SMTL ID : 2c41.1

X-ray structure of Dps from Thermosynechococcus elongatus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.81 Å

Oligo State

homo-12-mer

Ligands

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: R.42, L.46 Chain D: R.42 Chain F: R.42 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain B: R.42, L.46 Chain I: R.42 Chain L: R.42, L.46 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain C: R.42, L.46 Chain G: R.42, L.46 Chain K: R.42, L.46 Ligand excluded by PLIP CL.17: 4 residues within 4Å: Chain E: R.42 Chain H: R.42 Chain J: R.42, L.46 Ligand excluded by PLIP

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 4 residues within 4Å: Chain B: T.121, E.122, G.124, I.126 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:G.124 Water bridges: D:Q.115 PG4.7: 7 residues within 4Å: Chain C: T.4, K.8, L.69, A.123, G.124, D.125 Chain F: H.114 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.8

12 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 4 residues within 4Å: Chain B: I.103, E.107, K.147, L.150 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.107, B:R.143, B:K.147 PGE.4: 6 residues within 4Å: Chain B: E.61, E.64, M.68, R.134 Chain D: Q.137, K.141 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:E.61, B:E.61 Water bridges: B:D.60, B:D.60, B:R.134, B:R.134, D:Q.137, D:K.141 PGE.5: 4 residues within 4Å: Chain B: L.156, V.157, S.158 Chain L: K.152 2 PLIP interactions: 1 interactions with chain L, 1 interactions with chain B Water bridges: L:K.152, B:S.158 PGE.8: 6 residues within 4Å: Chain C: E.61, E.64, M.68, R.134 Chain F: Q.137, K.141 4 PLIP interactions: 4 interactions with chain C Water bridges: C:D.60, C:E.61, C:E.61, C:R.134 PGE.10: 6 residues within 4Å: Chain B: M.68, D.70 Chain D: I.110, T.111, Q.140, R.143 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.140 Water bridges: D:T.111 PGE.11: 6 residues within 4Å: Chain E: T.111, H.114, Q.115, E.118 Chain I: G.124, I.126 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:E.118 PGE.12: 6 residues within 4Å: Chain A: Q.137, K.141 Chain E: E.61, E.64, M.68, R.134 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain A Water bridges: E:D.60, E:E.61, E:R.134, E:R.134, A:Q.137, A:Q.137, A:K.141 PGE.13: 5 residues within 4Å: Chain F: K.16, Q.72, P.73, D.79, V.83 1 PLIP interactions: 1 interactions with chain F Water bridges: F:Q.72 PGE.14: 6 residues within 4Å: Chain F: E.61, E.64, M.68, R.134 Chain H: Q.137, K.141 3 PLIP interactions: 2 interactions with chain H, 1 interactions with chain F Water bridges: H:Q.137, H:T.138, F:D.60 PGE.15: 7 residues within 4Å: Chain C: Q.137, K.141 Chain H: D.60, E.61, E.64, M.68, R.134 5 PLIP interactions: 3 interactions with chain H, 2 interactions with chain C Hydrogen bonds: H:D.60, H:D.60, H:E.64 Water bridges: C:Q.137, C:K.141 PGE.16: 7 residues within 4Å: Chain F: M.68, D.70 Chain H: E.107, I.110, T.111, Q.140, R.143 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:T.111, H:T.111, H:Q.140 PGE.18: 6 residues within 4Å: Chain G: Q.137, K.141 Chain L: E.61, E.64, M.68, R.134 3 PLIP interactions: 1 interactions with chain L, 2 interactions with chain G Water bridges: L:D.60, G:K.141 Hydrogen bonds: G:Q.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Franceschini, S. et al., Antioxidant Dps Protein from the Thermophilic Cyanobacterium Thermosynechococcus Elongatus. FEBS J. (2006)

Release Date

2006-10-11

Peptides

DPS FAMILY DNA-BINDING STRESS RESPONSE 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

DPS FAMILY DNA-BINDING STRESS RESPONSE PROTEIN