SMTL ID : 2uuh.1

Crystal structure of Human Leukotriene C4 Synthase in complex with substrate glutathione

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-trimer

Ligands

6 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 2 residues within 4Å: Chain A: H.2, H.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.2, A:H.4 NI.2: 8 residues within 4Å: Chain A: H.5, H.7 Chain B: H.5, H.7 Chain C: H.5, H.7 Ligands: NI.13, NI.24 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Metal complexes: B:H.5, B:H.7, C:H.5, C:H.7, A:H.5, A:H.7 NI.12: 2 residues within 4Å: Chain B: H.2, H.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.2, B:H.4 NI.13: 8 residues within 4Å: Chain A: H.5, H.7 Chain B: H.5, H.7 Chain C: H.5, H.7 Ligands: NI.2, NI.24 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Metal complexes: B:H.5, B:H.7, C:H.5, C:H.7, A:H.5, A:H.7 NI.23: 2 residues within 4Å: Chain C: H.2, H.4 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:H.2, C:H.4 NI.24: 8 residues within 4Å: Chain A: H.5, H.7 Chain B: H.5, H.7 Chain C: H.5, H.7 Ligands: NI.2, NI.13 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Metal complexes: B:H.5, B:H.7, C:H.5, C:H.7, A:H.5, A:H.7

3 x LMU: DODECYL-ALPHA-D-MALTOSIDE(Non-covalent)

LMU.3: 19 residues within 4Å: Chain A: Y.65, A.107, Q.108, R.110, L.111, L.114, Y.115, A.118, L.121, W.122 Chain C: A.26, L.30, I.33, R.36, R.37, S.42, P.43 Ligands: GSH.4, SO4.9 17 PLIP interactions: 11 interactions with chain A, 6 interactions with chain C Hydrophobic interactions: A:L.114, A:Y.115, A:A.118, A:L.121, A:W.122, C:L.30, C:I.33 Hydrogen bonds: A:R.110, A:R.110, A:Y.115, C:R.37, C:P.43 Water bridges: A:Q.108, A:Q.108, C:R.37 Salt bridges: A:R.110, C:R.37 LMU.14: 19 residues within 4Å: Chain A: A.26, L.30, I.33, R.36, R.37, S.42, P.43 Chain B: Y.65, A.107, Q.108, R.110, L.111, L.114, Y.115, A.118, L.121, W.122 Ligands: GSH.15, SO4.20 16 PLIP interactions: 10 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:L.114, B:Y.115, B:A.118, B:L.121, B:W.122, A:L.30, A:I.33 Hydrogen bonds: B:R.110, B:R.110, A:R.37, A:P.43 Water bridges: B:Q.108, B:Q.108, A:R.37 Salt bridges: B:R.110, A:R.37 LMU.25: 19 residues within 4Å: Chain B: A.26, L.30, I.33, R.36, R.37, S.42, P.43 Chain C: Y.65, A.107, Q.108, R.110, L.111, L.114, Y.115, A.118, L.121, W.122 Ligands: GSH.26, SO4.31 16 PLIP interactions: 6 interactions with chain B, 10 interactions with chain C Hydrophobic interactions: B:L.30, B:I.33, C:L.114, C:Y.115, C:A.118, C:L.121, C:W.122 Hydrogen bonds: B:R.37, B:P.43, C:R.110, C:R.110 Water bridges: B:R.37, C:Q.108, C:Q.108 Salt bridges: B:R.37, C:R.110

3 x GSH: GLUTATHIONE(Non-covalent)

GSH.4: 16 residues within 4Å: Chain A: R.57, N.61, E.64, Y.65, Y.99, Y.103, R.110, L.114 Chain C: S.29, V.32, I.33, R.36, P.43, Y.56, Q.59 Ligands: LMU.3 10 PLIP interactions: 6 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:R.57, A:N.61, A:E.64, A:Y.65, A:Y.103 Salt bridges: A:R.57, C:R.36, C:R.36 Hydrophobic interactions: C:V.32, C:I.33 GSH.15: 16 residues within 4Å: Chain A: S.29, V.32, I.33, R.36, P.43, Y.56, Q.59 Chain B: R.57, N.61, E.64, Y.65, Y.99, Y.103, R.110, L.114 Ligands: LMU.14 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.57, B:N.61, B:E.64, B:Y.65, B:Y.103 Salt bridges: B:R.57, A:R.36, A:R.36 Hydrophobic interactions: A:V.32, A:I.33 GSH.26: 16 residues within 4Å: Chain B: S.29, V.32, I.33, R.36, P.43, Y.56, Q.59 Chain C: R.57, N.61, E.64, Y.65, Y.99, Y.103, R.110, L.114 Ligands: LMU.25 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:R.57, C:N.61, C:E.64, C:Y.99, C:Y.103 Salt bridges: C:R.57, B:R.36, B:R.36 Hydrophobic interactions: B:V.32, B:I.33

