SMTL ID : 3cs0.1

Crystal structure of DegP24

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-24-mer

Ligands

24 x UNK- UNK- UNK- UNK- UNK: pentapeptide(Non-covalent)

UNK-UNK-UNK-UNK-UNK.1: 9 residues within 4Å: Chain A: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.321, A:F.321, A:R.325 Hydrogen bonds: A:L.265, A:G.266, A:I.267, A:I.267, A:G.269, A:G.269, A:R.325 UNK-UNK-UNK-UNK-UNK.2: 9 residues within 4Å: Chain B: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.321, B:F.321, B:R.325 Hydrogen bonds: B:L.265, B:G.266, B:I.267, B:I.267, B:G.269, B:G.269, B:R.325 UNK-UNK-UNK-UNK-UNK.3: 9 residues within 4Å: Chain C: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:F.321, C:F.321, C:R.325 Hydrogen bonds: C:L.265, C:G.266, C:I.267, C:I.267, C:G.269, C:G.269, C:R.325 UNK-UNK-UNK-UNK-UNK.4: 9 residues within 4Å: Chain D: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:F.321, D:F.321, D:R.325 Hydrogen bonds: D:L.265, D:G.266, D:I.267, D:I.267, D:G.269, D:G.269, D:R.325 UNK-UNK-UNK-UNK-UNK.5: 9 residues within 4Å: Chain E: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:F.321, E:F.321, E:R.325 Hydrogen bonds: E:L.265, E:G.266, E:I.267, E:I.267, E:G.269, E:G.269, E:R.325 UNK-UNK-UNK-UNK-UNK.6: 9 residues within 4Å: Chain F: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:F.321, F:F.321, F:R.325 Hydrogen bonds: F:L.265, F:G.266, F:I.267, F:I.267, F:G.269, F:G.269, F:R.325 UNK-UNK-UNK-UNK-UNK.7: 9 residues within 4Å: Chain G: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:F.321, G:F.321, G:R.325 Hydrogen bonds: G:L.265, G:G.266, G:I.267, G:I.267, G:G.269, G:G.269, G:R.325 UNK-UNK-UNK-UNK-UNK.8: 9 residues within 4Å: Chain H: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain H Hydrophobic interactions: H:F.321, H:F.321, H:R.325 Hydrogen bonds: H:L.265, H:G.266, H:I.267, H:I.267, H:G.269, H:G.269, H:R.325 UNK-UNK-UNK-UNK-UNK.9: 9 residues within 4Å: Chain I: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain I Hydrophobic interactions: I:F.321, I:F.321, I:R.325 Hydrogen bonds: I:L.265, I:G.266, I:I.267, I:I.267, I:G.269, I:G.269, I:R.325 UNK-UNK-UNK-UNK-UNK.10: 9 residues within 4Å: Chain J: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain J Hydrophobic interactions: J:F.321, J:F.321, J:R.325 Hydrogen bonds: J:L.265, J:G.266, J:I.267, J:I.267, J:G.269, J:G.269, J:R.325 UNK-UNK-UNK-UNK-UNK.11: 9 residues within 4Å: Chain K: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain K Hydrophobic interactions: K:F.321, K:F.321, K:R.325 Hydrogen bonds: K:L.265, K:G.266, K:I.267, K:I.267, K:G.269, K:G.269, K:R.325 UNK-UNK-UNK-UNK-UNK.12: 9 residues within 4Å: Chain L: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain L Hydrophobic interactions: L:F.321, L:F.321, L:R.325 Hydrogen bonds: L:L.265, L:G.266, L:I.267, L:I.267, L:G.269, L:G.269, L:R.325 UNK-UNK-UNK-UNK-UNK.13: 9 residues within 4Å: Chain M: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain M Hydrophobic interactions: M:F.321, M:F.321, M:R.325 Hydrogen bonds: M:L.265, M:G.266, M:I.267, M:I.267, M:G.269, M:G.269, M:R.325 UNK-UNK-UNK-UNK-UNK.14: 9 residues within 4Å: