SMTL ID : 3ak8.1

Crystal structure of the SEp22 dodecamer, a Dps-like protein from Salmonella enterica subsp. enterica serovar Enteritidis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

homo-12-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.70, T.74 Chain C: R.70, T.74 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C Water bridges: A:T.74, A:T.74, C:T.74 Salt bridges: A:R.70, C:R.70 Hydrogen bonds: C:T.74 SO4.5: 4 residues within 4Å: Chain B: R.70, T.74 Chain D: R.70, T.74 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain D Hydrogen bonds: B:T.74 Salt bridges: B:R.70, D:R.70 Water bridges: D:T.74, D:T.74, D:T.74, D:T.74 SO4.11: 4 residues within 4Å: Chain F: R.70, T.74 Chain H: R.70, T.74 6 PLIP interactions: 3 interactions with chain H, 3 interactions with chain F Hydrogen bonds: H:T.74, F:T.74 Water bridges: H:T.71, F:T.74 Salt bridges: H:R.70, F:R.70 SO4.13: 4 residues within 4Å: Chain E: R.70, T.74 Chain G: R.70, T.74 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain G Hydrogen bonds: E:T.74, G:T.74, G:T.74 Water bridges: E:T.74, E:T.74 Salt bridges: E:R.70, G:R.70 SO4.16: 4 residues within 4Å: Chain I: R.70, T.74 Chain K: R.70, T.74 5 PLIP interactions: 2 interactions with chain I, 3 interactions with chain K Hydrogen bonds: I:T.74, K:T.74, K:T.74 Salt bridges: I:R.70, K:R.70 SO4.20: 4 residues within 4Å: Chain J: R.70, T.74 Chain L: R.70, T.74 7 PLIP interactions: 3 interactions with chain L, 4 interactions with chain J Hydrogen bonds: L:T.74 Water bridges: L:T.74, J:T.71, J:T.74, J:T.74 Salt bridges: L:R.70, J:R.70

15 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 3 residues within 4Å: Chain A: D.146 Chain E: D.146 Chain I: D.146 No protein-ligand interaction detected (PLIP) MG.3: 1 residues within 4Å: Chain C: D.67 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain A: D.67 No protein-ligand interaction detected (PLIP) MG.6: 3 residues within 4Å: Chain B: D.146 Chain G: D.146 Chain L: D.146 No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 1 residues within 4Å: Chain B: D.67 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain C: E.142 No protein-ligand interaction detected (PLIP) MG.10: 3 residues within 4Å: Chain D: D.146 Chain F: D.146 Chain K: D.146 No protein-ligand interaction detected (PLIP) MG.12: 1 residues within 4Å: Chain F: D.67 No protein-ligand interaction detected (PLIP) MG.14: 1 residues within 4Å: Chain H: D.67 No protein-ligand interaction detected (PLIP) MG.15: 3 residues within 4Å: Chain C: D.146 Chain H: D.146 Chain J: D.146 No protein-ligand interaction detected (PLIP) MG.17: 1 residues within 4Å: Chain K: D.67 No protein-ligand interaction detected (PLIP) MG.18: 1 residues within 4Å: Chain I: D.67 No protein-ligand interaction detected (PLIP) MG.19: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.21: 1 residues within 4Å: Chain L: D.67 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miyamoto, T. et al., Structures of the SEp22 dodecamer, a Dps-like protein from Salmonella enterica subsp. enterica serovar Enteritidis. Acta Crystallogr.,Sect.F (2011)

Release Date

2011-01-12

Peptides

DNA protection during starvation protein: ABCDEFGHIJKL

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

K
K

L
L

DNA protection during starvation protein

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