SMTL ID : 1nqv.1

Crystal Structure of Lumazine Synthase from Aquifex aeolicus in Complex with Inhibitor: 5-nitroso-6-ribityl-amino-2,4(1H,3H)pyrimidinedione

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-60-mer

Ligands

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

PO4.1: 5 residues within 4Å: Chain A: G.84, A.85, T.86, H.88 Chain B: R.127 Ligand excluded by PLIP PO4.3: 5 residues within 4Å: Chain B: G.84, A.85, T.86, H.88 Chain C: R.127 Ligand excluded by PLIP PO4.5: 5 residues within 4Å: Chain C: G.84, A.85, T.86, H.88 Chain D: R.127 Ligand excluded by PLIP PO4.7: 5 residues within 4Å: Chain D: G.84, A.85, T.86, H.88 Chain E: R.127 Ligand excluded by PLIP PO4.9: 5 residues within 4Å: Chain A: R.127 Chain E: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.11: 5 residues within 4Å: Chain F: G.84, A.85, T.86, H.88 Chain G: R.127 Ligand excluded by PLIP PO4.13: 5 residues within 4Å: Chain G: G.84, A.85, T.86, H.88 Chain H: R.127 Ligand excluded by PLIP PO4.15: 5 residues within 4Å: Chain H: G.84, A.85, T.86, H.88 Chain I: R.127 Ligand excluded by PLIP PO4.17: 5 residues within 4Å: Chain I: G.84, A.85, T.86, H.88 Chain J: R.127 Ligand excluded by PLIP PO4.19: 5 residues within 4Å: Chain F: R.127 Chain J: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.21: 5 residues within 4Å: Chain K: G.84, A.85, T.86, H.88 Chain L: R.127 Ligand excluded by PLIP PO4.23: 5 residues within 4Å: Chain L: G.84, A.85, T.86, H.88 Chain M: R.127 Ligand excluded by PLIP PO4.25: 5 residues within 4Å: Chain M: G.84, A.85, T.86, H.88 Chain N: R.127 Ligand excluded by PLIP PO4.27: 5 residues within 4Å: Chain N: G.84, A.85, T.86, H.88 Chain O: R.127 Ligand excluded by PLIP PO4.29: 5 residues within 4Å: Chain K: R.127 Chain O: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.31: 5 residues within 4Å: Chain P: G.84, A.85, T.86, H.88 Chain Q: R.127 Ligand excluded by PLIP PO4.33: 5 residues within 4Å: Chain Q: G.84, A.85, T.86, H.88 Chain R: R.127 Ligand excluded by PLIP PO4.35: 5 residues within 4Å: Chain R: G.84, A.85, T.86, H.88 Chain S: R.127 Ligand excluded by PLIP PO4.37: 5 residues within 4Å: Chain S: G.84, A.85, T.86, H.88 Chain T: R.127 Ligand excluded by PLIP PO4.39: 5 residues within 4Å: Chain P: R.127 Chain T: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.41: 5 residues within 4Å: Chain U: G.84, A.85, T.86, H.88 Chain V: R.127 Ligand excluded by PLIP PO4.43: 5 residues within 4Å: Chain V: G.84, A.85, T.86, H.88 Chain W: R.127 Ligand excluded by PLIP PO4.45: 5 residues within 4Å: Chain W: G.84, A.85, T.86, H.88 Chain X: R.127 Ligand excluded by PLIP PO4.47: 5 residues within 4Å: Chain X: G.84, A.85, T.86, H.88 Chain Y: R.127 Ligand excluded by PLIP PO4.49: 5 residues within 4Å: Chain U: R.127 Chain Y: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.51: 5 residues within 4Å: Chain 0: R.127 Chain Z: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.53: 5 residues within 4Å: Chain 0: G.84, A.85, T.86, H.88 Chain 1: R.127 Ligand excluded by PLIP PO4.55: 5 residues within 4Å: Chain 1: G.84, A.85, T.86, H.88 Chain 2: R.127 Ligand excluded by PLIP PO4.57: 5 residues within 4Å: Chain 2: G.84, A.85, T.86, H.88 Chain 