SMTL ID : 1c41.3 (2 other biounits)

CRYSTAL STRUCTURES OF A PENTAMERIC FUNGAL AND AN ICOSAHEDRAL PLANT LUMAZINE SYNTHASE REVEALS THE STRUCTURAL BASIS FOR DIFFERENCES IN ASSEMBLY

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-10-mer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: G.123, E.124, T.125, H.127 Chain E: R.166 Ligand excluded by PLIP SO4.2: 4 residues within 4Å: Chain A: V.53, Q.54, S.55 Chain E: R.190 Ligand excluded by PLIP SO4.4: 5 residues within 4Å: Chain A: R.166 Chain B: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: R.190 Chain B: V.53, Q.54, S.55 Ligand excluded by PLIP SO4.7: 5 residues within 4Å: Chain B: R.166 Chain C: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.8: 5 residues within 4Å: Chain C: Q.9, R.190 Chain D: V.53, Q.54, S.55 Ligand excluded by PLIP SO4.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SO4.11: 5 residues within 4Å: Chain C: R.166 Chain D: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.13: 5 residues within 4Å: Chain D: R.166 Chain E: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain D: R.190 Chain E: Q.54, S.55 Ligand excluded by PLIP SO4.16: 5 residues within 4Å: Chain F: G.123, E.124, T.125, H.127 Chain J: R.166 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain F: R.190 Chain G: Q.54, S.55 Ligand excluded by PLIP SO4.19: 5 residues within 4Å: Chain F: R.166 Chain G: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.21: 5 residues within 4Å: Chain G: R.166 Chain H: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.22: 3 residues within 4Å: Chain G: R.190 Chain H: Q.54, S.55 Ligand excluded by PLIP SO4.24: 5 residues within 4Å: Chain H: R.166 Chain I: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain I: R.190 Chain J: V.53, Q.54, S.55 Ligand excluded by PLIP SO4.26: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain I: R.166 Chain J: G.123, E.124, T.125, H.127 Ligand excluded by PLIP SO4.29: 3 residues within 4Å: Chain F: S.55 Chain J: Q.9, R.190 Ligand excluded by PLIP

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

LMZ.3: 12 residues within 4Å: Chain A: W.25, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 Chain E: I.151, F.152 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain E Hydrogen bonds: A:W.25, A:W.25, A:S.59, A:W.60, A:V.119, A:I.121, E:F.152 pi-Stacking: A:W.25 LMZ.6: 12 residues within 4Å: Chain A: I.151, F.152 Chain B: W.25, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:W.25, B:W.25, B:N.26, B:S.59, B:W.60, B:V.119, B:V.119, B:I.121, A:F.152 pi-Stacking: B:W.25 LMZ.10: 14 residues within 4Å: Chain B: I.151, F.152 Chain C: A.23, W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:W.25, C:W.25, C:N.26, C:S.59, C:W.60, C:V.119, C:I.121, B:F.152 pi-Stacking: C:W.25 LMZ.12: 14 residues within 4Å: Chain C: I.151, F.152 Chain D: A.23, W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 10 PLIP interactions: 9 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:W.25, D:W.25, D:N.26, D:S.59, D:W.60, D:V.119, D:V.119, D:I.121, C:F.152 pi-Stacking: D:W.25 LMZ.15: 14 residues within 4Å: Chain D: I.151, F.152 Chain E: A.23, W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 9 PLIP interactions: 8 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:W.25, E:W.25, E:N.26, E:S.59, E:W.60, E:V.119, E:I.121, D:F.152 pi-Stacking: E:W.25 LMZ.18: 14 residues within 4Å: Chain F: A.23, W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 Chain J: I.151, F.152 10 PLIP interactions: 9 interactions with chain F, 1 interactions with chain J Hydrogen bonds: F:W.25, F:W.25, F:N.26, F:S.59, F:W.60, F:V.119, F:V.119, F:I.121, J:F.152 pi-Stacking: F:W.25 LMZ.20: 14 residues within 4Å: Chain F: I.151, F.152 Chain G: A.23, W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 9 PLIP interactions: 1 interactions with chain F, 8 interactions with chain G Hydrogen bonds: F:F.152, G:W.25, G:W.25, G:N.26, G:S.59, G:W.60, G:V.119, G:I.121 pi-Stacking: G:W.25 LMZ.23: 14 residues within 4Å: Chain G: I.151, F.152 Chain H: A.23, W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 9 PLIP interactions: 8 interactions with chain H, 1 interactions with chain G Hydrogen bonds: H:W.25, H:W.25, H:N.26, H:S.59, H:W.60, H:V.119, H:I.121, G:F.152 pi-Stacking: H:W.25 LMZ.27: 12 residues within 4Å: Chain H: I.151, F.152 Chain I: W.25, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 8 PLIP interactions: 7 interactions with chain I, 1 interactions with chain H Hydrogen bonds: I:W.25, I:W.25, I:S.59, I:W.60, I:V.119, I:I.121, H:F.152 pi-Stacking: I:W.25 LMZ.30: 13 residues within 4Å: Chain I: I.151, F.152 Chain J: W.25, N.26, G.58, S.59, W.60, E.61, V.119, L.120, I.121, H.127, I.131 9 PLIP interactions: 8 interactions with chain J, 1 interactions with chain I Hydrogen bonds: J:W.25, J:W.25, J:N.26, J:S.59, J:W.60, J:V.119, J:I.121, I:F.152 pi-Stacking: J:W.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Persson, K. et al., Crystal structure analysis of a pentameric fungal and an icosahedral plant lumazine synthase reveals the structural basis for differences in assembly. Protein Sci. (1999)

Release Date

2000-08-06

Peptides

LUMAZINE SYNTHASE: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

LUMAZINE SYNTHASE

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