SMTL ID : 3stj.5 (4 other biounits)

Crystal structure of the protease + PDZ1 domain of DegQ from Escherichia coli

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-12-mer

Ligands

13 x UNK- UNK- UNK- UNK- UNK: peptide (UNK)(Non-covalent)

UNK-UNK-UNK-UNK-UNK.1: 13 residues within 4Å: Chain A: L.241, L.242, I.244, K.245, G.246, T.247, S.268, F.298, R.302, I.305 Chain J: D.252 Chain L: R.30, E.99 7 PLIP interactions: 2 interactions with chain J, 5 interactions with chain A Hydrogen bonds: J:D.252, J:D.252, A:L.242, A:I.244, A:G.246 Hydrophobic interactions: A:F.298, A:F.298 UNK-UNK-UNK-UNK-UNK.2: 13 residues within 4Å: Chain B: L.241, L.242, G.243, I.244, K.245, G.246, T.247, F.298, I.305 Chain E: R.30, K.89, E.99 Chain F: D.252 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain E Hydrophobic interactions: B:F.298, B:F.298, B:I.305 Hydrogen bonds: B:L.242, B:I.244, B:G.246, E:K.89, E:E.99 UNK-UNK-UNK-UNK-UNK.3: 13 residues within 4Å: Chain C: L.241, L.242, I.244, K.245, G.246, S.268, F.298, R.302, I.305 Chain G: R.30, K.89, E.99 Chain H: D.252 9 PLIP interactions: 1 interactions with chain H, 5 interactions with chain C, 3 interactions with chain G Hydrogen bonds: H:D.252, C:L.242, C:I.244, C:G.246, G:R.30, G:K.89, G:K.89 Hydrophobic interactions: C:F.298, C:F.298 UNK-UNK-UNK-UNK-UNK.4: 15 residues within 4Å: Chain D: L.241, L.242, G.243, I.244, K.245, G.246, T.247, F.298, L.301, R.302, I.305 Chain K: R.30, K.89, E.99 Chain L: D.252 12 PLIP interactions: 8 interactions with chain D, 1 interactions with chain L, 3 interactions with chain K Hydrophobic interactions: D:F.298, D:F.298, D:L.301 Hydrogen bonds: D:L.242, D:I.244, D:G.246, D:G.246, D:G.246, L:D.252, K:K.89, K:K.89, K:E.99 UNK-UNK-UNK-UNK-UNK.5: 13 residues within 4Å: Chain E: L.241, L.242, G.243, I.244, K.245, G.246, S.268, F.298, R.302, I.305 Chain H: R.30, E.99 Chain I: D.252 10 PLIP interactions: 6 interactions with chain E, 3 interactions with chain H, 1 interactions with chain I Hydrophobic interactions: E:F.298, E:F.298 Hydrogen bonds: E:L.242, E:I.244, E:G.246, E:G.246, H:R.30, H:K.89, H:K.89, I:D.252 UNK-UNK-UNK-UNK-UNK.6: 13 residues within 4Å: Chain A: R.30, E.99 Chain B: D.252 Chain F: L.241, L.242, I.244, K.245, G.246, T.247, S.268, F.298, R.302, I.305 7 PLIP interactions: 5 interactions with chain F, 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: F:F.298, F:F.298 Hydrogen bonds: F:L.242, F:I.244, F:G.246, A:R.30, B:D.252 UNK-UNK-UNK-UNK-UNK.7: 11 residues within 4Å: Chain G: L.241, L.242, I.244, K.245, G.246, S.268, F.298, I.305 Chain J: R.30, E.99 Chain K: D.252 6 PLIP interactions: 5 interactions with chain G, 1 interactions with chain K Hydrophobic interactions: G:F.298, G:F.298 Hydrogen bonds: G:L.242, G:I.244, G:G.246, K:D.252 UNK-UNK-UNK-UNK-UNK.8: 13 residues within 4Å: Chain B: R.30, E.99 Chain C: D.252 Chain H: L.241, L.242, I.244, K.245, G.246, T.247, S.268, F.298, R.302, I.305 6 PLIP interactions: 5 interactions with chain H, 1 interactions with chain C Hydrophobic interactions: H:F.298, H:F.298 Hydrogen bonds: H:L.242, H:I.244, H:G.246, C:D.252 UNK-UNK-UNK-UNK-UNK.9: 13 residues within 4Å: Chain D: R.30, K.89 Chain E: D.252 Chain I: L.241, L.242, G.243, I.244, K.245, G.246, T.247, F.298, R.302, I.305 10 PLIP interactions: 1 interactions with chain E, 7 interactions with chain I, 2 interactions with chain D Hydrogen bonds: E:D.252, I:L.242, I:G.243, I:I.244, I:G.246, D:K.89, D:K.89 Hydrophobic interactions: I:I.244, I:F.298, I:F.298 UNK-UNK-UNK-UNK-UNK.10: 13 residues within 4Å: Chain A: D.252 Chain C: R.30, K.89 Chain J: L.241, L.242, G.243, I.244, K.245, G.246, S.268, F.298, R.302, I.305 9 PLIP interactions: 5 interactions with chain J, 3 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: J:F.298, J:F.298 Hydrogen bonds: J:L.242, J:I.244, J:G.246, C:R.30, C:K.89, C:K.89, A:D.252 UNK-UNK-UNK-UNK-UNK.11: 13 residues within 4Å: Chain G: D.252 Chain I: R.30, E.99 Chain K: L.241, L.242, G.243, I.244, K.245, G.246, T.247, S.268, F.298, I.305 6 PLIP interactions: 5 interactions with chain K, 1 interactions with chain G Hydrophobic interactions: K:F.298, K:F.298 Hydrogen bonds: K:L.242, K:I.244, K:G.246, G:D.252 UNK-UNK-UNK-UNK-UNK.12: 11 residues within 4Å: Chain D: D.252 Chain F: R.30, E.99 Chain L: L.241, L.242, I.244, K.245, G.246, F.298, R.302, I.305 5 PLIP interactions: 5 interactions with chain L Hydrophobic interactions: L:F.298, L:F.298 Hydrogen bonds: L:L.242, L:I.244, L:G.246 UNK-UNK-UNK-UNK-UNK.13: 14 residues within 4Å: Chain J: H.82, L.169, N.183, R.184, G.185, N.186, S.187, T.203, A.204, I.205, L.206, A.207, P.208 Chain L: F.148 9 PLIP interactions: 9 interactions with chain J Hydrophobic interactions: J:L.169, J:P.208 Hydrogen bonds: J:G.185, J:N.186, J:S.187, J:T.203, J:I.205, J:I.205, J:A.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sawa, J. et al., Molecular adaptation of the DegQ protease to exert protein quality control in the bacterial cell envelope. J.Biol.Chem. (2011)

Release Date

2011-07-27

Peptides

Protease degQ: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

D
J

E
K

F
L

G
G

H
H

I
I

J
A

K
B

L
C

Protease degQ

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