SMTL ID : 3zqu.1

STRUCTURE OF A PROBABLE AROMATIC ACID DECARBOXYLASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-12-mer

Ligands

12 x FNR: 1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL(Non-covalent)

FNR.1: 16 residues within 4Å: Chain A: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain H: W.84, C.116, R.122 Ligands: SO4.32 25 PLIP interactions: 20 interactions with chain A, 4 interactions with chain H, 1 interactions with chain K Hydrophobic interactions: A:V.45, H:W.84 Hydrogen bonds: A:G.13, A:G.13, A:S.15, A:S.39, A:S.39, A:S.104, A:T.105, A:T.107, A:T.107, A:R.139, A:R.139, H:R.122 Water bridges: A:K.40, A:A.41, A:S.104, A:G.106, A:T.107, A:N.118, A:N.118, A:R.139, H:N.117, H:N.117, K:Y.169 FNR.4: 16 residues within 4Å: Chain B: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain F: W.84, C.116, R.122 Ligands: SO4.29 25 PLIP interactions: 21 interactions with chain B, 3 interactions with chain F, 1 interactions with chain J Hydrophobic interactions: B:V.45, F:W.84 Hydrogen bonds: B:G.13, B:G.13, B:S.15, B:S.39, B:S.39, B:S.104, B:T.105, B:T.107, B:R.139, B:R.139, F:R.122 Water bridges: B:K.40, B:A.41, B:S.104, B:G.106, B:T.107, B:T.107, B:N.118, B:E.121, B:E.121, B:R.139, F:N.117, J:Y.169 FNR.7: 16 residues within 4Å: Chain C: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain E: W.84, C.116, R.122 Ligands: SO4.11 26 PLIP interactions: 22 interactions with chain C, 3 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: C:V.45, E:W.84 Hydrogen bonds: C:G.13, C:G.13, C:S.15, C:S.39, C:S.39, C:S.104, C:T.105, C:T.107, C:T.107, C:R.139, C:R.139, E:R.122 Water bridges: C:K.40, C:A.41, C:S.104, C:G.106, C:T.107, C:N.118, C:E.121, C:E.121, C:E.121, C:R.139, E:N.117, D:Y.169 FNR.10: 16 residues within 4Å: Chain D: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain J: W.84, C.116, R.122 Ligands: SO4.8 26 PLIP interactions: 3 interactions with chain J, 1 interactions with chain C, 22 interactions with chain D Hydrophobic interactions: J:W.84, D:V.45 Hydrogen bonds: J:R.122, D:G.13, D:G.13, D:S.15, D:S.39, D:S.39, D:S.104, D:T.105, D:T.107, D:T.107, D:R.139, D:R.139 Water bridges: J:N.117, C:Y.169, D:K.40, D:A.41, D:S.104, D:G.106, D:T.107, D:N.118, D:E.121, D:E.121, D:E.121, D:R.139 FNR.13: 16 residues within 4Å: Chain E: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain G: W.84, C.116, R.122 Ligands: SO4.26 26 PLIP interactions: 21 interactions with chain E, 4 interactions with chain G, 1 interactions with chain I Hydrophobic interactions: E:V.45, G:W.84 Hydrogen bonds: E:G.13, E:G.13, E:S.15, E:S.39, E:S.39, E:S.104, E:T.105, E:T.107, E:T.107, E:R.139, E:R.139, E:E.140, G:R.122 Water bridges: E:K.40, E:A.41, E:S.104, E:G.106, E:T.107, E:N.118, E:N.118, E:R.139, G:N.117, G:N.117, I:Y.169 FNR.16: 16 residues within 4Å: Chain F: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain L: W.84, C.116, R.122 Ligands: SO4.20 25 PLIP interactions: 20 interactions with chain F, 4 interactions with chain L, 1 interactions with chain G Hydrophobic interactions: F:V.45, L:W.84 Hydrogen bonds: F:G.13, F:G.13, F:S.15, F:S.39, F:S.39, F:S.104, F:T.105, F:T.107, F:T.107, F:R.139, F:R.139, L:R.122 Water bridges: