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SMTL ID : 1jd2.1

Crystal Structure of the yeast 20S Proteasome:TMC-95A complex: A non-covalent Proteasome Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-oligomer

Ligands

2 x 1QQ- TYR- ASN- R4K- AKK: TMC-95A inhibitor(Non-covalent)

1QQ-TYR-ASN-R4K-AKK.1:	16 residues within 4Å: Chain H: T.1, R.19, S.20, T.21, Q.22, G.23, A.27, K.33, A.46, G.47, T.48, A.49 Chain I: S.4, D.124, L.125 Chain S: Y.33 8 PLIP interactions: 6 interactions with chain H, 2 interactions with chain S Hydrophobic interactions: H:K.33 Hydrogen bonds: H:G.47, H:G.47, H:A.49, H:T.21, H:T.21, H:T.21, H:G.23, S:Y.33, S:Y.33 Water bridges: H:T.1, H:T.1
1QQ-TYR-ASN-R4K-AKK.2:	16 residues within 4Å: Chain O: T.1, R.19, S.20, T.21, Q.22, G.23, A.27, C.31, K.33, G.47, T.48, A.49 Chain P: D.2, S.4, D.124, L.125 10 PLIP interactions: 8 interactions with chain O, 2 interactions with chain L Hydrophobic interactions: O:K.33 Hydrogen bonds: O:G.47, O:T.1, O:T.1, O:T.21, O:T.21, O:T.21, O:G.23, L:Y.33, L:Y.33 Water bridges: O:T.1, O:T.1

10 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.3:	4 residues within 4Å: Chain D: E.97 Chain L: Y.75, S.85, S.88 5 PLIP interactions: 1 interactions with chain D, 1 interactions with chain L, 3 Ligand-Water interactions Metal complexes: D:E.97, L:S.85, H₂O.11, H₂O.41, H₂O.41
MG.4:	0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)
MG.5:	4 residues within 4Å: Chain A: Y.5 Chain F: S.9, N.123 Chain G: A.123 No protein-ligand interaction detected (PLIP)
MG.6:	4 residues within 4Å: Chain G: T.8, Y.119, R.122, M.125 5 PLIP interactions: 4 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:T.8, G:Y.119, G:R.122, G:M.125, H₂O.20
MG.7:	6 residues within 4Å: Chain H: R.19, I.163, D.166, L.167, S.169 Chain S: D.222 5 PLIP interactions: 3 interactions with chain H, 1 interactions with chain S, 1 Ligand-Water interactions Metal complexes: H:I.163, H:D.166, H:S.169, S:D.222, H₂O.27
MG.8:	2 residues within 4Å: Chain I: G.139, S.142 4 PLIP interactions: 1 interactions with chain I, 3 Ligand-Water interactions Metal complexes: I:S.142, H₂O.26, H₂O.29, H₂O.31
MG.9:	5 residues within 4Å: Chain I: A.174, D.175, D.177, A.178, S.180 5 PLIP interactions: 3 interactions with chain I, 2 Ligand-Water interactions Metal complexes: I:A.174, I:D.177, I:S.180, H₂O.28, H₂O.29
MG.10:	3 residues within 4Å: Chain L: T.192, H.195, V.198 5 PLIP interactions: 3 interactions with chain L, 2 Ligand-Water interactions Metal complexes: L:T.192, L:H.195, L:V.198, H₂O.42, H₂O.44
MG.11:	5 residues within 4Å: Chain N: R.19, I.163, D.166, S.169 Chain T: L.34 3 PLIP interactions: 2 interactions with chain N, 1 Ligand-Water interactions Metal complexes: N:I.163, N:S.169, H₂O.53
MG.12:	6 residues within 4Å: Chain K: R.19, A.165, D.168, A.169, S.171 Chain P: D.204 5 PLIP interactions: 3 interactions with chain K, 1 interactions with chain P, 1 Ligand-Water interactions Metal complexes: K:A.165, K:D.168, K:S.171, P:D.204, H₂O.39

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Groll, M. et al., Crystal structure of the 20 S proteasome:TMC-95A complex: a non-covalent proteasome inhibitor. J.Mol.Biol. (2001)

Release Date

2002-02-13

Peptides

PROTEASOME COMPONENT Y7: AV
PROTEASOME COMPONENT Y13: BW
PROTEASOME COMPONENT PRE6: CX
PROTEASOME COMPONENT PUP2: DY
PROTEASOME COMPONENT PRE5: EZ
PROTEASOME COMPONENT C1: F0
PROTEASOME COMPONENT C7-ALPHA: G1
PROTEASOME COMPONENT PUP1: HO
PROTEASOME COMPONENT PUP3: IP
PROTEASOME COMPONENT C11: JQ
PROTEASOME COMPONENT PRE2: KR
PROTEASOME COMPONENT C5: LS
PROTEASOME COMPONENT PRE4: MT
PROTEASOME COMPONENT PRE3: NU

