6MTE

Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Structures of translationally inactive mammalian ribosomes.

Brown, A.Baird, M.R.Yip, M.C.Murray, J.Shao, S.

(2018) Elife 7: --

  • DOI: 10.7554/eLife.40486
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The cellular levels and activities of ribosomes directly regulate gene expression during numerous physiological processes. The mechanisms that globally repress translation are incompletely understood. Here, we use electron cryomicroscopy to analyze i ...

    The cellular levels and activities of ribosomes directly regulate gene expression during numerous physiological processes. The mechanisms that globally repress translation are incompletely understood. Here, we use electron cryomicroscopy to analyze inactive ribosomes isolated from mammalian reticulocytes, the penultimate stage of red blood cell differentiation. We identify two types of ribosomes that are translationally repressed by protein interactions. The first comprises ribosomes sequestered with elongation factor 2 (eEF2) by SERPINE mRNA binding protein 1 (SERBP1) occupying the ribosomal mRNA entrance channel. The second type are translationally repressed by a novel ribosome-binding protein, interferon-related developmental regulator 2 (IFRD2), which spans the P and E sites and inserts a C-terminal helix into the mRNA exit channel to preclude translation. IFRD2 binds ribosomes with a tRNA occupying a noncanonical binding site, the 'Z site', on the ribosome. These structures provide functional insights into how ribosomal interactions may suppress translation to regulate gene expression.