F:K.40, F:A.41, F:S.104, F:G.106, F:T.107, F:N.118, F:N.118, F:R.139, L:N.117, L:N.117, G:Y.169 FNR.19: 16 residues within 4Å: Chain C: W.84, C.116, R.122 Chain G: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Ligands: SO4.17 26 PLIP interactions: 21 interactions with chain G, 4 interactions with chain C, 1 interactions with chain F Hydrophobic interactions: G:V.45, C:W.84 Hydrogen bonds: G:G.13, G:G.13, G:S.15, G:S.39, G:S.39, G:S.104, G:T.105, G:T.107, G:R.139, G:R.139, G:E.140, C:R.122 Water bridges: G:K.40, G:A.41, G:S.104, G:G.106, G:T.107, G:N.118, G:E.121, G:E.121, G:R.139, C:N.117, C:N.117, F:Y.169 FNR.22: 16 residues within 4Å: Chain H: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain I: W.84, C.116, R.122 Ligands: SO4.35 26 PLIP interactions: 21 interactions with chain H, 4 interactions with chain I, 1 interactions with chain L Hydrophobic interactions: H:V.45, I:W.84 Hydrogen bonds: H:G.13, H:G.13, H:S.15, H:S.39, H:S.39, H:S.104, H:T.105, H:T.107, H:R.139, H:R.139, H:E.140, I:R.122 Water bridges: H:K.40, H:A.41, H:S.104, H:G.106, H:T.107, H:T.107, H:N.118, H:N.118, H:R.139, I:N.117, I:N.117, L:Y.169 FNR.25: 16 residues within 4Å: Chain A: W.84, C.116, R.122 Chain I: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Ligands: SO4.14 25 PLIP interactions: 20 interactions with chain I, 4 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: I:V.45, A:W.84 Hydrogen bonds: I:G.13, I:G.13, I:S.15, I:S.39, I:S.39, I:S.104, I:T.105, I:T.107, I:R.139, I:R.139, A:R.122 Water bridges: I:K.40, I:A.41, I:S.104, I:G.106, I:T.107, I:N.118, I:E.121, I:E.121, I:R.139, A:N.117, A:N.117, E:Y.169 FNR.28: 16 residues within 4Å: Chain J: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Chain K: W.84, C.116, R.122 Ligands: SO4.5 26 PLIP interactions: 21 interactions with chain J, 4 interactions with chain K, 1 interactions with chain B Hydrophobic interactions: J:V.45, K:W.84 Hydrogen bonds: J:G.13, J:G.13, J:S.15, J:S.39, J:S.39, J:S.104, J:T.105, J:T.107, J:T.107, J:R.139, J:R.139, J:E.140, K:R.122 Water bridges: J:K.40, J:A.41, J:S.104, J:G.106, J:T.107, J:N.118, J:N.118, J:R.139, K:N.117, K:N.117, B:Y.169 FNR.31: 16 residues within 4Å: Chain D: W.84, C.116, R.122 Chain K: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Ligands: SO4.2 26 PLIP interactions: 4 interactions with chain D, 21 interactions with chain K, 1 interactions with chain A Hydrophobic interactions: D:W.84, K:V.45 Hydrogen bonds: D:R.122, K:G.13, K:G.13, K:S.15, K:S.39, K:S.39, K:S.104, K:T.105, K:T.107, K:R.139, K:R.139, K:E.140 Water bridges: D:N.117, D:N.117, K:K.40, K:A.41, K:S.104, K:G.106, K:T.107, K:N.118, K:E.121, K:E.121, K:R.139, A:Y.169 FNR.34: 16 residues within 4Å: Chain B: W.84, C.116, R.122 Chain L: T.12, G.13, A.14, S.15, S.39, A.41, V.45, S.104, T.105, T.107, R.139, E.140 Ligands: SO4.23 26 PLIP interactions: 21 interactions with chain L, 4 interactions with chain B, 1 interactions with chain H Hydrophobic interactions: L:V.45, B:W.84 Hydrogen bonds: L:G.13, L:G.13, L:S.15, L:S.39, L:S.39, L:S.104, L:T.105, L:T.107, L:R.139, L:R.139, L:E.140, B:R.122 Water bridges: L:K.40, L:A.41, L:S.104, L:G.106, L:T.107, L:T.107, L:N.118, L:N.118, L:R.139, B:N.117, B:N.117, H:Y.169

