SMTL ID : 4k38.2 (1 other biounit)

Native anSMEcpe with bound AdoMet and Kp18Cys peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

hetero-1-1-mer

Ligands

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

SF4.1: 11 residues within 4Å: Chain A: C.255, G.256, C.261, T.262, Q.264, C.276, F.278, Y.279, C.330, R.331, R.332 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.255, A:C.261, A:C.276, A:C.330 SF4.2: 9 residues within 4Å: Chain A: E.316, C.317, C.320, F.323, C.326, G.328, C.348, Y.351, K.352 5 PLIP interactions: 5 interactions with chain A, Salt bridges: A:E.316 Metal complexes: A:C.317, A:C.320, A:C.326, A:C.348 SF4.3: 9 residues within 4Å: Chain A: C.15, L.17, C.19, C.22, H.25, G.66, N.100, R.134 Ligands: SAM.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:C.15, A:C.19, A:C.22, SAM.4

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

SAM.4: 21 residues within 4Å: Chain A: Y.21, C.22, F.23, Y.24, Q.64, G.65, G.66, E.67, Q.98, T.99, N.100, S.122, R.134, L.163, V.165, I.192, N.193, C.194, L.195 Chain B: C.7 Ligands: SF4.3 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Q.64, A:Q.98 Hydrogen bonds: A:Y.21, A:E.67, A:E.67, A:Q.98, A:S.122, A:S.122, A:R.134, A:L.195, A:L.195 Water bridges: A:M.123 Salt bridges: A:R.134 pi-Stacking: A:Y.24 pi-Cation interactions: A:Y.24

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: Y.239, L.243, G.256, M.257, C.326, G.329, C.330, Y.351, F.355 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.239, A:Y.239, A:C.326, A:G.329, A:C.330 Water bridges: A:G.256, A:Y.351, A:Y.351 GOL.6: 8 residues within 4Å: Chain A: K.154, E.159, F.160, D.185, F.186, K.187, F.188 Chain B: R.11 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.154, A:K.154, A:F.160, A:K.187, B:R.11, B:R.11 GOL.7: 5 residues within 4Å: Chain A: T.69, L.70, G.72, L.103, W.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.108 GOL.8: 5 residues within 4Å: Chain A: N.16, L.17, T.102, D.136, K.145 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.16, A:T.102, A:D.136, A:D.136, A:K.145 Water bridges: A:N.16 GOL.9: 7 residues within 4Å: Chain A: A.171, R.172, H.173, V.174, N.175, K.216, N.220 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.171, A:V.174, A:N.175, A:N.175, A:N.220 GOL.10: 6 residues within 4Å: Chain A: W.225, F.229, R.234, V.235, S.236, D.241 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.235, A:D.241 GOL.11: 2 residues within 4Å: Chain A: K.49, R.50 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.50 Water bridges: A:N.53, A:E.54

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

CL.12: 5 residues within 4Å: Chain A: Q.190, F.191, I.237, R.238, Y.239 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goldman, P.J. et al., X-ray structure of an AdoMet radical activase reveals an anaerobic solution for formylglycine posttranslational modification. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-05-08

Peptides

Anaerobic sulfatase-maturating enzyme: A
Kp18Cys peptide: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Anaerobic sulfatase-maturating enzyme

Kp18Cys peptide

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