    Organizational Affiliation

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, United States.,Department of Cell Biology, Harvard Medical School, Boston, United States.,MRC Laboratory of Molecular Biology, Cambridge, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
uL2
A
248Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL8
Find proteins for G1TT27 (Oryctolagus cuniculus)
Go to Gene View: RPL8
Go to UniProtKB:  G1TT27
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
uL3
B
394Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL3
Find proteins for G1TL06 (Oryctolagus cuniculus)
Go to Gene View: RPL3
Go to UniProtKB:  G1TL06
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
uL4
C
362N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
uL18
D
293Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL5
Find proteins for G1SYJ6 (Oryctolagus cuniculus)
Go to Gene View: RPL5
Go to UniProtKB:  G1SYJ6
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
eL6
E
291Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL6
Find proteins for G1SKF7 (Oryctolagus cuniculus)
Go to Gene View: RPL6
Go to UniProtKB:  G1SKF7
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
uL30
F
225Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL7
Find proteins for G1SV32 (Oryctolagus cuniculus)
Go to Gene View: RPL7
Go to UniProtKB:  G1SV32
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
eL8
G
319N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
uL6
H
190Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1TX33 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TX33
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
uL16
I
214Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL10
Find proteins for B7NZQ2 (Oryctolagus cuniculus)
Go to Gene View: RPL10
Go to UniProtKB:  B7NZQ2
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
uL5
J
170Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL11
Find proteins for G1TUB8 (Oryctolagus cuniculus)
Go to Gene View: RPL11
Go to UniProtKB:  G1TUB8
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
eL13
L
210N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
eL14
M
138Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL14
Find proteins for U3KNW6 (Oryctolagus cuniculus)
Go to Gene View: RPL14
Go to UniProtKB:  U3KNW6
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
eL15
N
203Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL15 (LOC100358370)
Find proteins for G1T0C1 (Oryctolagus cuniculus)
Go to Gene View: RPL15
Go to UniProtKB:  G1T0C1
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
uL13
O
199N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
uL22
P
153Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1SCJ6 (Oryctolagus cuniculus)
Go to UniProtKB:  G1SCJ6
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
eL18
Q
187N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
eL19
R
180Bos taurusMutation(s): 0 
Gene Names: RPL19
Find proteins for Q3T0W9 (Bos taurus)
Go to Gene View: RPL19
Go to UniProtKB:  Q3T0W9
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
eL20
S
176Sus scrofaMutation(s): 0 
Gene Names: RPL18A
Find proteins for A0A287APR1 (Sus scrofa)
Go to Gene View: RPL18A
Go to UniProtKB:  A0A287APR1
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
eL21
T
159Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL21 (LOC100343039)
Find proteins for G1SHQ2 (Oryctolagus cuniculus)
Go to Gene View: RPL21
Go to UniProtKB:  G1SHQ2
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
eL22
U
99N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
uL14
V
131Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL23
Find proteins for G1T6D1 (Oryctolagus cuniculus)
Go to Gene View: RPL23
Go to UniProtKB:  G1T6D1
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
eL24
W
157Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL24
Find proteins for G1SE28 (Oryctolagus cuniculus)
Go to Gene View: RPL24
Go to UniProtKB:  G1SE28
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
uL23
X
118Bos taurusMutation(s): 0 
Gene Names: RPL23A
Find proteins for Q24JY1 (Bos taurus)
Go to Gene View: RPL23A
Go to UniProtKB:  Q24JY1
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
uL24
Y
134Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL26
Find proteins for G1SQH0 (Oryctolagus cuniculus)
Go to Gene View: RPL26
Go to UniProtKB:  G1SQH0
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
eL27
Z
135Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100356974 (RPL27)
Find proteins for G1TXF6 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TXF6
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
uL15
a
147Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL27A
Find proteins for G1SNY0 (Oryctolagus cuniculus)
Go to Gene View: RPL27A
Go to UniProtKB:  G1SNY0
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
eL29
b
245N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
eL30
c
98Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100343129
Find proteins for G1TDL2 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TDL2
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
eL31
d
107Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL31
Find proteins for G1SHG0 (Oryctolagus cuniculus)
Go to Gene View: RPL31
Go to UniProtKB:  G1SHG0
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
eL32
e
128Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1TUN8 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TUN8
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
eL33
f
109Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL35A
Find proteins for G1SF08 (Oryctolagus cuniculus)
Go to Gene View: RPL35A
Go to UniProtKB:  G1SF08
Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
eL34
g
114Homo sapiensMutation(s): 0 
Gene Names: RPL34
Find proteins for P49207 (Homo sapiens)
Go to Gene View: RPL34
Go to UniProtKB:  P49207
Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
uL29
h
122Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL35