3: R.127 Ligand excluded by PLIP PO4.59: 5 residues within 4Å: Chain 3: G.84, A.85, T.86, H.88 Chain Z: R.127 Ligand excluded by PLIP PO4.61: 5 residues within 4Å: Chain 4: G.84, A.85, T.86, H.88 Chain 5: R.127 Ligand excluded by PLIP PO4.63: 5 residues within 4Å: Chain 5: G.84, A.85, T.86, H.88 Chain 6: R.127 Ligand excluded by PLIP PO4.65: 5 residues within 4Å: Chain 6: G.84, A.85, T.86, H.88 Chain 7: R.127 Ligand excluded by PLIP PO4.67: 5 residues within 4Å: Chain 7: G.84, A.85, T.86, H.88 Chain 8: R.127 Ligand excluded by PLIP PO4.69: 5 residues within 4Å: Chain 4: R.127 Chain 8: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.71: 5 residues within 4Å: Chain 9: G.84, A.85, T.86, H.88 Chain a: R.127 Ligand excluded by PLIP PO4.73: 5 residues within 4Å: Chain a: G.84, A.85, T.86, H.88 Chain b: R.127 Ligand excluded by PLIP PO4.75: 5 residues within 4Å: Chain b: G.84, A.85, T.86, H.88 Chain c: R.127 Ligand excluded by PLIP PO4.77: 5 residues within 4Å: Chain c: G.84, A.85, T.86, H.88 Chain d: R.127 Ligand excluded by PLIP PO4.79: 5 residues within 4Å: Chain 9: R.127 Chain d: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.81: 5 residues within 4Å: Chain e: G.84, A.85, T.86, H.88 Chain f: R.127 Ligand excluded by PLIP PO4.83: 5 residues within 4Å: Chain f: G.84, A.85, T.86, H.88 Chain g: R.127 Ligand excluded by PLIP PO4.85: 5 residues within 4Å: Chain g: G.84, A.85, T.86, H.88 Chain h: R.127 Ligand excluded by PLIP PO4.87: 5 residues within 4Å: Chain h: G.84, A.85, T.86, H.88 Chain i: R.127 Ligand excluded by PLIP PO4.89: 5 residues within 4Å: Chain e: R.127 Chain i: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.91: 5 residues within 4Å: Chain j: G.84, A.85, T.86, H.88 Chain k: R.127 Ligand excluded by PLIP PO4.93: 5 residues within 4Å: Chain k: G.84, A.85, T.86, H.88 Chain l: R.127 Ligand excluded by PLIP PO4.95: 5 residues within 4Å: Chain l: G.84, A.85, T.86, H.88 Chain m: R.127 Ligand excluded by PLIP PO4.97: 5 residues within 4Å: Chain m: G.84, A.85, T.86, H.88 Chain n: R.127 Ligand excluded by PLIP PO4.99: 5 residues within 4Å: Chain j: R.127 Chain n: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.101: 5 residues within 4Å: Chain o: G.84, A.85, T.86, H.88 Chain p: R.127 Ligand excluded by PLIP PO4.103: 5 residues within 4Å: Chain p: G.84, A.85, T.86, H.88 Chain q: R.127 Ligand excluded by PLIP PO4.105: 5 residues within 4Å: Chain q: G.84, A.85, T.86, H.88 Chain r: R.127 Ligand excluded by PLIP PO4.107: 5 residues within 4Å: Chain r: G.84, A.85, T.86, H.88 Chain s: R.127 Ligand excluded by PLIP PO4.109: 5 residues within 4Å: Chain o: R.127 Chain s: G.84, A.85, T.86, H.88 Ligand excluded by PLIP PO4.111: 5 residues within 4Å: Chain t: G.84, A.85, T.86, H.88 Chain u: R.127 Ligand excluded by PLIP PO4.113: 5 residues within 4Å: Chain u: G.84, A.85, T.86, H.88 Chain v: R.127 Ligand excluded by PLIP PO4.115: 5 residues within 4Å: Chain v: G.84, A.85, T.86, H.88 Chain w: R.127 Ligand excluded by PLIP PO4.117: 5 residues within 4Å: Chain w: G.84, A.85, T.86, H.88 Chain x: R.127 Ligand excluded by PLIP PO4.119: 5 residues within 4Å: Chain t: R.127 Chain x: G.84, A.85, T.86, H.88 Ligand excluded by PLIP

