4z1l.1 | SWISS-MODEL Template Library

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SMTL ID : 4z1l.1

Yeast 20S proteasome in complex with belactosin C derivative 3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

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

Ligands

8 x MG: MAGNESIUM ION(Non-covalent)

MG.1:	5 residues within 4Å: Chain G: T.17, Y.128, R.131, A.132, 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.4:	5 residues within 4Å: Chain I: A.175, D.176, D.178, S.181, D.205 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:A.175, I:D.178, I:S.181
MG.5:	7 residues within 4Å: Chain I: D.205 Chain Y: R.19, A.165, H.166, D.168, A.169, S.171 4 PLIP interactions: 3 interactions with chain Y, 1 interactions with chain I Metal complexes: Y:A.165, Y:D.168, Y:S.171, I:D.205
MG.7:	6 residues within 4Å: Chain K: A.165, H.166, D.168, A.169, S.171 Chain W: D.205 3 PLIP interactions: 2 interactions with chain K, 1 interactions with chain W Metal complexes: K:A.165, K:D.168, W:D.205
MG.8:	7 residues within 4Å: Chain L: D.222 Chain V: R.19, G.162, I.163, D.166, L.167, S.169 4 PLIP interactions: 3 interactions with chain V, 1 interactions with chain L Metal complexes: V:I.163, V:D.166, V:S.169, L:D.222
MG.10:	5 residues within 4Å: Chain 0: L.47 Chain N: R.19, I.163, D.166, S.169 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:I.163, N:S.169
MG.14:	4 residues within 4Å: Chain W: A.175, D.178, S.181, D.205 3 PLIP interactions: 3 interactions with chain W Metal complexes: W:A.175, W:D.178, W:S.181
MG.16:	5 residues within 4Å: Chain Z: R.28, T.192, H.195, I.196, V.198 3 PLIP interactions: 3 interactions with chain Z Metal complexes: Z:T.192, Z:H.195, Z:V.198

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

CL.2:	3 residues within 4Å: Chain G: R.120, N.123 Chain H: Y.69 Ligand excluded by PLIP
CL.11:	4 residues within 4Å: Chain N: T.31, R.45, A.49, Q.53 Ligand excluded by PLIP
CL.12:	3 residues within 4Å: Chain U: R.120, N.123 Chain V: Y.69 Ligand excluded by PLIP
CL.18:	3 residues within 4Å: Chain 1: T.31, R.45, Q.53 Ligand excluded by PLIP

6 x 4KF: (2S,3S)-2-{(1R)-2-[(3,5-dimethoxybenzyl)amino]-1-hydroxy-2-oxoethyl}-3-methylpentanoic acid(Covalent)

4KF.3:	11 residues within 4Å: Chain H: T.1, R.19, S.20, K.33, G.45, A.46, G.47, A.49, G.128, S.129, G.168 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:T.1, H:T.1, H:K.33, H:G.47, H:S.129, H:G.168
4KF.6:	8 residues within 4Å: Chain K: T.1, R.19, K.33, M.45, A.46, G.47, G.130, S.131 6 PLIP interactions: 6 interactions with chain K Hydrophobic interactions: K:M.45 Hydrogen bonds: K:T.1, K:T.1, K:K.33, K:G.47, K:S.131
4KF.9:	11 residues within 4Å: Chain N: T.1, R.19, T.20, K.33, R.45, S.46, G.47, A.49, T.52, G.128, S.129 7 PLIP interactions: 7 interactions with chain N Hydrophobic interactions: N:T.20 Hydrogen bonds: N:T.1, N:T.1, N:K.33, N:G.47, N:S.129, N:S.168
4KF.13:	12 residues within 4Å: Chain L: Y.33 Chain V: T.1, R.19, S.20, K.33, G.45, A.46, G.47, A.49, G.128, S.129, G.168 7 PLIP interactions: 7 interactions with chain V Hydrophobic interactions: V:K.33 Hydrogen bonds: V:T.1, V:T.1, V:K.33, V:G.47, V:S.129, V:G.168
4KF.15:	9 residues within 4Å: Chain Y: T.1, R.19, A.20, K.33, M.45, A.46, G.47, G.130, S.131 8 PLIP interactions: 8 interactions with chain Y Hydrophobic interactions: Y:A.20, Y:M.45 Hydrogen bonds: Y:T.1, Y:T.1, Y:K.33, Y:G.47, Y:S.131, Y:Y.170
4KF.17:	10 residues within 4Å: Chain 1: T.1, R.19, T.20, K.33, R.45, S.46, G.47, G.128, S.129, S.168 7 PLIP interactions: 7 interactions with chain 1 Hydrophobic interactions: 1:T.20 Hydrogen bonds: 1:T.1, 1:T.1, 1:K.33, 1:G.47, 1:S.129, 1:S.168

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Groll, M. et al., A Minimal beta-Lactone Fragment for Selective beta 5c or beta 5i Proteasome Inhibitors. Angew.Chem.Int.Ed.Engl. (2015)

Release Date

2015-05-27

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

Proteasome subunit beta type-1

Toggle Identical (N1)

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