SMTL ID : 4ryf.1

ClpP1/2 heterocomplex from Listeria monocytogenes

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-7-7-mer

Ligands

14 x NA: SODIUM ION(Non-functional Binders)

NA.1: 3 residues within 4Å: Chain A: K.75, I.77 Chain B: N.185 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.78, B:N.185 NA.2: 3 residues within 4Å: Chain B: K.75, I.77 Chain C: N.185 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.185, B:I.77 NA.3: 4 residues within 4Å: Chain C: I.74, I.77, P.79, V.81 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:P.79, C:V.81 NA.4: 3 residues within 4Å: Chain D: I.74, I.77, P.79 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.75 NA.5: 5 residues within 4Å: Chain E: I.74, K.75, I.77, K.78, P.79 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:I.77 NA.6: 4 residues within 4Å: Chain F: I.74, K.75, I.77, K.78 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:K.78 NA.7: 4 residues within 4Å: Chain G: I.74, K.75, I.77, P.79 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:I.74 NA.9: 3 residues within 4Å: Chain H: M.81, V.84, A.86 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:M.81 NA.11: 3 residues within 4Å: Chain I: M.81, V.84, A.86 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:M.81 NA.13: 4 residues within 4Å: Chain J: M.81, N.82, V.84, A.86 1 PLIP interactions: 1 interactions with chain J Hydrogen bonds: J:M.81 NA.15: 3 residues within 4Å: Chain K: M.81, V.84, A.86 1 PLIP interactions: 1 interactions with chain K Hydrogen bonds: K:M.81 NA.17: 3 residues within 4Å: Chain L: M.81, V.84, A.86 1 PLIP interactions: 1 interactions with chain L Hydrogen bonds: L:V.84 NA.19: 3 residues within 4Å: Chain M: M.81, V.84, A.86 1 PLIP interactions: 1 interactions with chain M Hydrogen bonds: M:M.81 NA.21: 3 residues within 4Å: Chain N: M.81, V.84, A.86 1 PLIP interactions: 1 interactions with chain N Hydrogen bonds: N:A.86

7 x MLI: MALONATE ION(Non-functional Binders)

MLI.8: 5 residues within 4Å: Chain H: I.71, S.98, M.99, H.123, M.150 4 PLIP interactions: 4 interactions with chain H Hydrogen bonds: H:S.98, H:H.123, H:H.123, H:H.123 MLI.10: 8 residues within 4Å: Chain I: S.98, S.101, F.102, I.122, H.123, P.125, M.150, M.154 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:H.123 MLI.12: 6 residues within 4Å: Chain J: S.98, S.101, I.122, H.123, P.125, M.154 2 PLIP interactions: 2 interactions with chain J Hydrogen bonds: J:H.123, J:H.123 MLI.14: 9 residues within 4Å: Chain K: S.98, M.99, S.101, F.102, I.122, H.123, P.125, M.150, M.154 2 PLIP interactions: 2 interactions with chain K Hydrogen bonds: K:H.123, K:H.123 MLI.16: 7 residues within 4Å: Chain L: S.98, M.99, S.101, I.122, H.123, P.125, M.154 4 PLIP interactions: 4 interactions with chain L Hydrogen bonds: L:S.98, L:H.123 Water bridges: L:H.123, L:T.169 MLI.18: 6 residues within 4Å: Chain M: S.98, S.101, F.102, H.123, P.125, M.154 1 PLIP interactions: 1 interactions with chain M Hydrogen bonds: M:H.123 MLI.20: 10 residues within 4Å: Chain N: S.98, M.99, S.101, F.102, I.122, H.123, Q.124, P.125, M.150, M.154 4 PLIP interactions: 4 interactions with chain N Hydrogen bonds: N:F.102, N:H.123, N:H.123, N:H.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dahmen, M. et al., Structure and mechanism of the caseinolytic protease ClpP1/2 heterocomplex from Listeria monocytogenes. Angew.Chem.Int.Ed.Engl. (2015)

Release Date

2014-12-31

Peptides

ATP-dependent Clp protease proteolytic subunit: ABCDEFG
ATP-dependent Clp protease proteolytic subunit: HIJKLMN

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

M
M

N
N

ATP-dependent Clp protease proteolytic subunit

ATP-dependent Clp protease proteolytic subunit

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