60 x LMZ: 5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE(Non-covalent)

LMZ.2: 13 residues within 4Å: Chain A: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain B: T.112, F.113 14 PLIP interactions: 11 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.23, A:S.56, A:W.57, A:E.58, A:V.80, A:I.82, A:H.88, B:F.113, B:S.142, B:S.142 Water bridges: A:V.80, A:V.80, A:H.88 pi-Stacking: A:F.22 LMZ.4: 13 residues within 4Å: Chain B: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain C: T.112, F.113 13 PLIP interactions: 3 interactions with chain C, 10 interactions with chain B Hydrogen bonds: C:F.113, C:S.142, C:S.142, B:N.23, B:S.56, B:W.57, B:E.58, B:V.80, B:I.82, B:H.88 Water bridges: B:V.80, B:H.88 pi-Stacking: B:F.22 LMZ.6: 13 residues within 4Å: Chain C: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain D: T.112, F.113 13 PLIP interactions: 3 interactions with chain D, 10 interactions with chain C Hydrogen bonds: D:F.113, D:S.142, D:S.142, C:N.23, C:S.56, C:W.57, C:E.58, C:V.80, C:I.82, C:H.88 Water bridges: C:V.80, C:H.88 pi-Stacking: C:F.22 LMZ.8: 13 residues within 4Å: Chain D: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain E: T.112, F.113 15 PLIP interactions: 12 interactions with chain D, 3 interactions with chain E Hydrogen bonds: D:S.20, D:N.23, D:S.56, D:W.57, D:E.58, D:V.80, D:I.82, D:H.88, E:F.113, E:S.142, E:S.142 Water bridges: D:V.80, D:V.80, D:H.88 pi-Stacking: D:F.22 LMZ.10: 13 residues within 4Å: Chain A: T.112, F.113 Chain E: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain E, 3 interactions with chain A Hydrogen bonds: E:S.20, E:N.23, E:S.56, E:W.57, E:E.58, E:V.80, E:I.82, A:F.113, A:S.142, A:S.142 Water bridges: E:V.80, E:V.80, E:H.88, E:H.88 pi-Stacking: E:F.22 LMZ.12: 13 residues within 4Å: Chain F: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain G: T.112, F.113 14 PLIP interactions: 11 interactions with chain F, 3 interactions with chain G Hydrogen bonds: F:N.23, F:S.56, F:W.57, F:E.58, F:V.80, F:I.82, F:H.88, G:F.113, G:S.142, G:S.142 Water bridges: F:V.80, F:V.80, F:H.88 pi-Stacking: F:F.22 LMZ.14: 13 residues within 4Å: Chain G: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain H: T.112, F.113 13 PLIP interactions: 10 interactions with chain G, 3 interactions with chain H Hydrogen bonds: G:N.23, G:S.56, G:W.57, G:E.58, G:V.80, G:I.82, G:H.88, H:F.113, H:S.142, H:S.142 Water bridges: G:V.80, G:H.88 pi-Stacking: G:F.22 LMZ.16: 13 residues within 4Å: Chain H: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain I: T.112, F.113 13 PLIP interactions: 10 interactions with chain H, 3 interactions with chain I Hydrogen bonds: H:N.23, H:S.56, H:W.57, H:E.58, H:V.80, H:I.82, H:H.88, I:F.113, I:S.142, I:S.142 Water bridges: H:V.80, H:H.88 pi-Stacking: H:F.22 LMZ.18: 13 residues within 4Å: Chain I: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain J: T.112, F.113 15 PLIP interactions: 3 interactions with chain J, 12 interactions with chain I Hydrogen bonds: J:F.113, J:S.142, J:S.142, I:S.20, I:N.23, I:S.56, I:W.57, I:E.58, I:V.80, I:I.82, I:H.88 Water bridges: I:V.80, I:V.80, I:H.88 pi-Stacking: I:F.22 LMZ.20: 13 residues within 4Å: Chain F: T.112, F.113 Chain J: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain J, 3 interactions with chain F Hydrogen bonds: J:S.20, J:N.23, J:S.56, J:W.57, J:E.58, J:V.80, J:I.82, F:F.113, F:S.142, F:S.142 Water bridges: J:V.80, J:V.80, J:H.88, J:H.88 pi-Stacking: J:F.22 LMZ.22: 13 residues within 4Å: Chain K: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain L: