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Asym. Unit
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Asym.Unit (2.0 MB)
Biol.Unit 1, α-C (2.0 MB)
Biol.Unit 1 (2.0 MB)
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(1)
Title
:
YEAST 20S PROTEASOME IN COMPLEX WITH THE DIMERIZED LINEAR MIMETIC OF TMC-95A - YCP:3A
Authors
:
A. Desvergne, E. Genin, X. Marechal, N. Gallastegui, L. Dufau, N. Richy J. Vidal, M. Reboud-Ravaux
Date
:
22 Mar 13 (Deposition) - 01 May 13 (Release) - 23 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f (1x)
Keywords
:
Ups, Proteasome, Drug Discovery, Non-Covalent Reversible Inhibition, Bivalence, Tmc-95A Derivatives, Ntn Hydrolase, Non-Lysosomal Protein Breakdown, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Desvergne, E. Genin, X. Marechal, N. Gallastegui, L. Dufau, N. Richy, M. Groll, J. Vidal, M. Reboud-Ravaux
Dimerized Linear Mimics Of A Natural Cyclopeptide (Tmc-95A) Are Potent Noncovalent Inhibitors Of The Eukaryotic 20S Proteasome
J. Med. Chem. V. 56 3367 2013
[
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Hetero Components
(5, 18)
Info
All Hetero Components
1a: BENZYLAMINE (ABNa)
1b: BENZYLAMINE (ABNb)
1c: BENZYLAMINE (ABNc)
1d: BENZYLAMINE (ABNd)
2a: 6-AMINOHEXANOIC ACID (ACAa)
2b: 6-AMINOHEXANOIC ACID (ACAb)
2c: 6-AMINOHEXANOIC ACID (ACAc)
2d: 6-AMINOHEXANOIC ACID (ACAd)
3a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
3b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
4a: 3-[(3R)-3-HYDROXY-2-OXO-2,3-DIHYDR... (RE0a)
4b: 3-[(3R)-3-HYDROXY-2-OXO-2,3-DIHYDR... (RE0b)
4c: 3-[(3R)-3-HYDROXY-2-OXO-2,3-DIHYDR... (RE0c)
4d: 3-[(3R)-3-HYDROXY-2-OXO-2,3-DIHYDR... (RE0d)
5a: O-BENZYL-L-TYROSINE (TY5a)
5b: O-BENZYL-L-TYROSINE (TY5b)
5c: O-BENZYL-L-TYROSINE (TY5c)
5d: O-BENZYL-L-TYROSINE (TY5d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ABN
4
Mod. Amino Acid
BENZYLAMINE
2
ACA
4
Mod. Amino Acid
6-AMINOHEXANOIC ACID
3
MES
2
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4
RE0
4
Mod. Amino Acid
3-[(3R)-3-HYDROXY-2-OXO-2,3-DIHYDRO-1H-INDOL-3-YL]-L-ALANINE
5
TY5
4
Mod. Amino Acid
O-BENZYL-L-TYROSINE
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR K:1 , GLY K:47 , GLY K:130 , SER K:131 , TYR K:170 , RE0 c:7
BINDING SITE FOR RESIDUE MES K 301
2
AC2
SOFTWARE
THR Y:1 , GLY Y:47 , GLY Y:130 , SER Y:131 , TYR Y:170 , RE0 d:7
BINDING SITE FOR RESIDUE MES Y 301
3
AC3
SOFTWARE
THR K:1 , ALA K:20 , THR K:21 , GLY K:23 , VAL K:31 , MET K:45 , GLY K:47 , GLY K:48 , ALA K:49 , MES K:301 , HOH K:418 , PHE L:102 , PRO L:104 , TYR L:106 , ASP L:126
BINDING SITE FOR CHAIN c OF TMC-95A MIMIC LIGAND YCP:3A
4
AC4
SOFTWARE
THR Y:1 , ALA Y:20 , THR Y:21 , GLY Y:23 , VAL Y:31 , MET Y:45 , GLY Y:47 , GLY Y:48 , ALA Y:49 , MES Y:301 , PHE Z:102 , PRO Z:104 , TYR Z:106 , ASP Z:126
BINDING SITE FOR CHAIN d OF TMC-95A MIMIC LIGAND YCP:3A
5
AC5
SOFTWARE
THR H:1 , SER H:20 , THR H:21 , CYS H:31 , GLY H:47 , ALA H:49 , HOH H:344 , PHE I:99 , ASP I:124 , LEU I:125 , ILE I:126 , TYR Z:33 , HOH e:101
BINDING SITE FOR CHAIN e OF TMC-95A MIMIC LIGAND YCP:3A
6
AC6
SOFTWARE
TYR L:33 , THR V:1 , SER V:20 , THR V:21 , CYS V:31 , GLY V:47 , THR V:48 , ALA V:49 , HOH V:335 , PHE W:99 , ASP W:124 , LEU W:125 , ILE W:126 , HOH f:101
BINDING SITE FOR CHAIN f OF TMC-95A MIMIC LIGAND YCP:3A
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(4, 24)
Info
All SCOP Domains
1a: SCOP_d4jsub_ (B:)
1b: SCOP_d4jsuc_ (C:)
1c: SCOP_d4jsud_ (D:)
1d: SCOP_d4jsuh_ (H:)
1e: SCOP_d4jsup_ (P:)
1f: SCOP_d4jsuq_ (Q:)
1g: SCOP_d4jsur_ (R:)
1h: SCOP_d4jsuv_ (V:)
2a: SCOP_d4jsug_ (G:)
2b: SCOP_d4jsuu_ (U:)
3a: SCOP_d4jsue_ (E:)
3b: SCOP_d4jsuk_ (K:)
3c: SCOP_d4jsus_ (S:)
3d: SCOP_d4jsuy_ (Y:)
4a: SCOP_d4jsua_ (A:)
4b: SCOP_d4jsui_ (I:)
4c: SCOP_d4jsuj_ (J:)
4d: SCOP_d4jsul_ (L:)
4e: SCOP_d4jsum_ (M:)
4f: SCOP_d4jsun_ (N:)
4g: SCOP_d4jsuo_ (O:)
4h: SCOP_d4jsuw_ (W:)
4i: SCOP_d4jsux_ (X:)
4j: SCOP_d4jsuz_ (Z:)
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Protein Domains
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)
(
)
Organisms
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ntn hydrolase-like
(356)
Superfamily
:
N-terminal nucleophile aminohydrolases (Ntn hydrolases)
(352)
Family
:
Proteasome subunits
(222)
Protein domain
:
automated matches
(78)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(39)
1a
d4jsub_
B:
1b
d4jsuc_
C:
1c
d4jsud_
D:
1d
d4jsuh_
H:
1e
d4jsup_
P:
1f
d4jsuq_
Q:
1g
d4jsur_
R:
1h
d4jsuv_
V:
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 559292]
(19)
2a
d4jsug_
G:
2b
d4jsuu_
U:
Protein domain
:
Proteasome alpha subunit (non-catalytic)
(66)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(54)
3a
d4jsue_
E:
3b
d4jsuk_
K:
3c
d4jsus_
S:
3d
d4jsuy_
Y:
Protein domain
:
Proteasome beta subunit (catalytic)
(61)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(51)
4a
d4jsua_
A:
4b
d4jsui_
I:
4c
d4jsuj_
J:
4d
d4jsul_
L:
4e
d4jsum_
M:
4f
d4jsun_
N:
4g
d4jsuo_
O:
4h
d4jsuw_
W:
4i
d4jsux_
X:
4j
d4jsuz_
Z:
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CATH Domains
(0, 0)
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Pfam Domains
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