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1YAR
Biol. Unit 1
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Asym.Unit (801 KB)
Biol.Unit 1, α-C (1.5 MB)
Biol.Unit 1 (1.5 MB)
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(1)
Title
:
STRUCTURE OF ARCHEABACTERIAL 20S PROTEASOME MUTANT D9S- PA26 COMPLEX
Authors
:
A. Forster, E. I. Masters, F. G. Whitby, H. Robinson, C. P. Hill
Date
:
17 Dec 04 (Deposition) - 26 Jul 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U (2x)
Keywords
:
Proteasome 20S, Pa26 Proteasome Activator 11S, Hydrolase-Hydrolase Activator Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Forster, E. I. Masters, F. G. Whitby, H. Robinson, C. P. Hill
The 1. 9 A Structure Of A Proteasome-11S Activator Complex And Implications For Proteasome-Pan/Pa700 Interactions.
Mol. Cell V. 18 589 2005
[
close entry info
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Hetero Components
(2, 56)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
14
Ligand/Ion
GLYCEROL
2
SO4
42
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(28, 28)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:110 , LYS A:114 , HOH A:4049 , ILE B:64 , GLU B:65 , GLN B:68 , ARG H:71
BINDING SITE FOR RESIDUE SO4 A 4001
02
AC2
SOFTWARE
GLU B:110 , LYS B:114 , HOH B:4086 , ILE C:64 , GLU C:65 , GLN C:68 , ARG I:71
BINDING SITE FOR RESIDUE SO4 B 4002
03
AC3
SOFTWARE
GLU C:110 , LYS C:114 , ILE D:64 , GLU D:65 , GLN D:68 , ARG J:71
BINDING SITE FOR RESIDUE SO4 C 4003
04
AC4
SOFTWARE
GLU D:110 , LYS D:114 , ILE E:64 , GLU E:65 , GLN E:68
BINDING SITE FOR RESIDUE SO4 D 4004
05
AC5
SOFTWARE
GLU E:110 , LYS E:114 , SER F:63 , ILE F:64 , GLU F:65 , GLN F:68 , HOH F:4072 , ARG L:71
BINDING SITE FOR RESIDUE SO4 F 4005
06
AC6
SOFTWARE
GLU F:110 , LYS F:114 , SER G:63 , ILE G:64 , GLU G:65 , GLN G:68 , HOH G:4101 , ARG M:71
BINDING SITE FOR RESIDUE SO4 F 4006
07
AC7
SOFTWARE
SER A:63 , GLU A:65 , GLU G:110 , LYS G:114 , HOH G:4049 , ARG N:71
BINDING SITE FOR RESIDUE SO4 G 4007
08
AC8
SOFTWARE
THR H:1 , GLY H:47 , GLY H:128 , SER H:129 , HOH H:5063 , HOH H:5074 , HOH H:5097
BINDING SITE FOR RESIDUE SO4 H 4008
09
AC9
SOFTWARE
THR N:1 , GLY N:47 , GLY N:128 , SER N:129 , HOH N:5062 , HOH N:5122 , HOH N:5173 , HOH N:5177
BINDING SITE FOR RESIDUE SO4 N 4009
10
BC1
SOFTWARE
THR M:1 , GLY M:47 , GLY M:128 , SER M:129 , HOH M:5147 , HOH M:5151 , HOH M:5153
BINDING SITE FOR RESIDUE SO4 M 4010
11
BC2
SOFTWARE