T.112, F.113 14 PLIP interactions: 3 interactions with chain L, 11 interactions with chain K Hydrogen bonds: L:F.113, L:S.142, L:S.142, K:N.23, K:S.56, K:W.57, K:E.58, K:V.80, K:I.82 Water bridges: K:V.80, K:V.80, K:H.88, K:H.88 pi-Stacking: K:F.22 LMZ.24: 13 residues within 4Å: Chain L: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain M: T.112, F.113 13 PLIP interactions: 10 interactions with chain L, 3 interactions with chain M Hydrogen bonds: L:N.23, L:S.56, L:W.57, L:E.58, L:V.80, L:I.82, M:F.113, M:S.142, M:S.142 Water bridges: L:V.80, L:H.88, L:H.88 pi-Stacking: L:F.22 LMZ.26: 13 residues within 4Å: Chain M: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain N: T.112, F.113 13 PLIP interactions: 10 interactions with chain M, 3 interactions with chain N Hydrogen bonds: M:N.23, M:S.56, M:W.57, M:E.58, M:V.80, M:I.82, N:F.113, N:S.142, N:S.142 Water bridges: M:V.80, M:H.88, M:H.88 pi-Stacking: M:F.22 LMZ.28: 13 residues within 4Å: Chain N: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain O: T.112, F.113 15 PLIP interactions: 12 interactions with chain N, 3 interactions with chain O Hydrogen bonds: N:S.20, N:N.23, N:S.56, N:W.57, N:E.58, N:V.80, N:I.82, O:F.113, O:S.142, O:S.142 Water bridges: N:V.80, N:V.80, N:H.88, N:H.88 pi-Stacking: N:F.22 LMZ.30: 13 residues within 4Å: Chain K: T.112, F.113 Chain O: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain O, 3 interactions with chain K Hydrogen bonds: O:S.20, O:N.23, O:S.56, O:W.57, O:E.58, O:V.80, O:I.82, O:H.88, K:F.113, K:S.142, K:S.142 Water bridges: O:V.80, O:V.80, O:H.88 pi-Stacking: O:F.22 LMZ.32: 13 residues within 4Å: Chain P: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain Q: T.112, F.113 14 PLIP interactions: 11 interactions with chain P, 3 interactions with chain Q Hydrogen bonds: P:N.23, P:S.56, P:W.57, P:E.58, P:V.80, P:I.82, Q:F.113, Q:S.142, Q:S.142 Water bridges: P:V.80, P:V.80, P:H.88, P:H.88 pi-Stacking: P:F.22 LMZ.34: 13 residues within 4Å: Chain Q: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain R: T.112, F.113 13 PLIP interactions: 10 interactions with chain Q, 3 interactions with chain R Hydrogen bonds: Q:N.23, Q:S.56, Q:W.57, Q:E.58, Q:V.80, Q:I.82, R:F.113, R:S.142, R:S.142 Water bridges: Q:V.80, Q:H.88, Q:H.88 pi-Stacking: Q:F.22 LMZ.36: 13 residues within 4Å: Chain R: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain S: T.112, F.113 13 PLIP interactions: 10 interactions with chain R, 3 interactions with chain S Hydrogen bonds: R:N.23, R:S.56, R:W.57, R:E.58, R:V.80, R:I.82, S:F.113, S:S.142, S:S.142 Water bridges: R:V.80, R:H.88, R:H.88 pi-Stacking: R:F.22 LMZ.38: 13 residues within 4Å: Chain S: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain T: T.112, F.113 15 PLIP interactions: 12 interactions with chain S, 3 interactions with chain T Hydrogen bonds: S:S.20, S:N.23, S:S.56, S:W.57, S:E.58, S:V.80, S:I.82, T:F.113, T:S.142, T:S.142 Water bridges: S:V.80, S:V.80, S:H.88, S:H.88 pi-Stacking: S:F.22 LMZ.40: 13 residues within 4Å: Chain P: T.112, F.113 Chain T: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain T, 3 interactions with chain P Hydrogen bonds: T:S.20, T:N.23, T:S.56, T:W.57, T:E.58, T:V.80, T:I.82, T:H.88, P:F.113, P:S.142, P:S.142 Water bridges: T:V.80, T:V.80, T:H.88 pi-Stacking: T:F.22 LMZ.42: 13 residues within 4Å: Chain U: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain V: T.112, F.113 14 PLIP interactions: 11 interactions with chain U, 3 interactions with chain V Hydrogen bonds: U:N.23, U:S.56, U:W.57, U:E.58, U:V.80, U:I.82, U:H.88, V:F.113, V:S.142, V:S.142 