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

SO4.2: 10 residues within 4Å: Chain A: Y.169, R.185 Chain D: S.90, G.91, S.92, R.122, K.129 Chain K: R.139, E.140 Ligands: FNR.31 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.5: 10 residues within 4Å: Chain B: Y.169, R.185 Chain J: R.139, E.140 Chain K: S.90, G.91, S.92, R.122, K.129 Ligands: FNR.28 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain B: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.8: 10 residues within 4Å: Chain C: Y.169, R.185 Chain D: R.139, E.140 Chain J: S.90, G.91, S.92, R.122, K.129 Ligands: FNR.10 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain C: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.11: 10 residues within 4Å: Chain C: R.139, E.140 Chain D: Y.169, R.185 Chain E: S.90, G.91, S.92, R.122, K.129 Ligands: FNR.7 Ligand excluded by PLIP SO4.12: 4 residues within 4Å: Chain D: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.14: 10 residues within 4Å: Chain A: S.90, G.91, S.92, R.122, K.129 Chain E: Y.169, R.185 Chain I: R.139, E.140 Ligands: FNR.25 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain E: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.17: 10 residues within 4Å: Chain C: S.90, G.91, S.92, R.122, K.129 Chain F: Y.169, R.185 Chain G: R.139, E.140 Ligands: FNR.19 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain F: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.20: 10 residues within 4Å: Chain F: R.139, E.140 Chain G: Y.169, R.185 Chain L: S.90, G.91, S.92, R.122, K.129 Ligands: FNR.16 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain G: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.23: 10 residues within 4Å: Chain B: S.90, G.91, S.92, R.122, K.129 Chain H: Y.169, R.185 Chain L: R.139, E.140 Ligands: FNR.34 Ligand excluded by PLIP SO4.24: 4 residues within 4Å: Chain H: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.26: 10 residues within 4Å: Chain E: R.139, E.140 Chain G: S.90, G.91, S.92, R.122, K.129 Chain I: Y.169, R.185 Ligands: FNR.13 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain I: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.29: 10 residues within 4Å: Chain B: R.139, E.140 Chain F: S.90, G.91, S.92, R.122, K.129 Chain J: Y.169, R.185 Ligands: FNR.4 Ligand excluded by PLIP SO4.30: 4 residues within 4Å: Chain J: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.32: 10 residues within 4Å: Chain A: R.139, E.140 Chain H: S.90, G.91, S.92, R.122, K.129 Chain K: Y.169, R.185 Ligands: FNR.1 Ligand excluded by PLIP SO4.33: 4 residues within 4Å: Chain K: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP SO4.35: 10 residues within 4Å: Chain H: R.139, E.140 Chain I: S.90, G.91, S.92, R.122, K.129 Chain L: Y.169, R.185 Ligands: FNR.22 Ligand excluded by PLIP SO4.36: 4 residues within 4Å: Chain L: S.39, K.40, Q.81, N.118 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kopec, J. et al., Structure of Pa4019, a Putative Aromatic Acid Decarboxylase from Pseudomonas Aeruginosa. Acta Crystallogr.,Sect.F (2011)

Release Date

2011-11-02

Peptides

PROBABLE AROMATIC ACID DECARBOXYLASE: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

K
A

L
A

PROBABLE AROMATIC ACID DECARBOXYLASE

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