SMTL ID : 3unf.1

Mouse 20S immunoproteasome in complex with PR-957

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-2-2-2-2-2-2-2-2-2-2-2-2-2-2-mer

Ligands

41 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 1 residues within 4Å: Chain A: R.220 Ligand excluded by PLIP CL.2: 3 residues within 4Å: Chain A: S.7, F.8 Chain C: R.5 Ligand excluded by PLIP CL.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain D: T.161 Chain E: G.76, L.77, T.78 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain E: V.29, K.30, I.161, G.162 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain H: I.82, T.86 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain I: R.70 Ligand excluded by PLIP CL.13: 1 residues within 4Å: Chain J: N.63 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain L: I.67, R.71 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain K: A.22 Chain L: D.125 Ligands: 04C.14 Ligand excluded by PLIP CL.20: 2 residues within 4Å: Chain L: D.39 Chain M: E.133 Ligand excluded by PLIP CL.21: 3 residues within 4Å: Chain 1: N.28 Chain M: R.179 Chain V: L.122 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain M: G.55, T.109 Ligand excluded by PLIP CL.23: 2 residues within 4Å: Chain M: S.40 Chain N: I.120 Ligand excluded by PLIP CL.27: 1 residues within 4Å: Chain N: F.124 Ligand excluded by PLIP CL.28: 2 residues within 4Å: Chain O: P.67, R.220 Ligand excluded by PLIP CL.29: 1 residues within 4Å: Chain O: R.113 Ligand excluded by PLIP CL.30: 3 residues within 4Å: Chain O: S.152 Chain P: I.79, T.80 Ligand excluded by PLIP CL.31: 1 residues within 4Å: Chain O: S.7 Ligand excluded by PLIP CL.32: 3 residues within 4Å: Chain Q: I.161, G.162, A.165 Ligand excluded by PLIP CL.33: 1 residues within 4Å: Chain Q: R.117 Ligand excluded by PLIP CL.34: 1 residues within 4Å: Chain Q: Y.3 Ligand excluded by PLIP CL.35: 3 residues within 4Å: Chain R: T.161 Chain S: L.77, T.78 Ligand excluded by PLIP CL.36: 3 residues within 4Å: Chain R: I.31, A.140, I.170 Ligand excluded by PLIP CL.37: 2 residues within 4Å: Chain R: V.24 Chain S: L.77 Ligand excluded by PLIP CL.38: 4 residues within 4Å: Chain S: V.29, K.30, I.161, G.162 Ligand excluded by PLIP CL.39: 1 residues within 4Å: Chain S: E.23 Ligand excluded by PLIP CL.41: 3 residues within 4Å: Chain O: G.80, R.84 Chain U: Y.159 Ligand excluded by PLIP CL.44: 3 residues within 4Å: Chain V: T.80, R.81, Y.119 Ligand excluded by PLIP CL.45: 4 residues within 4Å: Chain V: T.55, A.59, I.82, T.86 Ligand excluded by PLIP CL.46: 2 residues within 4Å: Chain 1: D.93 Chain V: Q.91 Ligand excluded by PLIP CL.47: 3 residues within 4Å: Chain V: H.114, S.118, S.120 Ligand excluded by PLIP CL.48: 2 residues within 4Å: Chain W: R.66, R.70 Ligand excluded by PLIP CL.49: 1 residues within 4Å: Chain X: N.63 Ligand excluded by PLIP CL.50: 3 residues within 4Å: Chain X: N.63, L.66, Y.67 Ligand excluded by PLIP CL.51: 1 residues within 4Å: Ligands: K.52 Ligand excluded by PLIP CL.55: 2 residues within 4Å: Chain Z: T.167, L.168 Ligand excluded by PLIP CL.59: 2 residues within 4Å: Chain 0: E.133 Chain Z: D.39 Ligand excluded by PLIP CL.60: 2 residues within 4Å: Chain 0: G.55, T.109 Ligand excluded by PLIP CL.61: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.62: 2 residues within 4Å: Chain 0: S.40 Chain 1: I.120 Ligand excluded by PLIP