Water bridges: U:V.80, U:V.80, U:H.88 pi-Stacking: U:F.22 LMZ.44: 13 residues within 4Å: Chain V: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain W: T.112, F.113 13 PLIP interactions: 10 interactions with chain V, 3 interactions with chain W Hydrogen bonds: V:N.23, V:S.56, V:W.57, V:E.58, V:V.80, V:I.82, V:H.88, W:F.113, W:S.142, W:S.142 Water bridges: V:V.80, V:H.88 pi-Stacking: V:F.22 LMZ.46: 13 residues within 4Å: Chain W: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain X: T.112, F.113 13 PLIP interactions: 3 interactions with chain X, 10 interactions with chain W Hydrogen bonds: X:F.113, X:S.142, X:S.142, W:N.23, W:S.56, W:W.57, W:E.58, W:V.80, W:I.82 Water bridges: W:V.80, W:H.88, W:H.88 pi-Stacking: W:F.22 LMZ.48: 13 residues within 4Å: Chain X: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain Y: T.112, F.113 15 PLIP interactions: 12 interactions with chain X, 3 interactions with chain Y Hydrogen bonds: X:S.20, X:N.23, X:S.56, X:W.57, X:E.58, X:V.80, X:I.82, Y:F.113, Y:S.142, Y:S.142 Water bridges: X:V.80, X:V.80, X:H.88, X:H.88 pi-Stacking: X:F.22 LMZ.50: 13 residues within 4Å: Chain U: T.112, F.113 Chain Y: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 3 interactions with chain U, 12 interactions with chain Y Hydrogen bonds: U:F.113, U:S.142, U:S.142, Y:S.20, Y:N.23, Y:S.56, Y:W.57, Y:E.58, Y:V.80, Y:I.82, Y:H.88 Water bridges: Y:V.80, Y:V.80, Y:H.88 pi-Stacking: Y:F.22 LMZ.52: 13 residues within 4Å: Chain 0: T.112, F.113 Chain Z: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 14 PLIP interactions: 11 interactions with chain Z, 3 interactions with chain 0 Hydrogen bonds: Z:N.23, Z:S.56, Z:W.57, Z:E.58, Z:V.80, Z:I.82, 0:F.113, 0:S.142, 0:S.142 Water bridges: Z:V.80, Z:V.80, Z:H.88, Z:H.88 pi-Stacking: Z:F.22 LMZ.54: 13 residues within 4Å: Chain 0: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 1: T.112, F.113 13 PLIP interactions: 10 interactions with chain 0, 3 interactions with chain 1 Hydrogen bonds: 0:N.23, 0:S.56, 0:W.57, 0:E.58, 0:V.80, 0:I.82, 1:F.113, 1:S.142, 1:S.142 Water bridges: 0:V.80, 0:H.88, 0:H.88 pi-Stacking: 0:F.22 LMZ.56: 13 residues within 4Å: Chain 1: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 2: T.112, F.113 13 PLIP interactions: 10 interactions with chain 1, 3 interactions with chain 2 Hydrogen bonds: 1:N.23, 1:S.56, 1:W.57, 1:E.58, 1:V.80, 1:I.82, 1:H.88, 2:F.113, 2:S.142, 2:S.142 Water bridges: 1:V.80, 1:H.88 pi-Stacking: 1:F.22 LMZ.58: 13 residues within 4Å: Chain 2: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 3: T.112, F.113 15 PLIP interactions: 12 interactions with chain 2, 3 interactions with chain 3 Hydrogen bonds: 2:S.20, 2:N.23, 2:S.56, 2:W.57, 2:E.58, 2:V.80, 2:I.82, 2:H.88, 3:F.113, 3:S.142, 3:S.142 Water bridges: 2:V.80, 2:V.80, 2:H.88 pi-Stacking: 2:F.22 LMZ.60: 13 residues within 4Å: Chain 3: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain Z: T.112, F.113 15 PLIP interactions: 12 interactions with chain 3, 3 interactions with chain Z Hydrogen bonds: 3:S.20, 3:N.23, 3:S.56, 3:W.57, 3:E.58, 3:V.80, 3:I.82, Z:F.113, Z:S.142, Z:S.142 Water bridges: 3:V.80, 3:V.80, 3:H.88, 3:H.88 pi-Stacking: 3:F.22 LMZ.62: 13 residues within 4Å: Chain 4: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 5: T.112, F.113 14 PLIP interactions: 11 interactions with chain 4, 3 interactions with chain 5 Hydrogen bonds: 4:N.23, 4:S.56, 4:W.57, 4:E.58, 4:V.80, 4:I.82, 4:H.88, 5:F.113, 5:S.142, 5:S.142 Water bridges: 4:V.80, 4:V.80, 4:H.88 pi-Stacking: 4:F.22 LMZ.64: 13 