SMTL ID : 2e6c.1

Crystal structure of the stationary phase survival protein SurE from Thermus thermophilus HB8 cocrystallized with manganese and AMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-tetramer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: D.8, D.9, N.96 Chain C: E.37 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:E.37, A:D.8, A:D.9, H2O.4 MN.7: 3 residues within 4Å: Chain B: D.8, D.9, N.96 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.8, B:D.9 MN.11: 4 residues within 4Å: Chain A: E.37 Chain C: D.8, D.9, N.96 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:D.8, C:D.9, A:E.37, H2O.9 MN.13: 3 residues within 4Å: Chain D: D.8, D.9, N.96 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:D.9

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

SO4.2: 7 residues within 4Å: Chain A: G.102, H.103, S.178, V.179, R.180, Y.182, R.214 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.103, A:S.178, A:R.180, A:Y.182 Salt bridges: A:H.103, A:R.180, A:R.214 SO4.3: 3 residues within 4Å: Chain A: R.180, P.204, R.214 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.180 Salt bridges: A:R.180 SO4.4: 3 residues within 4Å: Chain A: R.228, L.229, D.230 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:L.229, A:D.230, A:D.230 Water bridges: A:R.228, A:R.228, B:T.235 Salt bridges: A:R.228 SO4.5: 5 residues within 4Å: Chain A: T.235, R.236, P.239, T.240 Chain B: E.156 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.240 Water bridges: A:R.236, A:R.236 Salt bridges: A:R.236 SO4.8: 7 residues within 4Å: Chain B: G.102, H.103, S.178, V.179, R.180, Y.182, R.214 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:H.103, B:S.178, B:S.178, B:R.180, B:Y.182 Salt bridges: B:H.103, B:R.180, B:R.214 SO4.9: 3 residues within 4Å: Chain B: R.180, P.204, R.214 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.180, B:E.207 Salt bridges: B:R.180 SO4.12: 7 residues within 4Å: Chain C: G.102, H.103, S.178, V.179, R.180, Y.182, R.214 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:H.103, C:S.178, C:R.180 Water bridges: C:R.180 Salt bridges: C:H.103, C:R.180, C:R.214 SO4.14: 7 residues within 4Å: Chain D: G.102, H.103, S.178, V.179, R.180, Y.182, R.214 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:H.103, D:S.178, D:S.178, D:R.180, D:Y.182 Salt bridges: D:H.103, D:R.180, D:R.214 SO4.15: 3 residues within 4Å: Chain D: R.180, P.204, R.214 3 PLIP interactions: 3 interactions with chain D Water bridges: D:R.180, D:A.208 Salt bridges: D:R.180

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: E.28, V.29, F.30, H.64, F.65, P.66 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.27, A:V.29 Water bridges: A:H.64 GOL.10: 4 residues within 4Å: Chain B: V.29, H.64, F.65, P.66 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iwasaki, W. et al., Crystal Structure of the Stationary Phase Survival Protein SurE with Metal Ion and AMP. J.Mol.Biol. (2007)

Release Date

2007-08-28

Peptides

5'-nucleotidase surE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

5'-nucleotidase surE

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