THR I:1 , ALA I:46 , GLY I:47 , GLY I:128 , SER I:129 , HOH I:5073 , HOH I:5074 , HOH I:5078 , HOH I:5158
BINDING SITE FOR RESIDUE SO4 I 4011
12
BC3
SOFTWARE
THR J:1 , ALA J:46 , GLY J:47 , GLY J:128 , SER J:129 , HOH J:5064 , HOH J:5140
BINDING SITE FOR RESIDUE SO4 J 4012
13
BC4
SOFTWARE
THR K:1 , ALA K:46 , GLY K:47 , GLY K:128 , SER K:129 , HOH K:5066 , HOH K:5106 , HOH K:5111 , HOH K:5163
BINDING SITE FOR RESIDUE SO4 K 4013
14
BC5
SOFTWARE
THR L:1 , GLY L:47 , GLY L:128 , SER L:129 , HOH L:5088 , HOH L:5107
BINDING SITE FOR RESIDUE SO4 L 4014
15
BC6
SOFTWARE
TYR A:103 , ARG A:115 , ARG H:70 , HOH H:5013 , HOH H:5044 , HOH H:5067
BINDING SITE FOR RESIDUE SO4 H 4015
16
BC7
SOFTWARE
TYR B:103 , ARG B:115 , HOH B:4045 , HOH B:4056 , HOH B:4141 , GLN I:69 , ARG I:70
BINDING SITE FOR RESIDUE SO4 B 4016
17
BC8
SOFTWARE
TYR C:103 , ARG C:115 , ARG J:70 , HOH J:5021 , HOH J:5036 , HOH J:5097
BINDING SITE FOR RESIDUE SO4 J 4017
18
BC9
SOFTWARE
TYR D:103 , ARG D:115 , GLN K:69 , ARG K:70 , HOH K:5028 , HOH K:5048 , HOH K:5073
BINDING SITE FOR RESIDUE SO4 K 4018
19
CC1
SOFTWARE
TYR E:103 , ARG E:115 , ARG L:70 , HOH L:5047 , HOH L:5054 , HOH L:5154
BINDING SITE FOR RESIDUE SO4 L 4019
20
CC2
SOFTWARE
TYR F:103 , ARG F:115 , ARG M:70 , HOH M:5028 , HOH M:5086 , HOH M:5097
BINDING SITE FOR RESIDUE SO4 M 4020
21
CC3
SOFTWARE
TYR G:103 , ARG G:115 , GLN N:69 , ARG N:70 , HOH N:5033 , HOH N:5093 , HOH N:5110
BINDING SITE FOR RESIDUE SO4 N 4021
22
CC4
SOFTWARE
GLN L:53 , ARG L:57 , LYS L:60 , HOH L:5056 , HOH L:5137 , HOH L:5139
BINDING SITE FOR RESIDUE GOL L 5001
23
CC5
SOFTWARE
GLN M:53 , ARG M:57 , LYS M:60 , HOH M:5034 , HOH M:5107 , HOH N:5089
BINDING SITE FOR RESIDUE GOL M 5002
24
CC6
SOFTWARE
GLN N:53 , VAL N:56 , ARG N:57 , LYS N:60 , HOH N:5058 , HOH N:5092
BINDING SITE FOR RESIDUE GOL N 5003
25
CC7
SOFTWARE
GLN H:53 , ARG H:57 , LYS H:60 , HOH H:5043 , HOH H:5156 , HOH I:5069
BINDING SITE FOR RESIDUE GOL H 5004
26
CC8
SOFTWARE
GLN I:53 , VAL I:56 , ARG I:57 , LYS I:60 , HOH I:5046 , HOH I:5072 , HOH I:5131
BINDING SITE FOR RESIDUE GOL I 5005
27
CC9
SOFTWARE
GLN J:53 , VAL J:56 , ARG J:57 , LYS J:60 , HOH J:5092 , HOH J:5099 , HOH K:5088
BINDING SITE FOR RESIDUE GOL J 5006
28
DC1
SOFTWARE
GLN K:53 , VAL K:56 , ARG K:57 , LYS K:60 , HOH K:5064 , HOH K:5097 , HOH L:5135
BINDING SITE FOR RESIDUE GOL K 5007
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 28)
Info
All PROSITE Patterns/Profiles
1: PROTEASOME_BETA_1 (H:4-51,I:4-51,J:4-51,K:4-51,L:4-51...)