residues within 4Å: Chain 5: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 6: T.112, F.113 13 PLIP interactions: 10 interactions with chain 5, 3 interactions with chain 6 Hydrogen bonds: 5:N.23, 5:S.56, 5:W.57, 5:E.58, 5:V.80, 5:I.82, 5:H.88, 6:F.113, 6:S.142, 6:S.142 Water bridges: 5:V.80, 5:H.88 pi-Stacking: 5:F.22 LMZ.66: 13 residues within 4Å: Chain 6: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 7: T.112, F.113 13 PLIP interactions: 10 interactions with chain 6, 3 interactions with chain 7 Hydrogen bonds: 6:N.23, 6:S.56, 6:W.57, 6:E.58, 6:V.80, 6:I.82, 7:F.113, 7:S.142, 7:S.142 Water bridges: 6:V.80, 6:H.88, 6:H.88 pi-Stacking: 6:F.22 LMZ.68: 13 residues within 4Å: Chain 7: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain 8: T.112, F.113 15 PLIP interactions: 3 interactions with chain 8, 12 interactions with chain 7 Hydrogen bonds: 8:F.113, 8:S.142, 8:S.142, 7:S.20, 7:N.23, 7:S.56, 7:W.57, 7:E.58, 7:V.80, 7:I.82 Water bridges: 7:V.80, 7:V.80, 7:H.88, 7:H.88 pi-Stacking: 7:F.22 LMZ.70: 13 residues within 4Å: Chain 4: T.112, F.113 Chain 8: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain 8, 3 interactions with chain 4 Hydrogen bonds: 8:S.20, 8:N.23, 8:S.56, 8:W.57, 8:E.58, 8:V.80, 8:I.82, 8:H.88, 4:F.113, 4:S.142, 4:S.142 Water bridges: 8:V.80, 8:V.80, 8:H.88 pi-Stacking: 8:F.22 LMZ.72: 13 residues within 4Å: Chain 9: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain a: T.112, F.113 14 PLIP interactions: 11 interactions with chain 9, 3 interactions with chain a Hydrogen bonds: 9:N.23, 9:S.56, 9:W.57, 9:E.58, 9:V.80, 9:I.82, a:F.113, a:S.142, a:S.142 Water bridges: 9:V.80, 9:V.80, 9:H.88, 9:H.88 pi-Stacking: 9:F.22 LMZ.74: 13 residues within 4Å: Chain a: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain b: T.112, F.113 13 PLIP interactions: 10 interactions with chain a, 3 interactions with chain b Hydrogen bonds: a:N.23, a:S.56, a:W.57, a:E.58, a:V.80, a:I.82, b:F.113, b:S.142, b:S.142 Water bridges: a:V.80, a:H.88, a:H.88 pi-Stacking: a:F.22 LMZ.76: 13 residues within 4Å: Chain b: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain c: T.112, F.113 13 PLIP interactions: 10 interactions with chain b, 3 interactions with chain c Hydrogen bonds: b:N.23, b:S.56, b:W.57, b:E.58, b:V.80, b:I.82, b:H.88, c:F.113, c:S.142, c:S.142 Water bridges: b:V.80, b:H.88 pi-Stacking: b:F.22 LMZ.78: 13 residues within 4Å: Chain c: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain d: T.112, F.113 15 PLIP interactions: 12 interactions with chain c, 3 interactions with chain d Hydrogen bonds: c:S.20, c:N.23, c:S.56, c:W.57, c:E.58, c:V.80, c:I.82, c:H.88, d:F.113, d:S.142, d:S.142 Water bridges: c:V.80, c:V.80, c:H.88 pi-Stacking: c:F.22 LMZ.80: 13 residues within 4Å: Chain 9: T.112, F.113 Chain d: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain d, 3 interactions with chain 9 Hydrogen bonds: d:S.20, d:N.23, d:S.56, d:W.57, d:E.58, d:V.80, d:I.82, 9:F.113, 9:S.142, 9:S.142 Water bridges: d:V.80, d:V.80, d:H.88, d:H.88 pi-Stacking: d:F.22 LMZ.82: 13 residues within 4Å: Chain e: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain f: T.112, F.113 14 PLIP interactions: 11 interactions with chain e, 3 interactions with chain f Hydrogen bonds: e:N.23, e:S.56, e:W.57, e:E.58, e:V.80, e:I.82, e:H.88, f:F.113, f:S.142, f:S.142 Water bridges: e:V.80, e:V.80, e:H.88 pi-Stacking: e:F.22 LMZ.84: 13 residues within 4Å: Chain f: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain g: T.112, F.113 13 PLIP interactions: 10 interactions with chain f, 3 interactions