SMTL ID : 2fhh.1

Crystal Structure of Mycobacterium Tuberculosis Proteasome in complex with a peptidyl boronate inhibitor MLN-273

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

hetero-14-14-mer

Ligands

14 x M1N: (1R)-3-METHYL-1-{[N-(MORPHOLIN-4-YLCARBONYL)-3-(1-NAPHTHYL)-D-ALANYL]AMINO}BUTYLBORONIC ACID(Covalent)

M1N.1: 14 residues within 4Å: Chain B: T.1, S.20, T.21, Q.22, S.27, V.31, K.33, A.46, G.47, T.48, A.49, A.50, A.52 Chain P: D.124 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:Q.22, B:V.31, B:K.33, B:T.48, B:A.49, B:A.52 Hydrogen bonds: B:T.1, B:T.21, B:T.21, B:G.47, B:G.47, B:G.47 M1N.2: 15 residues within 4Å: Chain B: D.124 Chain D: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.52 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:Q.22, D:V.31, D:I.45, D:T.48, D:A.49, D:A.52 Hydrogen bonds: D:T.21, D:T.21, D:K.33, D:I.45, D:G.47, D:G.47 M1N.3: 14 residues within 4Å: Chain F: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, A.46, G.47, T.48, A.49, A.52 Chain R: D.124 12 PLIP interactions: 11 interactions with chain F, 1 interactions with chain R Hydrophobic interactions: F:Q.22, F:V.31, F:T.48, F:A.49, F:A.52, R:D.124 Hydrogen bonds: F:T.1, F:T.21, F:T.21, F:G.47, F:G.47, F:G.47 M1N.4: 16 residues within 4Å: Chain H: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.52, S.141 Chain N: D.124 12 PLIP interactions: 12 interactions with chain H Hydrophobic interactions: H:Q.22, H:V.31, H:I.45, H:T.48, H:A.49, H:A.52 Hydrogen bonds: H:T.1, H:S.20, H:T.21, H:T.21, H:G.47, H:G.47 M1N.5: 13 residues within 4Å: Chain D: D.124 Chain J: T.1, S.20, T.21, Q.22, S.27, K.33, I.45, A.46, G.47, T.48, A.49, A.52 12 PLIP interactions: 12 interactions with chain J Hydrophobic interactions: J:Q.22, J:I.45, J:T.48, J:A.49, J:A.52 Hydrogen bonds: J:T.1, J:T.21, J:T.21, J:K.33, J:I.45, J:G.47, J:G.47 M1N.6: 15 residues within 4Å: Chain F: D.124 Chain L: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, A.46, G.47, T.48, A.49, A.50, A.52 11 PLIP interactions: 11 interactions with chain L Hydrophobic interactions: L:Q.22, L:V.31, L:T.48, L:A.49, L:A.52 Hydrogen bonds: L:T.1, L:T.21, L:T.21, L:G.47, L:G.47, L:S.141 M1N.7: 16 residues within 4Å: Chain L: D.124 Chain N: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.50, A.52 12 PLIP interactions: 12 interactions with chain N Hydrophobic interactions: N:Q.22, N:V.31, N:I.45, N:T.48, N:A.49, N:A.52 Hydrogen bonds: N:T.1, N:T.21, N:T.21, N:G.47, N:G.47, N:G.47 M1N.8: 14 residues within 4Å: Chain P: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, A.46, G.47, T.48, A.49, A.52 Chain V: D.124 9 PLIP interactions: 9 interactions with chain P Hydrophobic interactions: P:Q.22, P:V.31, P:A.49, P:A.52 Hydrogen bonds: P:T.21, P:T.21, P:G.47, P:G.47, P:G.47 M1N.9: 12 residues within 4Å: Chain R: T.1, S.20, T.21, Q.22, S.27, K.33, A.46, G.47, T.48, A.49, A.52 Chain Z: D.124 12 PLIP interactions: 12 interactions with chain R Hydrophobic interactions: R:Q.22, R:T.48, R:A.49, R:A.52 Hydrogen bonds: R:T.1, R:T.21, R:T.21, R:G.47, R:G.47 Water bridges: R:K.33, R:S.141, R:S.141 M1N.10: 16 residues within 4Å: Chain J: D.124 Chain T: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.52, S.141 11 PLIP interactions: 11 interactions with chain T Hydrophobic interactions: T:Q.22, T:V.31, T:I.45, T:T.48, T:A.49, T:A.52 Hydrogen bonds: T:T.1, T:T.21, T:T.21, T:G.47, T:G.47 M1N.11: 15 residues within 4Å: Chain 1: D.124 Chain V: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, A.46, G.47, T.48, A.49, A.50, A.52 11 PLIP interactions: 11 interactions with chain V Hydrophobic interactions: V:Q.22, V:V.31, V:T.48, V:A.49, V:A.52 Hydrogen bonds: V:T.21, V:T.21, V:K.33, V:G.47, V:G.47, V:G.47 M1N.12: 15 residues within 4Å: Chain H: D.124 Chain X: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.52 12 PLIP interactions: 12 interactions with chain X Hydrophobic interactions: X:Q.22, X:V.31, X:K.33, X:T.48, X:A.49, X:A.52 Hydrogen bonds: X:T.1, X:T.21, X:T.21, X:G.47, X:G.47, X:G.47 M1N.13: 14 residues within 4Å: Chain X: D.124 Chain Z: T.1, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.52 11 PLIP interactions: 11 interactions with chain Z Hydrophobic interactions: Z:Q.22, Z:V.31, Z:I.45, Z:T.48, Z:A.49, Z:A.52 Hydrogen bonds: Z:T.21, Z:T.21, Z:I.45, Z:G.47, Z:G.47 M1N.14: 15 residues within 4Å: Chain 1: T.1, R.19, S.20, T.21, Q.22, S.27, V.31, K.33, I.45, A.46, G.47, T.48, A.49, A.52 Chain T: D.124 14 PLIP interactions: 14 interactions with chain 1 Hydrophobic interactions: 1:Q.22, 1:V.31, 1:I.45, 1:T.48, 1:A.49, 1:A.52 Hydrogen bonds: 1:T.1, 1:S.20, 1:T.21, 1:T.21, 1:G.47, 1:G.47, 1:G.47 Water bridges: 1:S.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, G. et al., Structure of the Mycobacterium tuberculosis proteasome and mechanism of inhibition by a peptidyl boronate. Mol.Microbiol. (2006)

Release Date

2006-02-28

Peptides

20S proteasome, alpha and beta subunits: ACEGIKMOQSUWY0
proteasome, beta subunit: BDFHJLNPRTVXZ1

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
D

G
F

I
I

K
K

M
M

O
O

Q
Q

S
S

U
U

W
W

Y
Y

0
1

B
H

D
C

F
E

H
G

J
J

L
L

N
N

P
P

R
R

T
T

V
V

X
X

Z
Z

1
2

20S proteasome, alpha and beta subunits

proteasome, beta subunit

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