SMTL ID : 2q6i.2 (1 other biounit)

salL with ClDA and LMet

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x 5CD: 5'-CHLORO-5'-DEOXYADENOSINE(Non-covalent)

5CD.1: 18 residues within 4Å: Chain A: D.11, F.45, Y.70, V.71, Y.72, P.73, T.75, T.128, W.129, Y.130, G.131 Chain C: F.186, N.188, F.228, L.250, N.251, Q.252 Ligands: MET.2 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:N.188, C:L.250, C:Q.252, A:D.11, A:D.11, A:Y.72 Water bridges: C:L.250 pi-Stacking: C:F.228, C:F.228 5CD.6: 18 residues within 4Å: Chain A: F.186, N.188, F.228, L.250, N.251, Q.252 Chain B: D.11, F.45, Y.70, V.71, Y.72, P.73, T.75, T.128, W.129, Y.130, G.131 Ligands: MET.7 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.188, A:L.250, A:Q.252, B:D.11, B:D.11, B:Y.72 Water bridges: A:L.250 pi-Stacking: A:F.228, A:F.228 5CD.11: 18 residues within 4Å: Chain B: F.186, N.188, F.228, L.250, N.251, Q.252 Chain C: D.11, F.45, Y.70, V.71, Y.72, P.73, T.75, T.128, W.129, Y.130, G.131 Ligands: MET.12 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrogen bonds: C:D.11, C:D.11, C:Y.72, B:N.188, B:L.250, B:Q.252 Water bridges: B:L.250 pi-Stacking: B:F.228, B:F.228 5CD.16: 18 residues within 4Å: Chain D: D.11, F.45, Y.70, V.71, Y.72, P.73, T.75, T.128, W.129, Y.130, G.131 Chain F: F.186, N.188, F.228, L.250, N.251, Q.252 Ligands: MET.17 9 PLIP interactions: 6 interactions with chain F, 3 interactions with chain D Hydrogen bonds: F:N.188, F:L.250, F:Q.252, D:D.11, D:D.11, D:Y.72 Water bridges: F:L.250 pi-Stacking: F:F.228, F:F.228 5CD.21: 18 residues within 4Å: Chain D: F.186, N.188, F.228, L.250, N.251, Q.252 Chain E: D.11, F.45, Y.70, V.71, Y.72, P.73, T.75, T.128, W.129, Y.130, G.131 Ligands: MET.22 9 PLIP interactions: 3 interactions with chain E, 6 interactions with chain D Hydrogen bonds: E:D.11, E:D.11, E:Y.72, D:N.188, D:L.250, D:Q.252 Water bridges: D:L.250 pi-Stacking: D:F.228, D:F.228 5CD.26: 18 residues within 4Å: Chain E: F.186, N.188, F.228, L.250, N.251, Q.252 Chain F: D.11, F.45, Y.70, V.71, Y.72, P.73, T.75, T.128, W.129, Y.130, G.131 Ligands: MET.27 9 PLIP interactions: 3 interactions with chain F, 6 interactions with chain E Hydrogen bonds: F:D.11, F:D.11, F:Y.72, E:N.188, E:L.250, E:Q.252 Water bridges: E:L.250 pi-Stacking: E:F.228, E:F.228

6 x MET: METHIONINE(Non-covalent)

MET.2: 9 residues within 4Å: Chain A: A.18, T.128, W.129 Chain C: D.183, N.188, W.190, F.228, S.242 Ligands: 5CD.1 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.242, C:S.242 MET.7: 9 residues within 4Å: Chain A: D.183, N.188, W.190, F.228, S.242 Chain B: A.18, T.128, W.129 Ligands: 5CD.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.242, A:S.242 MET.12: 9 residues within 4Å: Chain B: D.183, N.188, W.190, F.228, S.242 Chain C: A.18, T.128, W.129 Ligands: 5CD.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.242, B:S.242 MET.17: 9 residues within 4Å: Chain D: A.18, T.128, W.129 Chain F: D.183, N.188, W.190, F.228, S.242 Ligands: 5CD.16 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:S.242, F:S.242 MET.22: 9 residues within 4Å: Chain D: D.183, N.188, W.190, F.228, S.242 Chain E: A.18, T.128, W.129 Ligands: 5CD.21 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.242, D:S.242 MET.27: 9 residues within 4Å: Chain E: D.183, N.188, W.190, F.228, S.242 Chain F: A.18, T.128, W.129 Ligands: 5CD.26 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:S.242, E:S.242

18 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 7 residues within 4Å: Chain A: P.62, A.63, H.64 Chain B: G.28 Chain E: M.1, Q.2, G.145 Ligand excluded by PLIP PEG.4: 9 residues within 4Å: Chain A: M.1, H.3, R.85, G.89, L.91, L.142, G.145, T.146 Chain E: M.1 Ligand excluded by PLIP PEG.5: 3 residues within 4Å: Chain A: H.59, K.88, A.106 Ligand excluded by PLIP PEG.8: 7 residues within 4Å: Chain B: P.62, A.63, H.64 Chain C: G.28 Chain D: M.1, Q.2, G.145 Ligand excluded by PLIP PEG.9: 9 residues within 4Å: Chain B: M.1, H.3, R.85, G.89, L.91, L.142, G.145, T.146 Chain D: M.1 Ligand excluded by PLIP PEG.10: 3 residues within 4Å: Chain B: H.59, K.88, A.106 Ligand excluded by PLIP PEG.13: 7 residues within 4Å: Chain A: G.28 Chain C: P.62, A.63, H.64 Chain F: M.1, Q.2, G.145 Ligand excluded by PLIP PEG.14: 9 residues within 4Å: Chain C: M.1, H.3, R.85, G.89, L.91, L.142, G.145, T.146 Chain F: M.1 Ligand excluded by PLIP PEG.15: 3 residues within 4Å: Chain C: H.59, K.88, A.106 Ligand excluded by PLIP PEG.18: 7 residues within 4Å: Chain B: M.1, Q.2, G.145 Chain D: P.62, A.63, H.64 Chain E: G.28 Ligand excluded by PLIP PEG.19: 9 residues within 4Å: Chain B: M.1 Chain D: M.1, H.3, R.85, G.89, L.91, L.142, G.145, T.146 Ligand excluded by PLIP PEG.20: 3 residues within 4Å: Chain D: H.59, K.88, A.106 Ligand excluded by PLIP PEG.23: 7 residues within 4Å: Chain A: M.1, Q.2, G.145 Chain E: P.62, A.63, H.64 Chain F: G.28 Ligand excluded by PLIP PEG.24: 9 residues within 4Å: Chain A: M.1 Chain E: M.1, H.3, R.85, G.89, L.91, L.142, G.145, T.146 Ligand excluded by PLIP PEG.25: 3 residues within 4Å: Chain E: H.59, K.88, A.106 Ligand excluded by PLIP PEG.28: 7 residues within 4Å: Chain C: M.1, Q.2, G.145 Chain D: G.28 Chain F: P.62, A.63, H.64 Ligand excluded by PLIP PEG.29: 9 residues within 4Å: Chain C: M.1 Chain F: M.1, H.3, R.85, G.89, L.91, L.142, G.145, T.146 Ligand excluded by PLIP PEG.30: 3 residues within 4Å: Chain F: H.59, K.88, A.106 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eustaquio, A.S. et al., Discovery and characterization of a marine bacterial SAM-dependent chlorinase. Nat.Chem.Biol. (2008)

Release Date

2007-12-11

Peptides

Hypothetical protein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Hypothetical protein

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