3 x PAM: PALMITOLEIC ACID(Non-covalent)

PAM.5: 10 residues within 4Å: Chain A: H.7, E.10, W.74, I.78 Chain C: H.6, K.8, L.70, W.74 Ligands: PAM.16, PAM.27 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:H.7, A:E.10, A:W.74, A:W.74, A:I.78, C:L.70, C:W.74, C:W.74 PAM.16: 10 residues within 4Å: Chain A: H.6, K.8, L.70, W.74 Chain B: H.7, E.10, W.74, I.78 Ligands: PAM.5, PAM.27 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:H.7, B:E.10, B:W.74, B:W.74, B:I.78, A:L.70, A:W.74, A:W.74 PAM.27: 10 residues within 4Å: Chain B: H.6, K.8, L.70, W.74 Chain C: H.7, E.10, W.74, I.78 Ligands: PAM.5, PAM.16 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:L.70, B:W.74, B:W.74, C:H.7, C:E.10, C:W.74, C:W.74, C:I.78

15 x PLM: PALMITIC ACID(Non-covalent)

PLM.6: 3 residues within 4Å: Chain A: P.138, L.141, R.142 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.141 PLM.7: 2 residues within 4Å: Chain A: L.132, F.136 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.132, A:F.136, A:F.136 PLM.8: 3 residues within 4Å: Chain A: L.24, Y.27, Q.101 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.24, A:Y.27, A:Y.27 PLM.10: 5 residues within 4Å: Chain C: A.16, V.17, G.83, L.87, L.90 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.17, C:L.87, C:L.90 PLM.11: 1 residues within 4Å: Chain A: A.140 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.140 PLM.17: 3 residues within 4Å: Chain B: P.138, L.141, R.142 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.141 PLM.18: 2 residues within 4Å: Chain B: L.132, F.136 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.132, B:F.136, B:F.136 PLM.19: 3 residues within 4Å: Chain B: L.24, Y.27, Q.101 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.24, B:Y.27, B:Y.27 PLM.21: 5 residues within 4Å: Chain A: A.16, V.17, G.83, L.87, L.90 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.17, A:L.87, A:L.90 PLM.22: 1 residues within 4Å: Chain B: A.140 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.140 PLM.28: 3 residues within 4Å: Chain C: P.138, L.141, R.142 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.141 PLM.29: 2 residues within 4Å: Chain C: L.132, F.136 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.132, C:F.136, C:F.136 PLM.30: 3 residues within 4Å: Chain C: L.24, Y.27, Q.101 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.24, C:Y.27, C:Y.27 PLM.32: 5 residues within 4Å: Chain B: A.16, V.17, G.83, L.87, L.90 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.17, B:L.87, B:L.90 PLM.33: 1 residues within 4Å: Chain C: A.140 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:A.140

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

SO4.9: 4 residues within 4Å: Chain A: S.106, A.107, Q.108 Ligands: LMU.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.106, A:A.107, A:Q.108 SO4.20: 4 residues within 4Å: Chain B: S.106, A.107, Q.108 Ligands: LMU.14 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.106, B:A.107, B:Q.108 SO4.31: 4 residues within 4Å: Chain C: S.106, A.107, Q.108 Ligands: LMU.25 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.106, C:A.107, C:Q.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martinez Molina, D. et al., Structural Basis for Synthesis of Inflammatory Mediators by Human Leukotriene C4 Synthase. Nature (2007)

Release Date

2007-07-17

Peptides

LEUKOTRIENE C4 SYNTHASE: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

LEUKOTRIENE C4 SYNTHASE

Related Entries With Identical Sequence