2: PROTEASOME_ALPHA_2 (A:23-233,B:23-233,C:23-233,D:23-23...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEASOME_BETA_1
PS00854
Proteasome beta-type subunits signature.
PSB_THEAC
12-59
14
H:4-51
I:4-51
J:4-51
K:4-51
L:4-51
M:4-51
N:4-51
2
PROTEASOME_ALPHA_2
PS51475
Proteasome alpha-type subunit profile.
PSA_THEAC
23-233
14
A:23-233
B:23-233
C:23-233
D:23-233
E:23-233
F:23-233
G:23-233
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 21)
Info
All SCOP Domains
1a: SCOP_d1yaro_ (O:)
1b: SCOP_d1yarp_ (P:)
1c: SCOP_d1yarq_ (Q:)
1d: SCOP_d1yarr_ (R:)
1e: SCOP_d1yars_ (S:)
1f: SCOP_d1yart_ (T:)
1g: SCOP_d1yaru_ (U:)
2a: SCOP_d1yara_ (A:)
2b: SCOP_d1yarb_ (B:)
2c: SCOP_d1yark_ (K:)
2d: SCOP_d1yarl_ (L:)
2e: SCOP_d1yarm_ (M:)
2f: SCOP_d1yarn_ (N:)
2g: SCOP_d1yarc_ (C:)
2h: SCOP_d1yard_ (D:)
2i: SCOP_d1yare_ (E:)
2j: SCOP_d1yarf_ (F:)
2k: SCOP_d1yarg_ (G:)
2l: SCOP_d1yarh_ (H:)
2m: SCOP_d1yari_ (I:)
2n: SCOP_d1yarj_ (J:)
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)
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(
)
Superfamilies
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Proteasome activator
(7)
Family
:
Proteasome activator
(7)
Protein domain
:
automated matches
(5)
Trypanosome (Trypanosoma brucei) [TaxId: 5691]
(5)
1a
d1yaro_
O:
1b
d1yarp_
P:
1c
d1yarq_
Q:
1d
d1yarr_
R:
1e
d1yars_
S:
1f
d1yart_
T:
1g
d1yaru_
U:
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)
Thermoplasma acidophilum [TaxId: 2303]
(7)
2a
d1yara_
A:
2b
d1yarb_
B:
2c
d1yark_
K:
2d
d1yarl_
L:
2e
d1yarm_
M:
2f
d1yarn_
N:
2g
d1yarc_
C:
2h
d1yard_
D:
2i
d1yare_
E:
2j
d1yarf_
F:
2k
d1yarg_
G:
2l
d1yarh_
H:
2m
d1yari_
I:
2n
d1yarj_
J:
[
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]
CATH Domains
(2, 21)
Info
all CATH domains
1a: CATH_1yarA00 (A:13-233)
1b: CATH_1yarB00 (B:13-233)
1c: CATH_1yarC00 (C:13-233)
1d: CATH_1yarD00 (D:13-233)
1e: CATH_1yarH00 (H:1-203)
1f: CATH_1yarI00 (I:1-203)
1g: CATH_1yarJ00 (J:1-203)
1h: CATH_1yarK00 (K:1-203)
1i: CATH_1yarE00 (E:13-233)
1j: CATH_1yarL00 (L:1-203)
1k: CATH_1yarM00 (M:1-203)
1l: CATH_1yarN00 (N:1-203)
1m: CATH_1yarF00 (F:13-233)
1n: CATH_1yarG00 (G:13-233)
2a: CATH_1yarO01 (O:4-221)
2b: CATH_1yarP01 (P:4-221)
2c: CATH_1yarQ01 (Q:4-221)
2d: CATH_1yarR01 (R:4-221)
2e: CATH_1yarS01 (S:4-221)
2f: CATH_1yarT01 (T:4-221)
2g: CATH_1yarU01 (U:4-221)
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Topologies
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
(128)
Homologous Superfamily
:
Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
(124)
Thermoplasma acidophilum. Organism_taxid: 2303.