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

V
V

B
B

W
W

C
C

X
X

D
D

Y
Y

E
E

Z
Z

F
F

0
1

G
G

1
2

H
H

O
O

I
I

P
P

J
J

Q
Q

K
K

R
R

L
L

S
S

M
M

T
T

N
N

U
U

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

PROTEASOME COMPONENT Y7

Toggle Identical (AV)

PROTEASOME COMPONENT Y13

Toggle Identical (BW)

PROTEASOME COMPONENT PRE6

Toggle Identical (CX)

PROTEASOME COMPONENT PUP2

Toggle Identical (DY)

PROTEASOME COMPONENT PRE5

Toggle Identical (EZ)

PROTEASOME COMPONENT C1

Toggle Identical (F0)

PROTEASOME COMPONENT C7-ALPHA

Toggle Identical (G1)

PROTEASOME COMPONENT PUP1

Toggle Identical (HO)

PROTEASOME COMPONENT PUP3

Toggle Identical (IP)

PROTEASOME COMPONENT C11

Toggle Identical (JQ)

PROTEASOME COMPONENT PRE2

Toggle Identical (KR)

PROTEASOME COMPONENT C5

Toggle Identical (LS)

PROTEASOME COMPONENT PRE4

Toggle Identical (MT)

PROTEASOME COMPONENT PRE3

Toggle Identical (NU)

Related Entries With Identical Sequence

1fnt.1 | 1g0u.1 | 1g65.1 | 1ryp.1 | 1z7q.1 | 2f16.1 | 2fak.1 | 2gpl.1 | 2zcy.1 | 3bdm.1 | 3d29.1 | 3dy3.1 | 3dy4.1 | 3e47.1 | 3gpj.1 | 3gpt.1 | 3gpw.1 | 3hye.1 | 3jco.1 | 3jcp.1 | 3mg0.1 | 3mg4.1 | 3mg6.1 | 3mg7.1 | 3mg8.1 | 3nzj.1 | 3nzw.1 | 3nzx.1 | 3oeu.1 | 3oev.1 more...less...

