SMTL ID : 3a2w.1

Peroxiredoxin (C50S) from Aeropytum pernix K1 (peroxide-bound form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-10-mer

Ligands

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: P.42, T.46, P.47, V.48, S.49, R.125 Chain B: A.169, P.188 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.46, A:V.48, A:S.49, A:S.49, A:R.125, A:R.125 GOL.3: 5 residues within 4Å: Chain C: T.46, P.47, V.48, S.49, R.125 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:T.46, C:V.48, C:S.49, C:S.49, C:R.125, C:R.125 GOL.4: 8 residues within 4Å: Chain C: A.169, P.188 Chain D: P.42, T.46, P.47, V.48, S.49, R.125 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:T.46, D:V.48, D:S.49, D:S.49, D:R.125, D:R.125 GOL.5: 5 residues within 4Å: Chain E: T.46, P.47, V.48, S.49, R.125 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:T.46, E:V.48, E:S.49, E:S.49, E:R.125, E:R.125 GOL.7: 7 residues within 4Å: Chain G: T.46, P.47, V.48, S.49, R.125, M.144 Chain H: A.169 6 PLIP interactions: 6 interactions with chain G Hydrogen bonds: G:T.46, G:V.48, G:S.49, G:S.49, G:R.125, G:R.125 GOL.8: 6 residues within 4Å: Chain G: P.188 Chain H: T.46, P.47, V.48, S.49, R.125 4 PLIP interactions: 4 interactions with chain H Hydrogen bonds: H:V.48, H:S.49, H:S.49, H:R.125 GOL.10: 7 residues within 4Å: Chain I: P.188 Chain J: T.46, P.47, V.48, S.49, R.125, M.144 3 PLIP interactions: 3 interactions with chain J Hydrogen bonds: J:V.48, J:S.49, J:R.125

3 x PER: PEROXIDE ION(Non-covalent)

PER.2: 5 residues within 4Å: Chain B: T.46, P.47, V.48, S.49, R.125 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.46, B:V.48, B:S.49, B:R.125 PER.6: 5 residues within 4Å: Chain F: T.46, P.47, V.48, S.49, R.125 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:T.46, F:V.48, F:S.49, F:S.49, F:R.125 PER.9: 5 residues within 4Å: Chain I: T.46, P.47, V.48, S.49, R.125 3 PLIP interactions: 3 interactions with chain I Hydrogen bonds: I:V.48, I:S.49, I:R.125

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamura, T. et al., Crystal structure of peroxiredoxin from Aeropyrum pernix K1 complexed with its substrate, hydrogen peroxide. J.Biochem. (2010)

Release Date

2009-10-27

Peptides

Probable peroxiredoxin: ABCDEFGHIJ

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

Probable peroxiredoxin

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