with chain g Hydrogen bonds: f:N.23, f:S.56, f:W.57, f:E.58, f:V.80, f:I.82, g:F.113, g:S.142, g:S.142 Water bridges: f:V.80, f:H.88, f:H.88 pi-Stacking: f:F.22 LMZ.86: 13 residues within 4Å: Chain g: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain h: T.112, F.113 13 PLIP interactions: 10 interactions with chain g, 3 interactions with chain h Hydrogen bonds: g:N.23, g:S.56, g:W.57, g:E.58, g:V.80, g:I.82, h:F.113, h:S.142, h:S.142 Water bridges: g:V.80, g:H.88, g:H.88 pi-Stacking: g:F.22 LMZ.88: 13 residues within 4Å: Chain h: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain i: T.112, F.113 15 PLIP interactions: 12 interactions with chain h, 3 interactions with chain i Hydrogen bonds: h:S.20, h:N.23, h:S.56, h:W.57, h:E.58, h:V.80, h:I.82, h:H.88, i:F.113, i:S.142, i:S.142 Water bridges: h:V.80, h:V.80, h:H.88 pi-Stacking: h:F.22 LMZ.90: 13 residues within 4Å: Chain e: T.112, F.113 Chain i: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 3 interactions with chain e, 12 interactions with chain i Hydrogen bonds: e:F.113, e:S.142, e:S.142, i:S.20, i:N.23, i:S.56, i:W.57, i:E.58, i:V.80, i:I.82, i:H.88 Water bridges: i:V.80, i:V.80, i:H.88 pi-Stacking: i:F.22 LMZ.92: 13 residues within 4Å: Chain j: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain k: T.112, F.113 14 PLIP interactions: 11 interactions with chain j, 3 interactions with chain k Hydrogen bonds: j:N.23, j:S.56, j:W.57, j:E.58, j:V.80, j:I.82, k:F.113, k:S.142, k:S.142 Water bridges: j:V.80, j:V.80, j:H.88, j:H.88 pi-Stacking: j:F.22 LMZ.94: 13 residues within 4Å: Chain k: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain l: T.112, F.113 13 PLIP interactions: 10 interactions with chain k, 3 interactions with chain l Hydrogen bonds: k:N.23, k:S.56, k:W.57, k:E.58, k:V.80, k:I.82, k:H.88, l:F.113, l:S.142, l:S.142 Water bridges: k:V.80, k:H.88 pi-Stacking: k:F.22 LMZ.96: 13 residues within 4Å: Chain l: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain m: T.112, F.113 13 PLIP interactions: 10 interactions with chain l, 3 interactions with chain m Hydrogen bonds: l:N.23, l:S.56, l:W.57, l:E.58, l:V.80, l:I.82, l:H.88, m:F.113, m:S.142, m:S.142 Water bridges: l:V.80, l:H.88 pi-Stacking: l:F.22 LMZ.98: 13 residues within 4Å: Chain m: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain n: T.112, F.113 15 PLIP interactions: 12 interactions with chain m, 3 interactions with chain n Hydrogen bonds: m:S.20, m:N.23, m:S.56, m:W.57, m:E.58, m:V.80, m:I.82, n:F.113, n:S.142, n:S.142 Water bridges: m:V.80, m:V.80, m:H.88, m:H.88 pi-Stacking: m:F.22 LMZ.100: 13 residues within 4Å: Chain j: T.112, F.113 Chain n: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain n, 3 interactions with chain j Hydrogen bonds: n:S.20, n:N.23, n:S.56, n:W.57, n:E.58, n:V.80, n:I.82, j:F.113, j:S.142, j:S.142 Water bridges: n:V.80, n:V.80, n:H.88, n:H.88 pi-Stacking: n:F.22 LMZ.102: 13 residues within 4Å: Chain o: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain p: T.112, F.113 14 PLIP interactions: 11 interactions with chain o, 3 interactions with chain p Hydrogen bonds: o:N.23, o:S.56, o:W.57, o:E.58, o:V.80, o:I.82, p:F.113, p:S.142, p:S.142 Water bridges: o:V.80, o:V.80, o:H.88, o:H.88 pi-Stacking: o:F.22 LMZ.104: 13 residues within 4Å: Chain p: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain q: T.112, F.113 13 PLIP interactions: 3 interactions with chain q, 10 interactions with chain p Hydrogen bonds: q:F.113, q:S.142, q:S.142, p:N.23, p:S.56, p:W.57, p:E.58, p:V.80, p:I.82, p:H.88 Water bridges: