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3J7A
Asym. Unit
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Asym.Unit (1.4 MB)
Biol.Unit 1, α-C (1.4 MB)
Biol.Unit 1 (1.4 MB)
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Title
:
CRYO-EM STRUCTURE OF THE PLASMODIUM FALCIPARUM 80S RIBOSOME BOUND TO THE ANTI-PROTOZOAN DRUG EMETINE, SMALL SUBUNIT
Authors
:
W. Wong, X. C. Bai, A. Brown, I. S. Fernandez, E. Hanssen, M. Condron, Y. H J. Baum, S. H. W. Scheres
Date
:
03 Jun 14 (Deposition) - 16 Jul 14 (Release) - 03 Jun 15 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
3.20
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,1,2,3,4,5,6,7
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,1,2,3,4,5,6,7 (1x)
Keywords
:
Emetine, Ribosome-Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Wong, X. C. Bai, A. Brown, I. S. Fernandez, E. Hanssen, M. Condron, Y. H. Tan, J. Baum, S. H. Scheres
Cryo-Em Structure Of The Plasmodium Falciparum 80S Ribosome Bound To The Anti-Protozoan Drug Emetine.
Elife V. 3 03080 2014
[
close entry info
]
Hetero Components
(3, 69)
Info
All Hetero Components
1a: EMETINE (34Ga)
2a: MAGNESIUM ION (MGa)
2aa: MAGNESIUM ION (MGaa)
2ab: MAGNESIUM ION (MGab)
2ac: MAGNESIUM ION (MGac)
2ad: MAGNESIUM ION (MGad)
2ae: MAGNESIUM ION (MGae)
2af: MAGNESIUM ION (MGaf)
2ag: MAGNESIUM ION (MGag)
2ah: MAGNESIUM ION (MGah)
2ai: MAGNESIUM ION (MGai)
2aj: MAGNESIUM ION (MGaj)
2ak: MAGNESIUM ION (MGak)
2al: MAGNESIUM ION (MGal)
2am: MAGNESIUM ION (MGam)
2an: MAGNESIUM ION (MGan)
2ao: MAGNESIUM ION (MGao)
2ap: MAGNESIUM ION (MGap)
2aq: MAGNESIUM ION (MGaq)
2ar: MAGNESIUM ION (MGar)
2as: MAGNESIUM ION (MGas)
2at: MAGNESIUM ION (MGat)
2au: MAGNESIUM ION (MGau)
2av: MAGNESIUM ION (MGav)
2aw: MAGNESIUM ION (MGaw)
2ax: MAGNESIUM ION (MGax)
2ay: MAGNESIUM ION (MGay)
2az: MAGNESIUM ION (MGaz)
2b: MAGNESIUM ION (MGb)
2ba: MAGNESIUM ION (MGba)
2bb: MAGNESIUM ION (MGbb)
2bc: MAGNESIUM ION (MGbc)
2bd: MAGNESIUM ION (MGbd)
2be: MAGNESIUM ION (MGbe)
2bf: MAGNESIUM ION (MGbf)
2bg: MAGNESIUM ION (MGbg)
2bh: MAGNESIUM ION (MGbh)
2bi: MAGNESIUM ION (MGbi)
2bj: MAGNESIUM ION (MGbj)
2bk: MAGNESIUM ION (MGbk)
2bl: MAGNESIUM ION (MGbl)
2bm: MAGNESIUM ION (MGbm)
2bn: MAGNESIUM ION (MGbn)
2bo: MAGNESIUM ION (MGbo)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
2i: MAGNESIUM ION (MGi)
2j: MAGNESIUM ION (MGj)
2k: MAGNESIUM ION (MGk)
2l: MAGNESIUM ION (MGl)
2m: MAGNESIUM ION (MGm)
2n: MAGNESIUM ION (MGn)
2o: MAGNESIUM ION (MGo)
2p: MAGNESIUM ION (MGp)
2q: MAGNESIUM ION (MGq)
2r: MAGNESIUM ION (MGr)
2s: MAGNESIUM ION (MGs)
2t: MAGNESIUM ION (MGt)
2u: MAGNESIUM ION (MGu)
2v: MAGNESIUM ION (MGv)
2w: MAGNESIUM ION (MGw)
2x: MAGNESIUM ION (MGx)
2y: MAGNESIUM ION (MGy)
2z: MAGNESIUM ION (MGz)
3a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
34G
1
Ligand/Ion
EMETINE
2
MG
67
Ligand/Ion
MAGNESIUM ION
3
ZN
1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(66, 66)
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)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
