18 Chain K: F.3 Chain P: F.18 Ligand excluded by PLIP MPD.33: 7 residues within 4Å: Chain B: F.11, L.14, L.15, F.18 Chain K: V.4 Chain L: F.3 Chain Q: F.18 Ligand excluded by PLIP MPD.35: 7 residues within 4Å: Chain C: F.11, L.14, L.15, F.18 Chain L: V.4 Chain M: F.3 Chain R: F.18 Ligand excluded by PLIP MPD.37: 7 residues within 4Å: Chain D: F.11, L.14, L.15, F.18 Chain M: V.4 Chain N: F.3 Chain S: F.18 Ligand excluded by PLIP MPD.39: 7 residues within 4Å: Chain E: F.11, L.14, L.15, F.18 Chain N: V.4 Chain O: F.3 Chain T: F.18 Ligand excluded by PLIP

20 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 5 residues within 4Å: Chain A: K.17, F.18, G.20 Chain F: F.3, K.6 Ligand excluded by PLIP ACT.4: 7 residues within 4Å: Chain B: K.17, F.18, G.20 Chain F: E.2, V.4 Chain G: F.3, K.6 Ligand excluded by PLIP ACT.6: 7 residues within 4Å: Chain C: K.17, F.18, G.20 Chain G: E.2, V.4 Chain H: F.3, K.6 Ligand excluded by PLIP ACT.8: 7 residues within 4Å: Chain D: K.17, F.18, G.20 Chain H: E.2, V.4 Chain I: F.3, K.6 Ligand excluded by PLIP ACT.10: 7 residues within 4Å: Chain E: K.17, F.18, G.20 Chain I: E.2, V.4 Chain J: F.3, K.6 Ligand excluded by PLIP ACT.12: 3 residues within 4Å: Chain F: K.17, F.18, G.20 Ligand excluded by PLIP ACT.14: 3 residues within 4Å: Chain G: K.17, F.18, G.20 Ligand excluded by PLIP ACT.16: 3 residues within 4Å: Chain H: K.17, F.18, G.20 Ligand excluded by PLIP ACT.18: 3 residues within 4Å: Chain I: K.17, F.18, G.20 Ligand excluded by PLIP ACT.20: 3 residues within 4Å: Chain J: K.17, F.18, G.20 Ligand excluded by PLIP ACT.22: 3 residues within 4Å: Chain K: K.17, F.18, G.20 Ligand excluded by PLIP ACT.24: 3 residues within 4Å: Chain L: K.17, F.18, G.20 Ligand excluded by PLIP ACT.26: 3 residues within 4Å: Chain M: K.17, F.18, G.20 Ligand excluded by PLIP ACT.28: 3 residues within 4Å: Chain N: K.17, F.18, G.20 Ligand excluded by PLIP ACT.30: 3 residues within 4Å: Chain O: K.17, F.18, G.20 Ligand excluded by PLIP ACT.32: 5 residues within 4Å: Chain K: F.3, K.6 Chain P: K.17, F.18, G.20 Ligand excluded by PLIP ACT.34: 7 residues within 4Å: Chain K: E.2, V.4 Chain L: F.3, K.6 Chain Q: K.17, F.18, G.20 Ligand excluded by PLIP ACT.36: 7 residues within 4Å: Chain L: E.2, V.4 Chain M: F.3, K.6 Chain R: K.17, F.18, G.20 Ligand excluded by PLIP ACT.38: 7 residues within 4Å: Chain M: E.2, V.4 Chain N: F.3, K.6 Chain S: K.17, F.18, G.20 Ligand excluded by PLIP ACT.40: 7 residues within 4Å: Chain N: E.2, V.4 Chain O: F.3, K.6 Chain T: K.17, F.18, G.20 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tayeb-Fligelman, E. et al., The cytotoxic Staphylococcus aureus PSM alpha 3 reveals a cross-alpha amyloid-like fibril. Science (2017)

Release Date

2017-03-01

Peptides

Psm alpha-3: ABCDEFGHIJKLMNOPQRST

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

K
A

L
A

M
A

N
A

O
A

P
A

Q
A

R
A

S
A

T
A

Psm alpha-3

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