p:V.80, p:H.88 pi-Stacking: p:F.22 LMZ.106: 13 residues within 4Å: Chain q: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain r: T.112, F.113 13 PLIP interactions: 10 interactions with chain q, 3 interactions with chain r Hydrogen bonds: q:N.23, q:S.56, q:W.57, q:E.58, q:V.80, q:I.82, q:H.88, r:F.113, r:S.142, r:S.142 Water bridges: q:V.80, q:H.88 pi-Stacking: q:F.22 LMZ.108: 13 residues within 4Å: Chain r: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain s: T.112, F.113 15 PLIP interactions: 12 interactions with chain r, 3 interactions with chain s Hydrogen bonds: r:S.20, r:N.23, r:S.56, r:W.57, r:E.58, r:V.80, r:I.82, s:F.113, s:S.142, s:S.142 Water bridges: r:V.80, r:V.80, r:H.88, r:H.88 pi-Stacking: r:F.22 LMZ.110: 13 residues within 4Å: Chain o: T.112, F.113 Chain s: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain s, 3 interactions with chain o Hydrogen bonds: s:S.20, s:N.23, s:S.56, s:W.57, s:E.58, s:V.80, s:I.82, o:F.113, o:S.142, o:S.142 Water bridges: s:V.80, s:V.80, s:H.88, s:H.88 pi-Stacking: s:F.22 LMZ.112: 13 residues within 4Å: Chain t: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain u: T.112, F.113 14 PLIP interactions: 11 interactions with chain t, 3 interactions with chain u Hydrogen bonds: t:N.23, t:S.56, t:W.57, t:E.58, t:V.80, t:I.82, t:H.88, u:F.113, u:S.142, u:S.142 Water bridges: t:V.80, t:V.80, t:H.88 pi-Stacking: t:F.22 LMZ.114: 13 residues within 4Å: Chain u: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain v: T.112, F.113 13 PLIP interactions: 10 interactions with chain u, 3 interactions with chain v Hydrogen bonds: u:N.23, u:S.56, u:W.57, u:E.58, u:V.80, u:I.82, v:F.113, v:S.142, v:S.142 Water bridges: u:V.80, u:H.88, u:H.88 pi-Stacking: u:F.22 LMZ.116: 13 residues within 4Å: Chain v: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain w: T.112, F.113 13 PLIP interactions: 10 interactions with chain v, 3 interactions with chain w Hydrogen bonds: v:N.23, v:S.56, v:W.57, v:E.58, v:V.80, v:I.82, w:F.113, w:S.142, w:S.142 Water bridges: v:V.80, v:H.88, v:H.88 pi-Stacking: v:F.22 LMZ.118: 13 residues within 4Å: Chain w: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 Chain x: T.112, F.113 15 PLIP interactions: 12 interactions with chain w, 3 interactions with chain x Hydrogen bonds: w:S.20, w:N.23, w:S.56, w:W.57, w:E.58, w:V.80, w:I.82, w:H.88, x:F.113, x:S.142, x:S.142 Water bridges: w:V.80, w:V.80, w:H.88 pi-Stacking: w:F.22 LMZ.120: 13 residues within 4Å: Chain t: T.112, F.113 Chain x: F.22, N.23, G.55, S.56, W.57, E.58, V.80, L.81, I.82, H.88, I.92 15 PLIP interactions: 12 interactions with chain x, 3 interactions with chain t Hydrogen bonds: x:S.20, x:N.23, x:S.56, x:W.57, x:E.58, x:V.80, x:I.82, x:H.88, t:F.113, t:S.142, t:S.142 Water bridges: x:V.80, x:V.80, x:H.88 pi-Stacking: x:F.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, X. et al., A structure-based model of the reaction catalyzed by lumazine synthase from Aquifex aeolicus. J.Mol.Biol. (2003)

Release Date

2004-01-23

Peptides

6,7-dimethyl-8-ribityllumazine synthase: ABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789abcdefghijklmnopqrstuvwx

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
A

G
B

H
C

I
D

J
E

K
A

L
B

M
C

N
D

O
E

P
A

Q
B

R
C

S
D

T
E

U
A

V
B

W
C

X
D

Y
E

Z
A

0
B

1
C

2
D

3
E

4
A

5
B

6
C

7
D

8
E

9
A

a
B

b
C

c
D

d
E

e
A

f
B

g
C

h
D

i
E

j
A

k
B

l
C

m
D

n
E

o
A

p
B

q
C

r
D

s
E

t
A

u
B

v
C

w
D

x
E

6,7-dimethyl-8-ribityllumazine synthase

Related Entries With Identical Sequence