SMTL ID : 4cu4.1

FhuA from E. coli in complex with the lasso peptide microcin J25 (MccJ25)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x PA1- GCS- KDO- GMH- GMH- KDO: L-glycero-alpha-D-manno-heptopyranose-(1-3)-L-glycero-alpha-D-manno-heptopyranose-(1-5)-[3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid-(2-4)]3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid-(2-6)-2-amino-2-deoxy-beta-D-glucopyranose-(1-6)-2-amino-2-deoxy-alpha-D-glucopyranose

PA1-GCS-KDO-GMH-GMH-KDO.1: 16 residues within 4Å: Chain A: E.285, K.332, Q.334, R.363, R.365, D.367, L.418, R.455 Ligands: FTT.2, FTT.3, FTT.4, FTT.6, DPO.29, PO4.30, DPO.31, PO4.32 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.363, A:R.363 Salt bridges: A:R.365 Hydrogen bonds: A:R.363, A:R.365

4 x FTT: 3-HYDROXY-TETRADECANOIC ACID(Non-covalent)(Non-functional Binders)

FTT.2: 10 residues within 4Å: Chain A: Y.265, Q.279, F.336, F.361, R.363 Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, FTT.3, FTT.4, DAO.5, DPO.29 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.336, A:F.361 Hydrogen bonds: A:R.363 FTT.3: 6 residues within 4Å: Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, FTT.2, FTT.4, DAO.5, LDA.27, LDA.28 No protein-ligand interaction detected (PLIP) FTT.4: 10 residues within 4Å: Chain A: F.283, Q.334, R.363 Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, PA1-GCS-KDO-GMH-GMH-KDO.1, FTT.2, FTT.3, DAO.5, FTT.6, LDA.27 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.283, A:F.283 Hydrogen bonds: A:R.363, A:R.363 FTT.6: 8 residues within 4Å: Chain A: F.212, F.283, E.285 Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, FTT.4, MYR.7, LDA.27, PO4.30 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.212, A:F.283, A:F.283

1 x DAO: LAURIC ACID(Non-covalent)

DAO.5: 7 residues within 4Å: Chain A: Y.265, L.281, F.336, R.363 Ligands: FTT.2, FTT.3, FTT.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.265, A:L.281, A:F.336, A:F.336 Hydrogen bonds: A:R.363

1 x MYR: MYRISTIC ACID(Non-covalent)

MYR.7: 5 residues within 4Å: Chain A: F.212, V.263, E.285 Ligands: FTT.6, PO4.30 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.212

20 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)(Non-functional Binders)

LDA.8: 11 residues within 4Å: Chain A: V.145, F.147, T.157, G.158, F.159, L.178, Y.194, A.195, F.216, Q.217, N.218 Ligand excluded by PLIP LDA.9: 5 residues within 4Å: Chain A: V.359, T.424, V.426, W.447, D.449 Ligand excluded by PLIP LDA.10: 6 residues within 4Å: Chain A: V.426, V.428, Y.445, W.447, K.466 Ligands: LDA.21 Ligand excluded by PLIP LDA.11: 6 residues within 4Å: Chain A: V.428, L.441, G.442, G.443, F.468, W.470 Ligand excluded by PLIP LDA.12: 6 residues within 4Å: Chain A: F.486, Y.513, V.515, N.534, T.536 Ligands: LDA.25 Ligand excluded by PLIP LDA.13: 6 residues within 4Å: Chain A: N.480, V.482, V.517, Y.519, R.524, V.528 Ligand excluded by PLIP LDA.14: 7 residues within 4Å: Chain A: P.204, D.205, T.208, F.210, Y.265, F.267 Ligands: 3PH.26 Ligand excluded by PLIP LDA.15: 2 residues within 4Å: Chain A: Y.171, W.202 Ligand excluded by PLIP LDA.16: 4 residues within 4Å: Chain A: F.346, A.347, L.355 Ligands: LDA.17 Ligand excluded by PLIP LDA.17: 6 residues within 4Å: Chain A: T.274, S.344, F.346, T.357 Ligands: LDA.16, LDA.18 Ligand excluded by PLIP LDA.18: 3 residues within 4Å: Chain A: N.272, F.275 Ligands: LDA.17 Ligand excluded by PLIP LDA.19: 5 residues within 4Å: Chain A: V.437, Y.476, P.484, Y.485 Ligands: LDA.20 Ligand excluded by PLIP LDA.20: 2 residues within 4Å: Chain A: Y.476 Ligands: LDA.19 Ligand excluded by PLIP LDA.21: 5 residues within 4Å: Chain A: V.428, G.443, Y.445, F.468 Ligands: LDA.10 Ligand excluded by PLIP LDA.22: 4 residues within 4Å: Chain A: L.165, D.166, Y.171, F.200 Ligand excluded by PLIP LDA.23: 10 residues within 4Å: Chain A: V.439, W.470, G.472, G.473, V.474, F.486, Y.488, Y.513 Ligands: LDA.24, LDA.25 Ligand excluded by PLIP LDA.24: 2 residues within 4Å: Ligands: LDA.23, LDA.25 Ligand excluded by PLIP LDA.25: 5 residues within 4Å: Chain A: F.486, Y.513 Ligands: LDA.12, LDA.23, LDA.24 Ligand excluded by PLIP LDA.27: 4 residues within 4Å: Ligands: FTT.3, FTT.4, FTT.6, LDA.28 Ligand excluded by PLIP LDA.28: 2 residues within 4Å: Ligands: FTT.3, LDA.27 Ligand excluded by PLIP

1 x 3PH: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE(Non-covalent)

3PH.26: 3 residues within 4Å: Chain A: H.269, F.271 Ligands: LDA.14 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.271, A:F.271 Salt bridges: A:H.269

2 x DPO: DIPHOSPHATE(Non-covalent)(Non-functional Binders)

DPO.29: 6 residues within 4Å: Chain A: R.363, R.365, K.420, K.422 Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, FTT.2 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.365, A:K.420, A:K.422 DPO.31: 3 residues within 4Å: Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, PA1-GCS-KDO-GMH-GMH-KDO.1, PA1-GCS-KDO-GMH-GMH-KDO.1 No protein-ligand interaction detected (PLIP)

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.30: 5 residues within 4Å: Chain A: E.285, K.332 Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1, FTT.6, MYR.7 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.332 PO4.32: 1 residues within 4Å: Ligands: PA1-GCS-KDO-GMH-GMH-KDO.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mathavan, I. et al., Structural Basis for Hijacking Siderophore Receptors by Antimicrobial Lasso Peptides. Nat.Chem.Biol. (2014)

Release Date

2014-04-09

Peptides

FERRICHROME-IRON RECEPTOR: A
MICROCIN J25: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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FERRICHROME-IRON RECEPTOR

MICROCIN J25

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