13 x K: POTASSIUM ION(Non-covalent)(Non-functional Binders)

K.4: 1 residues within 4Å: Chain B: H.142 No protein-ligand interaction detected (PLIP) K.7: 2 residues within 4Å: Chain G: Y.159, Y.160 No protein-ligand interaction detected (PLIP) K.12: 6 residues within 4Å: Chain B: L.99, Q.100 Chain I: Q.65 Chain J: N.82, R.85, R.86 No protein-ligand interaction detected (PLIP) K.16: 4 residues within 4Å: Chain K: N.38, C.63, R.64, Y.67 1 PLIP interactions: 1 interactions with chain K Metal complexes: K:C.63 K.19: 4 residues within 4Å: Chain L: R.211, D.213 Chain V: K.29, G.171 No protein-ligand interaction detected (PLIP) K.24: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.40: 4 residues within 4Å: Chain R: N.13 Chain S: N.8, D.9, R.125 No protein-ligand interaction detected (PLIP) K.52: 1 residues within 4Å: Ligands: CL.51 No protein-ligand interaction detected (PLIP) K.56: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.57: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.58: 1 residues within 4Å: Chain Z: S.93 2 PLIP interactions: 1 interactions with chain Z, 1 Ligand-Water interactions Metal complexes: Z:S.93, H2O.34 K.63: 5 residues within 4Å: Chain 0: D.25, M.173, L.176, S.183, Y.184 No protein-ligand interaction detected (PLIP) K.66: 5 residues within 4Å: Chain 1: R.19, D.166, S.169 Chain M: A.181, S.183 No protein-ligand interaction detected (PLIP)

6 x 04C: 1,2,4-trideoxy-4-methyl-2-{[N-(morpholin-4-ylacetyl)-L-alanyl-O-methyl-L-tyrosyl]amino}-1-phenyl-D-xylitol(Covalent)

04C.8: 18 residues within 4Å: Chain H: T.1, R.19, A.20, T.21, N.22, C.31, K.33, G.45, G.47, V.48, A.49, T.52, E.53, S.129, G.168 Chain I: D.125, I.127 Ligands: IOD.9 14 PLIP interactions: 12 interactions with chain H, 2 interactions with chain I Hydrophobic interactions: H:T.21, H:K.33, H:V.48, H:A.49 Hydrogen bonds: H:T.21, H:T.21, H:G.47, H:G.47, H:G.47, H:A.49, H:S.129, I:D.125 Water bridges: H:D.23 Salt bridges: I:D.125 04C.14: 15 residues within 4Å: Chain K: T.1, R.19, A.20, T.21, M.31, K.33, M.45, G.47, C.48, A.49, S.96, Y.169 Chain L: D.125 Ligands: IOD.15, CL.18 12 PLIP interactions: 10 interactions with chain K, 2 interactions with chain L Hydrophobic interactions: K:M.45, K:A.49 Hydrogen bonds: K:T.1, K:T.21, K:T.21, K:T.21, K:G.47, K:G.47, K:G.47, K:A.49, L:D.125, L:D.125 04C.25: 17 residues within 4Å: Chain H: H.116, S.118 Chain N: T.1, R.19, V.20, S.21, A.22, F.31, K.33, L.45, S.46, G.47, S.48, A.49, L.95, S.168 Ligands: IOD.26 12 PLIP interactions: 11 interactions with chain N, 1 interactions with chain H Hydrophobic interactions: N:V.20, N:F.31, N:L.45, N:L.45, N:A.49 Hydrogen bonds: N:S.21, N:S.21, N:S.21, N:G.47, N:G.47, N:A.49 Water bridges: H:S.118 04C.42: 19 residues within 4Å: Chain V: T.1, R.19, A.20, T.21, N.22, C.31, K.33, G.45, A.46, G.47, V.48, A.49, T.52, E.53, S.129, G.168 Chain W: D.125, I.127 Ligands: IOD.43 13 PLIP interactions: 11 interactions with chain V, 2 interactions with chain W Hydrophobic interactions: V:A.20, V:T.21, V:V.48, V:A.49 Hydrogen bonds: V:T.21, V:T.21, V:G.47, V:G.47, V:G.47, V:A.49, V:S.129, W:D.125 Salt bridges: W:D.125 04C.53: 14 residues within 4Å: Chain Y: T.1, R.19, A.20, T.21, M.31, K.33, M.45, G.47, C.48, A.49, Y.169 Chain Z: D.125, P.126 Ligands: IOD.54 9 PLIP interactions: 1 interactions with chain Z, 8 interactions with chain Y Hydrogen bonds: Z:D.125, Y:T.21, Y:T.21, Y:G.47, Y:G.47, Y:G.47, Y:A.49 Hydrophobic interactions: Y:M.45, Y:A.49 04C.64: 17 residues within 4Å: Chain 1: T.1, R.19, V.20, S.21, F.31, K.33, L.45, S.46, G.47, S.48, A.49, A.52, L.95, S.168 Chain V: H.116, S.118 Ligands: IOD.65 12 PLIP interactions: 12 interactions with chain 1 Hydrophobic interactions: 1:V.20, 1:F.31, 1:L.45, 1:L.45, 1:A.49, 1:A.52 Hydrogen bonds: 1:S.21, 1:S.21, 1:S.21, 1:G.47, 1:G.47, 1:A.49

