4rur.1 | SWISS-MODEL Template Library

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SMTL ID : 4rur.1

Yeast 20S proteasome in complex with the alkaloid indolo-phakellin (4)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

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

Ligands

9 x MG: MAGNESIUM ION(Non-covalent)

MG.1:	4 residues within 4Å: Chain G: T.17, Y.128, R.131, M.134 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:T.17, G:Y.128, G:R.131, G:M.134
MG.2:	4 residues within 4Å: Chain I: A.175, D.176, D.178, S.181 4 PLIP interactions: 3 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:A.175, I:D.178, I:S.181, H₂O.11
MG.3:	6 residues within 4Å: Chain K: R.19, A.165, D.168, A.169, S.171 Chain W: D.205 4 PLIP interactions: 3 interactions with chain K, 1 interactions with chain W Metal complexes: K:A.165, K:D.168, K:S.171, W:D.205
MG.5:	6 residues within 4Å: Chain 0: L.47 Chain N: R.19, I.163, D.166, G.167, S.169 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:I.163, N:D.166, N:S.169
MG.6:	3 residues within 4Å: Chain H: Q.91 Chain N: D.51, N.92 2 PLIP interactions: 1 interactions with chain N, 1 Ligand-Water interactions Metal complexes: N:D.51, H₂O.19
MG.7:	7 residues within 4Å: Chain L: D.222 Chain V: R.19, G.162, I.163, D.166, L.167, S.169 5 PLIP interactions: 3 interactions with chain V, 1 interactions with chain L, 1 Ligand-Water interactions Metal complexes: V:I.163, V:D.166, V:S.169, L:D.222, H₂O.28
MG.8:	4 residues within 4Å: Chain W: A.175, D.176, D.178, S.181 5 PLIP interactions: 3 interactions with chain W, 2 Ligand-Water interactions Metal complexes: W:A.175, W:D.178, W:S.181, H₂O.28, H₂O.29
MG.9:	6 residues within 4Å: Chain I: D.205 Chain Y: R.19, A.165, D.168, A.169, S.171 5 PLIP interactions: 3 interactions with chain Y, 1 interactions with chain I, 1 Ligand-Water interactions Metal complexes: Y:A.165, Y:D.168, Y:S.171, I:D.205, H₂O.32
MG.11:	4 residues within 4Å: Chain H: R.19 Chain Z: T.192, H.195, V.198 1 PLIP interactions: 1 interactions with chain Z Metal complexes: Z:T.192

2 x 3WE: (2E,3aR,14aS)-9-bromo-2-imino-1,2,3,5,6,14a-hexahydro-4H,8H-imidazo[4',5':5,6]pyrrolo[1',2':4,5]pyrazino[1,2-a]indol-8-one(Non-covalent)

3WE.4:	14 residues within 4Å: Chain K: A.20, T.21, A.27, V.31, A.49 Chain L: H.108, S.124, F.125, D.126, S.130, Y.131, E.132, E.134, R.137 7 PLIP interactions: 6 interactions with chain L, 1 interactions with chain K Hydrophobic interactions: L:E.132 Hydrogen bonds: L:S.124, L:S.124, L:R.137 Salt bridges: L:E.134 pi-Stacking: L:H.108 Halogen bonds: K:T.21
3WE.10:	13 residues within 4Å: Chain Y: A.20, T.21, A.27, V.31 Chain Z: H.108, S.124, F.125, D.126, S.130, Y.131, E.132, E.134, R.137 7 PLIP interactions: 6 interactions with chain Z, 1 interactions with chain Y Hydrophobic interactions: Z:E.132 Hydrogen bonds: Z:S.124, Z:S.124, Z:R.137 Salt bridges: Z:E.134 pi-Stacking: Z:H.108 Halogen bonds: Y:T.21

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Beck, P. et al., Indolo-Phakellins as beta 5-Specific Noncovalent Proteasome Inhibitors. Angew.Chem.Int.Ed.Engl. (2015)

Release Date

2014-12-10

Peptides

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

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Proteasome subunit alpha type-2

Toggle Identical (AO)

Proteasome subunit alpha type-3

Toggle Identical (BP)

Proteasome subunit alpha type-4

Toggle Identical (CQ)

Proteasome subunit alpha type-5

Toggle Identical (DR)

Proteasome subunit alpha type-6

Toggle Identical (ES)

Probable proteasome subunit alpha type-7

Toggle Identical (FT)

Proteasome subunit alpha type-1

Toggle Identical (GU)

Proteasome subunit beta type-2

Toggle Identical (HV)

Proteasome subunit beta type-3

Toggle Identical (IW)

Proteasome subunit beta type-4

Toggle Identical (JX)

Proteasome subunit beta type-5

Toggle Identical (KY)

Proteasome subunit beta type-6

Toggle Identical (LZ)

Proteasome subunit beta type-7

Toggle Identical (M0)

Proteasome subunit beta type-1

Toggle Identical (N1)

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Background

Transparent

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