SMTL ID : 1jdz.1

CRYSTAL STRUCTURE OF 5'-DEOXY-5'-METHYLTHIOADENOSINE PHOSPHORYLASE WITH FORMYCIN B AND SULFATE ION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 9 residues within 4Å: Chain A: G.21, R.25, R.86, Y.87, G.88, T.89, E.182 Chain D: R.43 Ligands: FMB.4 6 PLIP interactions: 1 interactions with chain D, 5 interactions with chain A Salt bridges: D:R.43, A:R.25, A:R.86 Hydrogen bonds: A:G.21, A:Y.87, A:T.89 SO4.2: 8 residues within 4Å: Chain B: G.21, R.25, R.86, Y.87, G.88, T.89 Chain C: R.43 Ligands: FMB.5 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:G.21, B:Y.87, B:T.89, B:T.89 Salt bridges: B:R.25, B:R.86, C:R.43 Water bridges: C:R.43, C:R.43 SO4.3: 10 residues within 4Å: Chain B: R.43 Chain C: V.20, G.21, R.25, R.86, Y.87, G.88, T.89, E.182 Ligands: FMB.6 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:G.21, C:R.25, C:Y.87, C:T.89 Salt bridges: C:H.62, C:R.86, B:R.43 SO4.7: 9 residues within 4Å: Chain A: R.43 Chain D: G.21, R.25, R.86, Y.87, G.88, T.89, E.182 Ligands: FMB.10 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:G.21, D:Y.87, D:T.89 Salt bridges: D:R.25, D:R.86, A:R.43 SO4.8: 8 residues within 4Å: Chain E: G.21, R.25, R.86, Y.87, G.88, T.89 Chain F: R.43 Ligands: FMB.11 9 PLIP interactions: 3 interactions with chain F, 6 interactions with chain E Water bridges: F:R.43, F:R.43 Salt bridges: F:R.43, E:R.25, E:R.86 Hydrogen bonds: E:G.21, E:Y.87, E:T.89, E:T.89 SO4.9: 10 residues within 4Å: Chain E: R.43 Chain F: V.20, G.21, R.25, R.86, Y.87, G.88, T.89, E.182 Ligands: FMB.12 7 PLIP interactions: 1 interactions with chain E, 6 interactions with chain F Salt bridges: E:R.43, F:H.62, F:R.86 Hydrogen bonds: F:G.21, F:R.25, F:Y.87, F:T.89

6 x FMB: FORMYCIN B(Non-covalent)

FMB.4: 13 residues within 4Å: Chain A: I.64, R.86, T.89, T.90, G.91, V.179, E.180, M.181, E.182, S.204 Chain D: H.5, R.43 Ligands: SO4.1 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:R.86, A:T.89, A:M.181, A:E.182, A:S.204, D:H.5, D:R.43 FMB.5: 14 residues within 4Å: Chain B: I.64, R.86, T.89, T.90, G.91, V.179, E.180, M.181, E.182, S.204, D.205 Chain C: H.5, R.43 Ligands: SO4.2 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:R.86, B:T.89, B:M.181, B:E.182, B:S.204, B:D.205, C:H.5, C:R.43 FMB.6: 15 residues within 4Å: Chain B: H.5, R.43 Chain C: I.64, R.86, T.89, T.90, G.91, F.160, V.179, E.180, M.181, E.182, S.204, D.205 Ligands: SO4.3 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Hydrogen bonds: B:H.5, B:R.43, C:R.86, C:M.181, C:E.182, C:S.204, C:D.205 FMB.10: 13 residues within 4Å: Chain A: H.5, R.43 Chain D: I.64, R.86, T.89, T.90, G.91, V.179, E.180, M.181, E.182, S.204 Ligands: SO4.7 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:R.86, D:M.181, D:E.182, D:S.204, A:H.5 FMB.11: 14 residues within 4Å: Chain E: I.64, R.86, T.89, T.90, G.91, V.179, E.180, M.181, E.182, S.204, D.205 Chain F: H.5, R.43 Ligands: SO4.8 7 PLIP interactions: 5 interactions with chain E, 2 interactions with chain F Hydrogen bonds: E:R.86, E:M.181, E:E.182, E:S.204, E:D.205, F:H.5, F:R.43 FMB.12: 15 residues within 4Å: Chain E: H.5, R.43 Chain F: I.64, R.86, T.89, T.90, G.91, F.160, V.179, E.180, M.181, E.182, S.204, D.205 Ligands: SO4.9 8 PLIP interactions: 2 interactions with chain E, 6 interactions with chain F Hydrogen bonds: E:H.5, E:R.43, F:R.86, F:T.89, F:M.181, F:E.182, F:S.204, F:D.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Appleby, T.C. et al., Three-dimensional structure of a hyperthermophilic 5'-deoxy-5'-methylthioadenosine phosphorylase from Sulfolobus solfataricus. J.Biol.Chem. (2001)

Release Date

2001-10-26

Peptides

5'-METHYLTHIOADENOSINE PHOSPHORYLASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

5'-METHYLTHIOADENOSINE PHOSPHORYLASE

Related Entries With Identical Sequence