SMTL ID : 2a8y.1 (1 other biounit)

Crystal structure of 5'-deoxy-5'methylthioadenosine phosphorylase complexed with 5'-deoxy-5'methylthioadenosine and sulfate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: G.15, S.16, R.58, H.59, S.91, A.92, T.191 Ligands: MTA.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.16, A:A.92, A:T.191 Water bridges: A:S.91 Salt bridges: A:R.58, A:H.59 SO4.2: 4 residues within 4Å: Chain A: Q.38, R.64 Chain D: Q.38, R.64 10 PLIP interactions: 6 interactions with chain D, 4 interactions with chain A Water bridges: D:Q.38, D:Q.38, D:R.64, D:R.64, D:R.64, A:Q.38, A:Q.38, A:R.64 Salt bridges: D:R.64, A:R.64 SO4.4: 8 residues within 4Å: Chain B: G.15, S.16, R.58, H.59, S.91, A.92, T.191 Ligands: MTA.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.16, B:A.92, B:A.92, B:T.191 Salt bridges: B:R.58, B:H.59 SO4.6: 8 residues within 4Å: Chain C: G.15, S.16, R.58, H.59, S.91, A.92, T.191 Ligands: MTA.7 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:S.16, C:S.16, C:A.92, C:T.191 Salt bridges: C:R.58, C:H.59 SO4.8: 8 residues within 4Å: Chain D: G.15, S.16, R.58, H.59, S.91, A.92, T.191 Ligands: MTA.10 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:S.16, D:A.92, D:A.92 Salt bridges: D:R.58, D:H.59 SO4.9: 4 residues within 4Å: Chain D: L.96, R.97, M.98, R.180 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:M.98 Water bridges: D:L.96 Salt bridges: D:R.180 SO4.11: 4 residues within 4Å: Chain C: Q.38, R.64 Chain E: Q.38, R.64 9 PLIP interactions: 5 interactions with chain E, 4 interactions with chain C Water bridges: E:Q.38, E:Q.38, E:R.64, E:R.64, C:Q.38, C:R.64, C:R.64 Salt bridges: E:R.64, C:R.64 SO4.12: 8 residues within 4Å: Chain E: G.15, S.16, R.58, H.59, S.91, A.92, T.191 Ligands: MTA.14 7 PLIP interactions: 7 interactions with chain E Hydrogen bonds: E:S.16, E:S.16, E:A.92, E:T.191, E:T.191 Salt bridges: E:R.58, E:H.59 SO4.13: 1 residues within 4Å: Chain E: R.180 3 PLIP interactions: 3 interactions with chain E Water bridges: E:R.180, E:R.180 Salt bridges: E:R.180 SO4.15: 4 residues within 4Å: Chain B: Q.38, R.64 Chain F: Q.38, R.64 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain F Water bridges: B:Q.38, B:P.39, B:R.64, B:R.64, F:Q.38, F:R.64, F:R.64 Salt bridges: B:R.64, F:R.64 SO4.16: 8 residues within 4Å: Chain F: G.15, S.16, R.58, H.59, S.91, A.92, T.191 Ligands: MTA.18 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:S.16, F:A.92, F:A.92, F:T.191, F:T.191 Salt bridges: F:R.58, F:H.59 SO4.17: 4 residues within 4Å: Chain F: L.96, R.97, M.98, R.180 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:L.96, F:M.98 Water bridges: F:R.180, F:R.180, F:R.180 Salt bridges: F:R.180

6 x MTA: 5'-DEOXY-5'-METHYLTHIOADENOSINE(Non-covalent)

MTA.3: 19 residues within 4Å: Chain A: S.16, H.59, P.67, A.92, V.93, G.94, I.165, F.170, I.188, G.189, M.190, T.213, D.214, D.216, A.225, V.228 Chain B: H.130, V.270 Ligands: SO4.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.16, A:H.59, A:M.190, A:T.213, A:D.216, A:D.216 Water bridges: A:A.92 pi-Stacking: A:F.170 MTA.5: 19 residues within 4Å: Chain B: S.16, H.59, P.67, A.92, V.93, G.94, I.165, F.170, I.188, G.189, M.190, T.213, D.214, D.216, A.225, V.228 Chain C: H.130, V.270 Ligands: SO4.4 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:S.16, B:H.59, B:M.190, B:T.213, B:D.216, B:D.216 Water bridges: B:Y.162 pi-Stacking: B:F.170 MTA.7: 20 residues within 4Å: Chain A: H.130, V.270 Chain C: S.16, H.59, P.67, A.92, V.93, G.94, I.165, F.170, I.188, G.189, M.190, T.191, T.213, D.214, D.216, A.225, V.228 Ligands: SO4.6 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:S.16, C:H.59, C:M.190, C:T.213, C:D.216, C:D.216 Water bridges: C:A.92 pi-Stacking: C:F.170 MTA.10: 19 residues within 4Å: Chain D: S.16, H.59, P.67, A.92, V.93, G.94, I.165, F.170, I.188, G.189, M.190, T.213, D.214, D.216, A.225, V.228 Chain E: H.130, V.270 Ligands: SO4.8 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.16, D:H.59, D:M.190, D:D.216 Water bridges: D:Y.162 pi-Stacking: D:F.170 MTA.14: 19 residues within 4Å: Chain E: S.16, H.59, P.67, A.92, V.93, G.94, I.165, F.170, I.188, G.189, M.190, T.213, D.214, D.216, A.225, V.228 Chain F: H.130, V.270 Ligands: SO4.12 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:S.16, E:H.59, E:M.190, E:D.216 Water bridges: E:A.92 pi-Stacking: E:F.170 MTA.18: 20 residues within 4Å: Chain D: H.130, V.270 Chain F: S.16, H.59, P.67, A.92, V.93, G.94, I.165, F.170, I.188, G.189, M.190, T.191, T.213, D.214, D.216, A.225, V.228 Ligands: SO4.16 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:S.16, F:H.59, F:M.190, F:T.191, F:D.216 Water bridges: F:Y.162 pi-Stacking: F:F.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Y. et al., The crystal structure of 5'-deoxy-5'-methylthioadenosine phosphorylase II from Sulfolobus solfataricus, a thermophilic enzyme stabilized by intramolecular disulfide bonds. J.Mol.Biol. (2006)

Release Date

2006-03-28

Peptides

5'-methylthioadenosine phosphorylase (mtaP): ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
J

E
K

F
L

5'-methylthioadenosine phosphorylase (mtaP)

Related Entries With Identical Sequence