(6)
1a
1yarA00
A:13-233
1b
1yarB00
B:13-233
1c
1yarC00
C:13-233
1d
1yarD00
D:13-233
1e
1yarH00
H:1-203
1f
1yarI00
I:1-203
1g
1yarJ00
J:1-203
1h
1yarK00
K:1-203
1i
1yarE00
E:13-233
1j
1yarL00
L:1-203
1k
1yarM00
M:1-203
1l
1yarN00
N:1-203
1m
1yarF00
F:13-233
1n
1yarG00
G:13-233
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
[code=1.20.120.180, no name defined]
(10)
Thermoplasma acidophilum. Organism_taxid: 2303.
(5)
2a
1yarO01
O:4-221
2b
1yarP01
P:4-221
2c
1yarQ01
Q:4-221
2d
1yarR01
R:4-221
2e
1yarS01
S:4-221
2f
1yarT01
T:4-221
2g
1yarU01
U:4-221
[
close CATH info
]
Pfam Domains
(2, 21)
Info
all PFAM domains
1a: PFAM_Proteasome_1yarG01 (G:31-216)
1b: PFAM_Proteasome_1yarG02 (G:31-216)
1c: PFAM_Proteasome_1yarG03 (G:31-216)
1d: PFAM_Proteasome_1yarG04 (G:31-216)
1e: PFAM_Proteasome_1yarG05 (G:31-216)
1f: PFAM_Proteasome_1yarG06 (G:31-216)
1g: PFAM_Proteasome_1yarG07 (G:31-216)
1h: PFAM_Proteasome_1yarN01 (N:1-178)
1i: PFAM_Proteasome_1yarN02 (N:1-178)
1j: PFAM_Proteasome_1yarN03 (N:1-178)
1k: PFAM_Proteasome_1yarN04 (N:1-178)
1l: PFAM_Proteasome_1yarN05 (N:1-178)
1m: PFAM_Proteasome_1yarN06 (N:1-178)
1n: PFAM_Proteasome_1yarN07 (N:1-178)
2a: PFAM_Proteasome_A_N_1yarG08 (G:13-30)
2b: PFAM_Proteasome_A_N_1yarG09 (G:13-30)
2c: PFAM_Proteasome_A_N_1yarG10 (G:13-30)
2d: PFAM_Proteasome_A_N_1yarG11 (G:13-30)
2e: PFAM_Proteasome_A_N_1yarG12 (G:13-30)
2f: PFAM_Proteasome_A_N_1yarG13 (G:13-30)
2g: PFAM_Proteasome_A_N_1yarG14 (G:13-30)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NTN
(93)
Family
:
Proteasome
(36)
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
(8)
1a
Proteasome-1yarG01
G:31-216
1b
Proteasome-1yarG02
G:31-216
1c
Proteasome-1yarG03
G:31-216
1d
Proteasome-1yarG04
G:31-216
1e
Proteasome-1yarG05
G:31-216
1f
Proteasome-1yarG06
G:31-216
1g
Proteasome-1yarG07
G:31-216
1h
Proteasome-1yarN01
N:1-178
1i
Proteasome-1yarN02
N:1-178
1j
Proteasome-1yarN03
N:1-178
1k
Proteasome-1yarN04
N:1-178
1l
Proteasome-1yarN05
N:1-178
1m
Proteasome-1yarN06
N:1-178
1n
Proteasome-1yarN07
N:1-178
Clan
:
no clan defined [family: Proteasome_A_N]
(20)
Family
:
Proteasome_A_N
(20)
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
(8)
2a
Proteasome_A_N-1yarG08
G:13-30
2b
Proteasome_A_N-1yarG09
G:13-30
2c
Proteasome_A_N-1yarG10
G:13-30
2d
Proteasome_A_N-1yarG11
G:13-30
2e
Proteasome_A_N-1yarG12
G:13-30
2f
Proteasome_A_N-1yarG13
G:13-30
2g
Proteasome_A_N-1yarG14
G:13-30
[
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Asym.Unit (801 KB)
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