SMTL ID : 7lj1.1 (1 other biounit)

Human Prx1-Srx Decameric Complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.97 Å

Oligo State

hetero-10-10-mer

Ligands

9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: K.136 Chain L: S.104, T.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.136, A:K.136 EDO.3: 2 residues within 4Å: Chain D: K.136 Chain N: T.105 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.136, D:K.136 EDO.4: 4 residues within 4Å: Chain D: K.16, T.18, D.28 Chain R: S.95 No protein-ligand interaction detected (PLIP) EDO.7: 2 residues within 4Å: Chain H: D.33, K.37 No protein-ligand interaction detected (PLIP) EDO.8: 4 residues within 4Å: Chain H: K.136 Chain R: A.103, S.104, T.105 2 PLIP interactions: 1 interactions with chain R, 1 interactions with chain H Hydrogen bonds: R:S.104, H:K.136 EDO.11: 3 residues within 4Å: Chain I: D.33, K.35, K.37 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:K.35 EDO.12: 4 residues within 4Å: Chain I: K.136 Chain Q: A.103, S.104, T.105 No protein-ligand interaction detected (PLIP) EDO.13: 4 residues within 4Å: Chain I: R.128, L.147, P.148, G.150 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:R.128 EDO.14: 3 residues within 4Å: Chain K: K.136, D.167 Chain S: T.105 1 PLIP interactions: 1 interactions with chain K Hydrogen bonds: K:K.136

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

PO4.2: 5 residues within 4Å: Chain A: C.52 Chain B: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.70, B:C.71, B:H.72, B:R.73 Salt bridges: B:H.72, B:R.73 PO4.6: 4 residues within 4Å: Chain F: K.7, H.10 Chain G: L.119, A.121 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain G Salt bridges: F:H.10 Hydrogen bonds: G:A.121 PO4.15: 5 residues within 4Å: Chain C: C.52 Chain L: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain L Hydrogen bonds: L:G.70, L:C.71, L:H.72, L:R.73 Salt bridges: L:H.72, L:R.73 PO4.17: 4 residues within 4Å: Chain N: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain N Hydrogen bonds: N:G.70, N:C.71, N:H.72, N:R.73 Salt bridges: N:H.72, N:R.73 PO4.18: 4 residues within 4Å: Chain O: G.70, C.71, H.72, R.73 4 PLIP interactions: 4 interactions with chain O Hydrogen bonds: O:H.72, O:R.73 Salt bridges: O:H.72, O:R.73 PO4.19: 5 residues within 4Å: Chain G: C.52 Chain P: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain P Hydrogen bonds: P:G.70, P:C.71, P:H.72, P:R.73 Salt bridges: P:H.72, P:R.73 PO4.21: 4 residues within 4Å: Chain R: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain R Hydrogen bonds: R:G.70, R:C.71, R:H.72, R:R.73 Salt bridges: R:H.72, R:R.73 PO4.22: 5 residues within 4Å: Chain J: C.52 Chain S: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain S Hydrogen bonds: S:G.70, S:C.71, S:H.72, S:R.73 Salt bridges: S:H.72, S:R.73 PO4.23: 5 residues within 4Å: Chain K: C.52 Chain T: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain T Hydrogen bonds: T:G.70, T:C.71, T:H.72, T:R.73 Salt bridges: T:H.72, T:R.73

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 7 residues within 4Å: Chain E: K.136, D.167, G.170, E.171 Chain M: A.103, S.104, T.105 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:K.136 PEG.9: 3 residues within 4Å: Chain H: K.16, D.28 Chain K: D.122 2 PLIP interactions: 1 interactions with chain T, 1 interactions with chain K Hydrogen bonds: T:S.95, K:D.122

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 6 residues within 4Å: Chain H: L.119, A.121, D.122, F.127 Chain I: S.2, H.10 3 PLIP interactions: 1 interactions with chain I, 2 interactions with chain H Hydrogen bonds: I:I.8, H:D.122, H:D.122

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.16: 5 residues within 4Å: Chain D: K.93 Chain M: G.70, C.71, H.72, R.73 6 PLIP interactions: 6 interactions with chain M Hydrogen bonds: M:C.71, M:H.72, M:R.73 Salt bridges: M:H.72, M:R.73, M:R.73 ATP.20: 11 residues within 4Å: Chain H: C.52, K.92, K.93, G.95 Chain Q: L.37, P.49, G.69, G.70, C.71, H.72, R.73 10 PLIP interactions: 9 interactions with chain Q, 1 interactions with chain H Hydrophobic interactions: Q:L.37 Hydrogen bonds: Q:G.70, Q:C.71, Q:H.72, Q:H.72, Q:R.73, H:G.95 Salt bridges: Q:H.72, Q:R.73, Q:R.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Forshaw, T.E. et al., Specificity of Human Sulfiredoxin for Reductant and Peroxiredoxin Oligomeric State. Antioxidants (Basel) (2021)

Release Date

2021-07-14

Peptides

Peroxiredoxin-1: ACDEFGHIJK
Sulfiredoxin-1: BLMNOPQRST

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

D
C

E
D

F
E

G
F

H
G

I
H

J
I

K
J

B
a

L
b

M
c

N
d

O
e

P
f

Q
g

R
h

S
i

T
j

Peroxiredoxin-1

Sulfiredoxin-1

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