SMTL ID : 3t52.1 (1 other biounit)

L29I Mutation in an Aryl Esterase from Pseudomonas fluorescens Leads to Unique Peptide Flip and Increased Activity

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

14 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: S.1, Y.12, F.13, K.14, D.15 Chain C: D.61, Q.62 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:S.1, A:Y.12, A:Y.12, A:D.15, A:D.15, C:D.61, C:Q.62 Water bridges: C:Q.62 GOL.7: 6 residues within 4Å: Chain A: L.137, A.141, K.144, T.196, A.199, E.200 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.141, A:K.144, A:E.200 Water bridges: A:A.141 GOL.12: 3 residues within 4Å: Chain A: F.125, Q.223, I.224 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.223 GOL.13: 7 residues within 4Å: Chain B: L.137, A.141, K.144, T.196, A.199, E.200 Ligands: PEO.22 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.144, B:T.196, B:E.200 GOL.14: 8 residues within 4Å: Chain A: D.61, Q.62 Chain B: S.1, Y.12, F.13, K.14, D.15 Ligands: GOL.19 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.1, B:Y.12, B:Y.12, B:D.15, B:D.15, A:D.61, A:Q.62 GOL.18: 7 residues within 4Å: Chain B: F.125, V.135, Q.223, I.224, P.226 Ligands: ACT.27, ACT.28 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.223 GOL.19: 3 residues within 4Å: Chain B: S.1, T.2 Ligands: GOL.14 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.1, B:T.2, B:T.2 GOL.29: 3 residues within 4Å: Chain B: W.64 Chain C: S.18, S.43 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:S.18, C:S.18 Water bridges: B:K.189 GOL.30: 1 residues within 4Å: Chain B: R.45 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.45 GOL.31: 7 residues within 4Å: Chain B: D.61, Q.62 Chain C: S.1, Y.12, F.13, K.14, D.15 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:S.1, C:Y.12, C:Y.12, C:D.15, C:D.15, B:D.61, B:Q.62 GOL.32: 6 residues within 4Å: Chain C: L.137, A.141, K.144, T.196, A.199, E.200 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.144, C:T.196, C:E.200 GOL.38: 7 residues within 4Å: Chain C: F.125, F.143, Q.223, I.224, P.226 Ligands: ACT.45, ACT.46 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.223 GOL.47: 3 residues within 4Å: Chain C: S.18, G.19, R.48 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.19 Water bridges: C:R.48, C:R.48, C:R.48 GOL.48: 4 residues within 4Å: Chain C: K.128, D.202, R.204 Ligands: PEO.39 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.128, C:R.204 Water bridges: C:D.130

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: D.70, R.106 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.106 SO4.15: 2 residues within 4Å: Chain B: D.70, R.106 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.106 SO4.16: 4 residues within 4Å: Chain B: V.245, Y.246, K.247, Q.260 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.247, B:Q.260 SO4.33: 4 residues within 4Å: Chain C: V.245, Y.246, K.247, Q.260 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:V.245, C:K.247, C:Q.260 SO4.34: 1 residues within 4Å: Chain C: Q.173 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.173 Water bridges: C:Q.173 SO4.35: 2 residues within 4Å: Chain C: R.106 Ligands: ACT.40 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.106

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

CL.3: 3 residues within 4Å: Chain A: Y.246, K.247, Q.260 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: A.235 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain B: K.239, G.240 Ligand excluded by PLIP CL.36: 2 residues within 4Å: Chain C: K.239, G.240 Ligand excluded by PLIP CL.37: 1 residues within 4Å: Chain C: R.45 Ligand excluded by PLIP

8 x PEO: HYDROGEN PEROXIDE(Non-functional Binders)

PEO.5: 3 residues within 4Å: Chain A: V.212, P.213, K.239 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.212 Water bridges: A:T.214 PEO.6: 1 residues within 4Å: Chain A: K.128 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.128 Water bridges: A:D.202 PEO.20: 3 residues within 4Å: Chain B: R.102, T.201, D.202 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.102, B:R.102, B:D.202 Water bridges: B:E.200 PEO.21: 3 residues within 4Å: Chain A: W.64 Chain B: G.17, S.18 No protein-ligand interaction detected (PLIP) PEO.22: 4 residues within 4Å: Chain B: L.137, D.138, A.141 Ligands: GOL.13 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.137 PEO.23: 2 residues within 4Å: Chain B: Y.12, R.59 No protein-ligand interaction detected (PLIP) PEO.39: 4 residues within 4Å: Chain C: R.102, T.201, D.202 Ligands: GOL.48 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.102, C:R.102, C:D.202, C:D.202 PEO.43: 2 residues within 4Å: Chain C: Q.259, E.263 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.259 Water bridges: C:Q.259

