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4NO9
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
:
YCP IN COMPLEX WITH Z-LEU-LEU-LEU-EPOXYKETONE
Authors
:
M. L. Stein, H. Cui, P. Beck, C. Dubiella, C. Voss, A. Krueger, B. Schmidt
Date
:
19 Nov 13 (Deposition) - 12 Feb 14 (Release) - 19 Feb 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
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 (1x)
Keywords
:
Proteasome, Peptide Electrophile, Binding Analysis, Irreversible Inhibitor, Epoxyketone, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. L. Stein, H. Cui, P. Beck, C. Dubiella, C. Voss, A. Kruger, B. Schmidt M. Groll
Systematic Comparison Of Peptidic Proteasome Inhibitors Highlights The Alpha-Ketoamide Electrophile As An Auspiciou Reversible Lead Motif.
Angew. Chem. Int. Ed. Engl. V. 53 1679 2014
[
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N... (2L0a)
1b: N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N... (2L0b)
1c: N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N... (2L0c)
2a: N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N... (2LRa)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
3f: MAGNESIUM ION (MGf)
3g: MAGNESIUM ION (MGg)
3h: MAGNESIUM ION (MGh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2L0
3
Ligand/Ion
N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N-[(2R,3S,4S)-1,3-DIHYDROXY-2,6-DIMETHYLHEPTAN-4-YL]-L-LEUCINAMIDE
2
2LR
1
Ligand/Ion
N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N-{(1R,2S)-1-HYDROXY-4-METHYL-1-[(2R)-2-METHYLOXIRAN-2-YL]PENTAN-2-YL}-L-LEUCINAMIDE
3
MG
8
Ligand/Ion
MAGNESIUM ION
[
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR G:8 , TYR G:119 , ARG G:122 , ALA G:123 , MET G:125
BINDING SITE FOR RESIDUE MG G 301
02
AC2
SOFTWARE
THR H:1 , ARG H:19 , SER H:20 , THR H:21 , ALA H:27 , LYS H:33 , GLY H:45 , GLY H:47 , ALA H:49 , GLY H:168 , ASP I:124
BINDING SITE FOR RESIDUE 2L0 H 301
03
AC3
SOFTWARE
GLN H:91 , ASP N:51 , ASN N:92
BINDING SITE FOR RESIDUE MG H 302
04
AC4
SOFTWARE
ALA I:174 , ASP I:177 , SER I:180 , ASP I:204
BINDING SITE FOR RESIDUE MG I 301
05
AC5
SOFTWARE
THR K:1 , ARG K:19 , ALA K:20 , THR K:21 , ALA K:27 , LYS K:33 , GLY K:47 , ALA K:49 , TYR K:170 , HOH K:403 , ASP L:126
BINDING SITE FOR RESIDUE 2L0 K 301
06
AC6
SOFTWARE
ALA K:165 , HIS K:166 , ASP K:168 , ALA K:169 , SER K:171 , ASP W:204
BINDING SITE FOR RESIDUE MG K 302
07
AC7
SOFTWARE
ARG N:19 , ILE N:163 , ASP N:166 , SER N:169 , LEU a:34
BINDING SITE FOR RESIDUE MG N 201
08
AC8
SOFTWARE
THR V:1 , SER V:20 , THR V:21 , GLN V:22 , ALA V:27 , GLY V:45 , GLY V:47 , ALA V:49 , GLY V:168 , ASP W:124
BINDING SITE FOR RESIDUE 2LR V 301
09
AC9
SOFTWARE
ASP L:222 , ILE V:163 , TRP V:164 , ASP V:166 , SER V:169
BINDING SITE FOR RESIDUE MG V 302
10
BC1
SOFTWARE
THR Y:1 , ARG Y:19 , ALA Y:20 , THR Y:21 , ALA Y:27 , LYS Y:33 , GLY Y:47 , ALA Y:49 , TYR Y:170 , HOH Y:403 , ASP Z:126
BINDING SITE FOR RESIDUE 2L0 Y 301
11
BC2
SOFTWARE
ASP I:204 , ARG Y:19 , ALA Y:165 , ASP Y:168 , ALA Y:169 , SER Y:171
BINDING SITE FOR RESIDUE MG Y 302
12
BC3
SOFTWARE
THR Z:192 , HIS Z:195 , VAL Z:198
BINDING SITE FOR RESIDUE MG Z 301
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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Exons
(0, 0)
Info
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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
(5, 26)
Info
All SCOP Domains
1a: SCOP_d4no9f_ (F:)
1b: SCOP_d4no9t_ (T:)
2a: SCOP_d4no9b_ (B:)
2b: SCOP_d4no9c_ (C:)
2c: SCOP_d4no9d_ (D:)
2d: SCOP_d4no9g_ (G:)
2e: SCOP_d4no9h_ (H:)
2f: SCOP_d4no9p_ (P:)
2g: SCOP_d4no9q_ (Q:)
2h: SCOP_d4no9r_ (R:)
2i: SCOP_d4no9u_ (U:)
2j: SCOP_d4no9v_ (V:)
3a: SCOP_d4no9m_ (M:)
4a: SCOP_d4no9e_ (E:)
4b: SCOP_d4no9s_ (S:)
5a: SCOP_d4no9a_ (A:)
5b: SCOP_d4no9i_ (I:)
5c: SCOP_d4no9j_ (J:)
5d: SCOP_d4no9k_ (K:)
5e: SCOP_d4no9l_ (L:)
5f: SCOP_d4no9n_ (N:)
5g: SCOP_d4no9o_ (O:)
5h: SCOP_d4no9w_ (W:)
5i: SCOP_d4no9x_ (X:)
5j: SCOP_d4no9y_ (Y:)
5k: SCOP_d4no9z_ (Z:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ntn hydrolase-like
(356)
Superfamily
:
N-terminal nucleophile aminohydrolases (Ntn hydrolases)
(352)
Family
:
automated matches
(34)
Protein domain
:
automated matches
(34)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 559292]
(8)
1a
d4no9f_
F:
1b
d4no9t_
T:
Family
:
Proteasome subunits
(222)
Protein domain
:
automated matches
(78)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(39)
2a
d4no9b_
B:
2b
d4no9c_
C:
2c
d4no9d_
D:
2d
d4no9g_
G:
2e
d4no9h_
H:
2f
d4no9p_
P:
2g
d4no9q_
Q:
2h
d4no9r_
R:
2i
d4no9u_
U:
2j
d4no9v_
V:
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 559292]
(19)
3a
d4no9m_
M:
Protein domain
:
Proteasome alpha subunit (non-catalytic)
(66)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(54)
4a
d4no9e_
E:
4b
d4no9s_
S:
Protein domain
:
Proteasome beta subunit (catalytic)
(61)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(51)
5a
d4no9a_
A:
5b
d4no9i_
I:
5c
d4no9j_
J:
5d
d4no9k_
K:
5e
d4no9l_
L:
5f
d4no9n_
N:
5g
d4no9o_
O:
5h
d4no9w_
W:
5i
d4no9x_
X:
5j
d4no9y_
Y:
5k
d4no9z_
Z:
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
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Sorry, no Info available
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Chain H
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Chain K
Chain L
Chain M
Chain N
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Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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