63: GC9 (SOFTWARE)
64: HC1 (SOFTWARE)
65: HC2 (SOFTWARE)
66: HC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
G A:10 , A A:1930
BINDING SITE FOR RESIDUE MG A 2101
02
AC2
SOFTWARE
G A:16
BINDING SITE FOR RESIDUE MG A 2102
03
AC3
SOFTWARE
A A:102 , C A:367
BINDING SITE FOR RESIDUE MG A 2103
04
AC4
SOFTWARE
A A:102 , U A:103 , U A:104 , A A:366 , C A:367
BINDING SITE FOR RESIDUE MG A 2104
05
AC5
SOFTWARE
C A:49 , A A:431
BINDING SITE FOR RESIDUE MG A 2105
06
AC6
SOFTWARE
A A:452 , U A:454
BINDING SITE FOR RESIDUE MG A 2106
07
AC7
SOFTWARE
A A:60 , A A:459
BINDING SITE FOR RESIDUE MG A 2107
08
AC8
SOFTWARE
A A:87
BINDING SITE FOR RESIDUE MG A 2108
09
AC9
SOFTWARE
G A:97
BINDING SITE FOR RESIDUE MG A 2109
10
BC1
SOFTWARE
U A:408
BINDING SITE FOR RESIDUE MG A 2111
11
BC2
SOFTWARE
G A:328 , G A:343 , A A:347
BINDING SITE FOR RESIDUE MG A 2112
12
BC3
SOFTWARE
G A:42 , A A:43 , U A:100
BINDING SITE FOR RESIDUE MG A 2113
13
BC4
SOFTWARE
U A:44 , A A:47
BINDING SITE FOR RESIDUE MG A 2114
14
BC5
SOFTWARE
G A:435
BINDING SITE FOR RESIDUE MG A 2115
15
BC6
SOFTWARE
G A:383 , A A:384 , U A:385
BINDING SITE FOR RESIDUE MG A 2116
16
BC7
SOFTWARE
A A:407 , U A:408
BINDING SITE FOR RESIDUE MG A 2117
17
BC8
SOFTWARE
C A:430 , G A:432
BINDING SITE FOR RESIDUE MG A 2118
18
BC9
SOFTWARE
A A:466 , G A:467
BINDING SITE FOR RESIDUE MG A 2119
19
CC1
SOFTWARE
A A:28
BINDING SITE FOR RESIDUE MG A 2120
20
CC2
SOFTWARE
U A:35 , G A:522 , C A:537
BINDING SITE FOR RESIDUE MG A 2121
21
CC3
SOFTWARE
G A:568
BINDING SITE FOR RESIDUE MG A 2123
22
CC4
SOFTWARE
A A:577 , G A:578
BINDING SITE FOR RESIDUE MG A 2124
23
CC5
SOFTWARE
A A:611
BINDING SITE FOR RESIDUE MG A 2125
24
CC6
SOFTWARE
G A:377 , A A:612 , A A:614
BINDING SITE FOR RESIDUE MG A 2126
25
CC7
SOFTWARE
C A:621
BINDING SITE FOR RESIDUE MG A 2127
26
CC8
SOFTWARE
U A:625 , A A:626 , A A:627 , A A:628
BINDING SITE FOR RESIDUE MG A 2128
27
CC9
SOFTWARE
C A:630
BINDING SITE FOR RESIDUE MG A 2129
28
DC1
SOFTWARE
A A:629 , C A:630 , C A:632 , U A:1100
BINDING SITE FOR RESIDUE MG A 2130
29
DC2
SOFTWARE
A A:637 , G A:638
BINDING SITE FOR RESIDUE MG A 2131
30
DC3
SOFTWARE
A A:642 , A A:643
BINDING SITE FOR RESIDUE MG A 2132
31
DC4
SOFTWARE
A A:930 , A A:931
BINDING SITE FOR RESIDUE MG A 2133
32
DC5
SOFTWARE
G A:1007
BINDING SITE FOR RESIDUE MG A 2135
33
DC6
SOFTWARE
U A:1059 , G A:1060 , G A:1080
BINDING SITE FOR RESIDUE MG A 2136
34
DC7
SOFTWARE
U A:1081
BINDING SITE FOR RESIDUE MG A 2137
35
DC8
SOFTWARE
G A:1054
BINDING SITE FOR RESIDUE MG A 2138
36
DC9
SOFTWARE
G A:964 , U A:965 , G A:983 , A A:984 , U A:986
BINDING SITE FOR RESIDUE MG A 2139
37
EC1
SOFTWARE
G A:997 , A A:998
BINDING SITE FOR RESIDUE MG A 2140
38
EC2
SOFTWARE
G A:945
BINDING SITE FOR RESIDUE MG A 2141
39
EC3
SOFTWARE
GLY 3:16 , G A:1011
BINDING SITE FOR RESIDUE MG A 2142
40
EC4
SOFTWARE
A A:1047
BINDING SITE FOR RESIDUE MG A 2143
41
EC5
SOFTWARE
U A:1037
BINDING SITE FOR RESIDUE MG A 2144
42
EC6
SOFTWARE
A A:1094
BINDING SITE FOR RESIDUE MG A 2145