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

ACT.8: 4 residues within 4Å: Chain A: S.156, N.159, Q.173, Q.176 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.159, A:Q.173 Water bridges: A:T.177 ACT.9: 4 residues within 4Å: Chain A: D.7, P.63, W.64, T.65 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:D.7, A:P.63 Hydrogen bonds: A:W.64, A:T.65 Water bridges: A:T.9 ACT.10: 10 residues within 4Å: Chain A: G.27, W.28, I.29, L.30, F.93, S.94, F.158, F.162, H.251 Ligands: ACT.11 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.29, A:L.30, A:F.158, A:F.162 Hydrogen bonds: A:W.28, A:W.28, A:S.94 Salt bridges: A:H.251 ACT.11: 10 residues within 4Å: Chain A: W.28, S.94, M.95, V.121, F.125, F.198, I.224, V.225, H.251 Ligands: ACT.10 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.121, A:F.125, A:F.198, A:V.225 Hydrogen bonds: A:W.28, A:S.94, A:M.95 Salt bridges: A:H.251 ACT.24: 10 residues within 4Å: Chain B: G.27, W.28, I.29, L.30, F.93, S.94, F.158, F.162, H.251 Ligands: ACT.25 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:I.29, B:L.30, B:F.158, B:F.162 Hydrogen bonds: B:W.28, B:S.94 Salt bridges: B:H.251 ACT.25: 10 residues within 4Å: Chain B: W.28, S.94, M.95, V.121, F.125, F.198, I.224, V.225, H.251 Ligands: ACT.24 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:V.121, B:F.125, B:F.198, B:V.225 Hydrogen bonds: B:W.28, B:S.94, B:M.95 Salt bridges: B:H.251 ACT.26: 4 residues within 4Å: Chain B: D.7, P.63, W.64, T.65 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:D.7, B:P.63 Hydrogen bonds: B:W.64, B:T.65, B:T.65 ACT.27: 5 residues within 4Å: Chain B: F.143, Q.223, I.224 Ligands: GOL.18, ACT.28 No protein-ligand interaction detected (PLIP) ACT.28: 8 residues within 4Å: Chain B: W.28, F.125, F.140, F.143, F.158, I.224 Ligands: GOL.18, ACT.27 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.28, B:F.143, B:F.158 ACT.40: 4 residues within 4Å: Chain C: D.70, T.71, D.74 Ligands: SO4.35 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.71 Water bridges: C:T.71 Salt bridges: C:R.106 ACT.41: 10 residues within 4Å: Chain C: G.27, W.28, I.29, L.30, F.93, S.94, F.158, F.162, H.251 Ligands: ACT.42 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:I.29, C:L.30, C:F.158, C:F.162 Hydrogen bonds: C:W.28, C:S.94 Salt bridges: C:H.251 ACT.42: 10 residues within 4Å: Chain C: W.28, S.94, M.95, V.121, F.125, F.198, I.224, V.225, H.251 Ligands: ACT.41 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:V.121, C:F.125, C:F.198, C:V.225 Hydrogen bonds: C:W.28, C:S.94, C:M.95 Salt bridges: C:H.251 ACT.44: 4 residues within 4Å: Chain C: D.7, P.63, W.64, T.65 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:D.7 Hydrogen bonds: C:W.64, C:T.65 ACT.45: 5 residues within 4Å: Chain C: F.143, Q.223, I.224 Ligands: GOL.38, ACT.46 No protein-ligand interaction detected (PLIP) ACT.46: 9 residues within 4Å: Chain C: W.28, F.125, F.140, F.143, F.158, F.198, I.224 Ligands: GOL.38, ACT.45 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:W.28, C:F.143, C:F.198

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, T. et al., L29I Mutation in an Aryl Esterase from Pseudomonas fluorescens Leads to Unique Peptide Flip and Increased Activity. To be Published

Release Date

2012-08-01

Peptides

Arylesterase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Arylesterase

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