3okj.1 | 3sdi.1 | 3sdk.1 | 3shj.1 | 3tdd.1 | 3un4.1 | 3un8.1 | 3wxr.1 | 4cr2.1 | 4cr3.1 | 4cr4.1 | 4eu2.1 | 4fzc.1 | 4fzg.1 | 4g4s.1 | 4gk7.1 | 4hnp.1 | 4hrc.1 | 4hrd.1 | 4inr.1 | 4int.1 | 4inu.1 | 4j70.1 | 4jsq.1 | 4jsu.1 | 4jt0.1 | 4lqi.1 | 4ltc.1 | 4nnn.1 | 4nnw.1 | 4no1.1 | 4no6.1 | 4no8.1 | 4no9.1 | 4q1s.1 | 4qby.1 | 4qlq.1 | 4qls.1 | 4qlt.1 | 4qlu.1 | 4qlv.1 | 4qux.1 | 4quy.1 | 4qv0.1 | 4qv1.1 | 4qv3.1 | 4qv4.1 | 4qv5.1 | 4qv6.1 | 4qv7.1 | 4qv8.1 | 4qv9.1 | 4qvl.1 | 4qvm.1 | 4qvn.1 | 4qvp.1 | 4qvq.1 | 4qvv.1 | 4qvw.1 | 4qvy.1 | 4qw0.1 | 4qw1.1 | 4qw3.1 | 4qw4.1 | 4qw5.1 | 4qw6.1 | 4qw7.1 | 4qwf.1 | 4qwg.1 | 4qwi.1 | 4qwj.1 | 4qwk.1 | 4qwl.1 | 4qwr.1 | 4qws.1 | 4qwu.1 | 4qwx.1 | 4qxj.1 | 4qz0.1 | 4qz1.1 | 4qz2.1 | 4qz3.1 | 4qz4.1 | 4qz5.1 | 4qz6.1 | 4qz7.1 | 4qzw.1 | 4qzx.1 | 4qzz.1 | 4r00.1 | 4r02.1 | 4r17.1 | 4r18.1 | 4rur.1 | 4v7o.1 | 4v7o.2 | 4x6z.1 | 4y69.1 | 4y6a.1 | 4y6v.1 | 4y6z.1 | 4y70.1 | 4y74.1 | 4y75.1 | 4y77.1 | 4y78.1 | 4y7w.1 | 4y7x.1 | 4y7y.1 | 4y80.1 | 4y81.1 | 4y82.1 | 4y84.1 | 4y8g.1 | 4y8h.1 | 4y8i.1 | 4y8j.1 | 4y8k.1 | 4y8l.1 | 4y8m.1 | 4y8n.1 | 4y8o.1 | 4y8p.1 | 4y8q.1 | 4y8r.1 | 4y8s.1 | 4y8t.1 | 4y8u.1 | 4y9y.1 | 4y9z.1 | 4ya0.1 | 4ya1.1 | 4ya2.1 | 4ya3.1 | 4ya4.1 | 4ya5.1 | 4ya7.1 | 4ya9.1 | 4z1l.1 | 5a5b.1 | 5ahj.1 | 5bou.1 | 5bxl.1 | 5bxn.1 | 5cgf.1 | 5cgg.1 | 5cgh.1 | 5cgi.1 | 5cz4.1 | 5cz5.1 | 5cz6.1 | 5cz7.1 | 5cz8.1 | 5cz9.1 | 5cza.1 | 5d0s.1 | 5d0t.1 | 5d0v.1 | 5d0w.1 | 5d0x.1 | 5d0z.1 | 5dki.1 | 5dkj.1 | 5fg7.1 | 5fg9.1 | 5fga.1 | 5fgd.1 | 5fge.1 | 5fgf.1 | 5fgg.1 | 5fgh.1 | 5fgi.1 | 5fhs.1 | 5jhr.1 | 5jhs.1 | 5l52.1 | 5l54.1 | 5l55.1 | 5l5a.1 | 5l5b.1 | 5l5d.1 | 5l5e.1 | 5l5f.1 | 5l5h.1 | 5l5i.1 | 5l5j.1 | 5l5o.1 | 5l5p.1 | 5l5q.1 | 5l5r.1 | 5l5s.1 | 5l5t.1 | 5l5u.1 | 5l5v.1 | 5l5w.1 | 5l5x.1 | 5l5y.1 | 5l5z.1 | 5l60.1 | 5l61.1 | 5l62.1 | 5l63.1 | 5l64.1 | 5l65.1 | 5l66.1 | 5l67.1 | 5l68.1 | 5l69.1 | 5l6a.1 | 5l6b.1 | 5l6c.1 | 5lai.1 | 5laj.1 | 5ltt.1 | 5m2b.1 | 5mp9.1 | 5mpa.1 | 5mpb.1 | 5mpc.1 | 5nif.1 | 5wvi.1 | 5wvk.1 | 6ef0.1 | 6ef1.1 | 6ef3.1 | 6fvt.1 | 6fvu.1 | 6fvv.1 | 6fvw.1 | 6fvx.1 | 6fvy.1 | 6g7f.1 | 6g8m.1 | 6g8n.1 | 6gop.1 | 6h39.1 | 6htb.1 | 6htc.1 | 6htd.1 | 6htp.1 | 6htr.1 | 6hub.1 | 6huc.1 | 6huq.1 | 6huu.1 | 6huv.1 | 6hv3.1 | 6hv4.1 | 6hv5.1 | 6hv7.1 | 6hva.1 | 6hvr.1 | 6hvs.1 | 6hvt.1 | 6hvu.1 | 6hvv.1 | 6hvw.1 | 6hvx.1 | 6hvy.1 | 6hw0.1 | 6hw3.1 | 6hw4.1 | 6hw5.1 | 6hw6.1 | 6hw7.1 | 6hw8.1 | 6hw9.1 | 6hwa.1 | 6hwb.1 | 6hwc.1 | 6hwd.1 | 6hwe.1 | 6hwf.1 | 6j2c.1 | 6j2n.1 | 6j2q.1 | 6j2x.1 | 6j30.1 | 6zou.1 | 6zp6.1 | 6zp8.1 | 7ls5.1 | 7ls6.1 | 7lsx.1 | 7o2l.1 | 7qo3.1 | 7qo5.1 | 7qo6.1 | 7tej.1 | 7teo.1 | 8bw1.1 | 8ohz.1 | 8oi1.1 | 8olr.1 | 8rhj.1 | 8rhk.1 | 8rhl.1 | 8rvl.1 | 8rvo.1 | 8rvp.1 | 8rvq.1 | 8t08.1 | 8t0m.1 | 8u6y.1 | 8u7u.1 | 9fst.1 | 9fsv.1 | 9ft0.1 | 9ft1.1 | 9gbk.1

Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog

Background

Transparent

Resolution

Low
Medium
High
Extreme

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