SMTL ID : 5v1t.1

Crystal structure of Streptococcus suis SuiB bound to precursor peptide SuiA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-mer

Ligands

3 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 10 residues within 4Å: Chain A: C.137, L.139, K.140, C.141, C.144, R.149, G.180, N.207 Ligands: MET.4, SAM.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:C.137, A:C.141, A:C.144, MET.4 SF4.2: 10 residues within 4Å: Chain A: F.344, T.345, C.426, C.429, C.435, G.437, G.438, R.453, C.457, L.459 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.426, A:C.429, A:C.435, A:C.457 SF4.3: 11 residues within 4Å: Chain A: C.341, H.342, C.367, R.368, A.369, K.373, C.385, I.416, C.439, V.441 Chain B: M.14 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.341, A:C.367, A:C.385, A:C.439

1 x MET: METHIONINE(Non-covalent)

MET.4: 10 residues within 4Å: Chain A: F.145, G.179, G.180, E.181, T.205, T.206, N.207, S.230 Ligands: SF4.1, SAM.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.180, A:T.205, A:S.230

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.5: 18 residues within 4Å: Chain A: F.143, C.144, F.145, L.178, T.205, V.228, S.230, N.267, V.269, R.292, N.297, Y.298, S.299, T.305, E.339 Chain B: M.14 Ligands: SF4.1, MET.4 12 PLIP interactions: 11 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:F.145, A:S.230, A:N.267, A:R.292, A:S.299, A:S.299, A:E.339, A:E.339, M.4 Water bridges: A:L.231, A:Q.232 pi-Stacking: A:F.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davis, K.M. et al., Structures of the peptide-modifying radical SAM enzyme SuiB elucidate the basis of substrate recognition. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-08-30

Peptides

Radical SAM: A
SuiA 22mer: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Radical SAM

SuiA 22mer

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