43
EC7
SOFTWARE
G A:1210 , G A:1211
BINDING SITE FOR RESIDUE MG A 2146
44
EC8
SOFTWARE
A A:1261 , G A:1876 , TYR M:143
BINDING SITE FOR RESIDUE MG A 2147
45
EC9
SOFTWARE
G A:1926 , U A:1927 , G A:2085
BINDING SITE FOR RESIDUE MG A 2148
46
FC1
SOFTWARE
A A:2055 , G A:2059 , G A:2060 , U A:2062 , U A:2063
BINDING SITE FOR RESIDUE MG A 2149
47
FC2
SOFTWARE
U A:2062
BINDING SITE FOR RESIDUE MG A 2150
48
FC3
SOFTWARE
U A:2053 , A A:2054 , A A:2055 , G A:2059 , G A:2060
BINDING SITE FOR RESIDUE MG A 2151
49
FC4
SOFTWARE
G A:20 , U A:21
BINDING SITE FOR RESIDUE MG A 2152
50
FC5
SOFTWARE
G A:521
BINDING SITE FOR RESIDUE MG A 2153
51
FC6
SOFTWARE
U A:1405 , G A:1406
BINDING SITE FOR RESIDUE MG A 2154
52
FC7
SOFTWARE
A A:169 , C A:170
BINDING SITE FOR RESIDUE MG A 2155
53
FC8
SOFTWARE
G A:394 , U A:408
BINDING SITE FOR RESIDUE MG A 2156
54
FC9
SOFTWARE
G A:559 , G A:560 , C A:561 , A A:562 , A A:563
BINDING SITE FOR RESIDUE MG A 2157
55
GC1
SOFTWARE
A A:1062 , A A:1074 , MG A:2159
BINDING SITE FOR RESIDUE MG A 2158
56
GC2
SOFTWARE
G A:1063 , A A:1074 , MG A:2158
BINDING SITE FOR RESIDUE MG A 2159
57
GC3
SOFTWARE
U A:1084
BINDING SITE FOR RESIDUE MG A 2160
58
GC4
SOFTWARE
G A:1432
BINDING SITE FOR RESIDUE MG A 2161
59
GC5
SOFTWARE
G A:1430 , G A:1432
BINDING SITE FOR RESIDUE MG A 2162
60
GC6
SOFTWARE
G A:1374 , C A:1375 , G A:1674 , G A:1675
BINDING SITE FOR RESIDUE MG A 2163
61
GC7
SOFTWARE
A A:1305 , C A:1306 , U A:1307 , G A:1701
BINDING SITE FOR RESIDUE MG A 2164
62
GC8
SOFTWARE
A A:1303 , A A:1304 , C A:1896
BINDING SITE FOR RESIDUE MG A 2165
63
GC9
SOFTWARE
U A:1703
BINDING SITE FOR RESIDUE MG A 2166
64
HC1
SOFTWARE
G A:1302
BINDING SITE FOR RESIDUE MG A 2167
65
HC2
SOFTWARE
G A:973 , U A:1068 , C A:1075 , G A:2060 , U A:2061 , LEU P:151
BINDING SITE FOR RESIDUE 34G A 2168
66
HC3
SOFTWARE
CYS T:19 , CYS T:22 , ASN T:24 , CYS T:37 , CYS T:40
BINDING SITE FOR RESIDUE ZN T 100
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: RIBOSOMAL_S2_1 (C:14-25)
2: RIBOSOMAL_S12E (R:24-42)
3: RIBOSOMAL_S2_2 (C:118-142)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBOSOMAL_S2_1
PS00962
Ribosomal protein S2 signature 1.
RSSA_PLAF7
14-25
1
C:14-25
2
RIBOSOMAL_S12E
PS01189
Ribosomal protein S12e signature.
RS12_PLAF7
24-42
1
R:24-42
3
RIBOSOMAL_S2_2
PS00963
Ribosomal protein S2 signature 2.
RSSA_PLAF7
118-142
1
C:118-142
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
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)
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Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
Chain L
Chain M
Chain N
Chain O
Chain P
Chain Q
Chain R
Chain S
Chain T
Chain U
Chain V
Chain W
Chain X
Chain Y
Chain Z
Chain 1
Chain 2
Chain 3
Chain 4
Chain 5
Chain 6
Chain 7
Asymmetric Unit 1
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select :A, :C
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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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