SMTL ID : 5kst.1

Stationary phase Survival protein E (SurE) from Xylella fastidiosa- XfSurE-TSAmp (Tetramer Smaller - crystallization with 3'AMP).

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.76 Å

Oligo State

homo-tetramer

Ligands

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

MN.1: 6 residues within 4Å: Chain A: D.8, D.9, S.40, N.92, N.93 Ligands: PO4.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.8, A:D.8, A:D.9, A:S.40 MN.6: 6 residues within 4Å: Chain B: D.8, D.9, S.40, N.92, N.93 Ligands: PO4.7 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.8, B:D.8, B:D.9, B:S.40 MN.8: 7 residues within 4Å: Chain C: D.8, D.9, S.40, N.92, N.93, T.106 Ligands: PO4.10 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.8, C:D.9, C:S.40 MN.12: 7 residues within 4Å: Chain D: D.8, D.9, S.40, N.92, N.93, T.106 Ligands: PO4.14 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.8, D:D.9, D:S.40

6 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 2 residues within 4Å: Chain A: N.44 Chain B: N.44 Ligand excluded by PLIP IOD.4: 4 residues within 4Å: Chain A: H.235 Chain B: R.240, Y.241, Q.242 Ligand excluded by PLIP IOD.5: 4 residues within 4Å: Chain A: R.240, Y.241, Q.242 Chain B: H.235 Ligand excluded by PLIP IOD.9: 4 residues within 4Å: Chain C: T.239, Y.241, Q.242 Chain D: H.235 Ligand excluded by PLIP IOD.11: 2 residues within 4Å: Chain C: N.44 Chain D: N.44 Ligand excluded by PLIP IOD.13: 4 residues within 4Å: Chain C: H.235 Chain D: R.240, Y.241, Q.242 Ligand excluded by PLIP

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

PO4.3: 10 residues within 4Å: Chain A: D.8, D.9, S.40, N.92, T.94, N.96, S.104, G.105, T.106 Ligands: MN.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.8, A:N.92, A:N.92, A:N.96, A:G.105, A:T.106, A:T.106 PO4.7: 9 residues within 4Å: Chain B: D.8, S.40, N.92, T.94, N.96, S.104, G.105, T.106 Ligands: MN.6 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.40, B:N.96, B:S.104, B:G.105, B:T.106 Water bridges: B:T.94, B:T.94 PO4.10: 9 residues within 4Å: Chain C: D.8, S.40, N.92, T.94, N.96, S.104, G.105, T.106 Ligands: MN.8 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.92, C:N.96, C:G.105, C:T.106 PO4.14: 8 residues within 4Å: Chain D: D.8, S.40, N.92, N.96, S.104, G.105, T.106 Ligands: MN.12 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:D.8, D:N.92, D:N.96, D:S.104, D:G.105, D:T.106, D:T.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Machado, A.T.P. et al., Conformational variability of the stationary phase survival protein E from Xylella fastidiosa revealed by X-ray crystallography, small-angle X-ray scattering studies, and normal mode analysis. Proteins (2017)

Release Date

2017-07-19

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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