6 x IOD: IODIDE ION(Non-functional Binders)

IOD.9: 3 residues within 4Å: Chain H: G.47, S.129 Ligands: 04C.8 Ligand excluded by PLIP IOD.15: 3 residues within 4Å: Chain K: S.46, G.47 Ligands: 04C.14 Ligand excluded by PLIP IOD.26: 3 residues within 4Å: Chain N: G.47, S.129 Ligands: 04C.25 Ligand excluded by PLIP IOD.43: 3 residues within 4Å: Chain V: G.47, S.129 Ligands: 04C.42 Ligand excluded by PLIP IOD.54: 3 residues within 4Å: Chain Y: S.46, G.47 Ligands: 04C.53 Ligand excluded by PLIP IOD.65: 3 residues within 4Å: Chain 1: G.47, S.129 Ligands: 04C.64 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huber, E.M. et al., Immuno- and constitutive proteasome crystal structures reveal differences in substrate and inhibitor specificity. Cell(Cambridge,Mass.) (2012)

Release Date

2012-02-29

Peptides

Proteasome subunit alpha type-2: AO
Proteasome subunit alpha type-4: BP
Proteasome subunit alpha type-7: CQ
Proteasome subunit alpha type-5: DR
Proteasome subunit alpha type-1: ES
Proteasome subunit alpha type-3: FT
Proteasome subunit alpha type-6: GU
Proteasome subunit beta type-10: HV
Proteasome subunit beta type-3: IW
Proteasome subunit beta type-2: JX
Proteasome subunit beta type-8: KY
Proteasome subunit beta type-1: LZ
Proteasome subunit beta type-4: M0
Proteasome subunit beta type-9: N1

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

O
O

B
B

P
P

C
C

Q
Q

D
D

R
R

E
E

S
S

F
F

T
T

G
G

U
U

H
H

V
V

I
I

W
W

J
J

X
X

K
K

Y
Y

L
L

Z
Z

M
M

0
a

N
N

1
b

Proteasome subunit alpha type-2

Proteasome subunit alpha type-4

Proteasome subunit alpha type-7

Proteasome subunit alpha type-5

Proteasome subunit alpha type-1

Proteasome subunit alpha type-3

Proteasome subunit alpha type-6

Proteasome subunit beta type-10

Proteasome subunit beta type-3

Proteasome subunit beta type-2

Proteasome subunit beta type-8

Proteasome subunit beta type-1

Proteasome subunit beta type-4

Proteasome subunit beta type-9

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