Chain N: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain N Hydrophobic interactions: N:F.321, N:F.321, N:R.325 Hydrogen bonds: N:L.265, N:G.266, N:I.267, N:I.267, N:G.269, N:G.269, N:R.325 UNK-UNK-UNK-UNK-UNK.15: 9 residues within 4Å: Chain O: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain O Hydrophobic interactions: O:F.321, O:F.321, O:R.325 Hydrogen bonds: O:L.265, O:G.266, O:I.267, O:I.267, O:G.269, O:G.269, O:R.325 UNK-UNK-UNK-UNK-UNK.16: 9 residues within 4Å: Chain P: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain P Hydrophobic interactions: P:F.321, P:F.321, P:R.325 Hydrogen bonds: P:L.265, P:G.266, P:I.267, P:I.267, P:G.269, P:G.269, P:R.325 UNK-UNK-UNK-UNK-UNK.17: 9 residues within 4Å: Chain Q: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain Q Hydrophobic interactions: Q:F.321, Q:F.321, Q:R.325 Hydrogen bonds: Q:L.265, Q:G.266, Q:I.267, Q:I.267, Q:G.269, Q:G.269, Q:R.325 UNK-UNK-UNK-UNK-UNK.18: 9 residues within 4Å: Chain R: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain R Hydrophobic interactions: R:F.321, R:F.321, R:R.325 Hydrogen bonds: R:L.265, R:G.266, R:I.267, R:I.267, R:G.269, R:G.269, R:R.325 UNK-UNK-UNK-UNK-UNK.19: 9 residues within 4Å: Chain S: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain S Hydrophobic interactions: S:F.321, S:F.321, S:R.325 Hydrogen bonds: S:L.265, S:G.266, S:I.267, S:I.267, S:G.269, S:G.269, S:R.325 UNK-UNK-UNK-UNK-UNK.20: 9 residues within 4Å: Chain T: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain T Hydrophobic interactions: T:F.321, T:F.321, T:R.325 Hydrogen bonds: T:L.265, T:G.266, T:I.267, T:I.267, T:G.269, T:G.269, T:R.325 UNK-UNK-UNK-UNK-UNK.21: 9 residues within 4Å: Chain U: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain U Hydrophobic interactions: U:F.321, U:F.321, U:R.325 Hydrogen bonds: U:L.265, U:G.266, U:I.267, U:I.267, U:G.269, U:G.269, U:R.325 UNK-UNK-UNK-UNK-UNK.22: 9 residues within 4Å: Chain V: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain V Hydrophobic interactions: V:F.321, V:F.321, V:R.325 Hydrogen bonds: V:L.265, V:G.266, V:I.267, V:I.267, V:G.269, V:G.269, V:R.325 UNK-UNK-UNK-UNK-UNK.23: 9 residues within 4Å: Chain W: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain W Hydrophobic interactions: W:F.321, W:F.321, W:R.325 Hydrogen bonds: W:L.265, W:G.266, W:I.267, W:I.267, W:G.269, W:G.269, W:R.325 UNK-UNK-UNK-UNK-UNK.24: 9 residues within 4Å: Chain X: E.264, L.265, G.266, I.267, M.268, G.269, F.321, R.325, V.328 10 PLIP interactions: 10 interactions with chain X Hydrophobic interactions: X:F.321, X:F.321, X:R.325 Hydrogen bonds: X:L.265, X:G.266, X:I.267, X:I.267, X:G.269, X:G.269, X:R.325

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krojer, T. et al., Structural basis for the regulated protease and chaperone function of DegP. Nature (2008)

Release Date

2008-05-27

Peptides

Periplasmic serine endoprotease DegP: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

K
A

L
A

M
A

N
A

O
A

P
A

Q
A

R
A

S
A

T
A

U
A

V
A

W
A

X
A

Periplasmic serine endoprotease DegP

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