Find proteins for G1SIT5 (Oryctolagus cuniculus)
Go to Gene View: RPL35
Go to UniProtKB:  G1SIT5
Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
eL36
i
102Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100348796
Find proteins for G1TTQ5 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TTQ5
Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
eL37
j
86Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL37
Find proteins for U3KPD5 (Oryctolagus cuniculus)
Go to Gene View: RPL37
Go to UniProtKB:  U3KPD5
Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
eL38
k
69Bos taurusMutation(s): 0 
Gene Names: RPL38
Find proteins for Q32PB9 (Bos taurus)
Go to Gene View: RPL38
Go to UniProtKB:  Q32PB9
Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
eL39
l
50Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100343258
Find proteins for G1TTN1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TTN1
Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
eL40
m
52N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
eL41
n
25N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
eL42
o
103Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100353469
Find proteins for G1T040 (Oryctolagus cuniculus)
Go to UniProtKB:  G1T040
Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
eL43
p
91Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL37A
Find proteins for G1SY53 (Oryctolagus cuniculus)
Go to Gene View: RPL37A
Go to UniProtKB:  G1SY53
Entity ID: 45
MoleculeChainsSequence LengthOrganismDetails
eL28
r
124Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100358162
Find proteins for G1U7L1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1U7L1
Entity ID: 46
MoleculeChainsSequence LengthOrganismDetails
uL10
s
196Sus scrofaMutation(s): 0 
Gene Names: RPLP0
Find proteins for Q29214 (Sus scrofa)
Go to Gene View: RPLP0
Go to UniProtKB:  Q29214
Entity ID: 47
MoleculeChainsSequence LengthOrganismDetails
uL11
t
153Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL12
Find proteins for G1SMR7 (Oryctolagus cuniculus)
Go to Gene View: RPL12
Go to UniProtKB:  G1SMR7
Entity ID: 48
MoleculeChainsSequence LengthOrganismDetails
eEF2
v
848N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
SERBP1
w
55N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
uS2
AA
217N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 52
MoleculeChainsSequence LengthOrganismDetails
eS1
BB
213Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS3A (LOC100342838, LOC100348981)
Find proteins for G1SS70 (Oryctolagus cuniculus)
Go to Gene View: RPS3A
Go to UniProtKB:  G1SS70
Entity ID: 53
MoleculeChainsSequence LengthOrganismDetails
uS5
CC
221Bos taurusMutation(s): 0 
Gene Names: RPS2
Find proteins for O18789 (Bos taurus)
Go to Gene View: RPS2
Go to UniProtKB:  O18789
Entity ID: 54
MoleculeChainsSequence LengthOrganismDetails
uS3
DD
228Canis lupus familiarisMutation(s): 0 
Gene Names: RPS3
EC: 4.2.99.18
Find proteins for E2RH47 (Canis lupus familiaris)
Go to Gene View: RPS3
Go to UniProtKB:  E2RH47
Entity ID: 55
MoleculeChainsSequence LengthOrganismDetails
eS4
EE
262Chlorocebus aethiopsMutation(s): 0 
Gene Names: RPS4X
Find proteins for Q76N24 (Chlorocebus aethiops)
Go to Gene View: RPS4X
Go to UniProtKB:  Q76N24
Entity ID: 56
MoleculeChainsSequence LengthOrganismDetails
uS7
FF
204Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS5
Find proteins for G1TFM5 (Oryctolagus cuniculus)
Go to Gene View: RPS5
Go to UniProtKB:  G1TFM5
Entity ID: 57
MoleculeChainsSequence LengthOrganismDetails
eS6
GG
237Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS6 (LOC100339133)
Find proteins for G1TM55 (Oryctolagus cuniculus)
Go to Gene View: RPS6
Go to UniProtKB:  G1TM55
Entity ID: 58
MoleculeChainsSequence LengthOrganismDetails
eS7
HH
194Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS7
Find proteins for G1SVB0 (Oryctolagus cuniculus)
Go to Gene View: RPS7
Go to UniProtKB:  G1SVB0
Entity ID: 59
MoleculeChainsSequence LengthOrganismDetails
eS8
II
206Bos taurusMutation(s): 0 
Gene Names: RPS8
Find proteins for Q5E958 (Bos taurus)
Go to Gene View: RPS8
Go to UniProtKB:  Q5E958
Entity ID: 60
MoleculeChainsSequence LengthOrganismDetails
uS4
JJ
185Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS9
Find proteins for B7NZS8 (Oryctolagus cuniculus)
Go to Gene View: RPS9
Go to UniProtKB:  B7NZS8
Entity ID: 61
MoleculeChainsSequence LengthOrganismDetails
eS10
KK
96Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100348511
Find proteins for G1TPV3 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TPV3
Entity ID: 62
MoleculeChainsSequence LengthOrganismDetails
uS17
LL
158Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS11
Find proteins for G1TRM4 (Oryctolagus cuniculus)
Go to Gene View: RPS11
Go to UniProtKB:  G1TRM4
Entity ID: 63
MoleculeChainsSequence LengthOrganismDetails
eS12
MM
117Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS12
Find proteins for G1SFR8 (Oryctolagus cuniculus)
Go to Gene View: RPS12
Go to UniProtKB:  G1SFR8
Entity ID: 64
MoleculeChainsSequence LengthOrganismDetails
uS15
NN
149Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS13
Find proteins for G1SP51 (Oryctolagus cuniculus)
Go to Gene View: RPS13
Go to UniProtKB:  G1SP51
Entity ID: 65
MoleculeChainsSequence LengthOrganismDetails
uS11
OO
136Rattus norvegicusMutation(s): 0 
Gene Names: Rps14
Find proteins for P13471 (Rattus norvegicus)
Go to UniProtKB:  P13471
Entity ID: 66
MoleculeChainsSequence LengthOrganismDetails
uS19
PP
125Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS15
Find proteins for G1U0Q2 (Oryctolagus cuniculus)
Go to Gene View: RPS15
Go to UniProtKB:  G1U0Q2
Entity ID: 67
MoleculeChainsSequence LengthOrganismDetails
uS9
QQ
142Bos taurusMutation(s): 0 
Gene Names: RPS16
Find proteins for Q3T0X6 (Bos taurus)
Go to Gene View: RPS16
Go to UniProtKB:  Q3T0X6
Entity ID: 68
MoleculeChainsSequence LengthOrganismDetails
eS17
RR
132Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS17
Find proteins for G1TU13 (Oryctolagus cuniculus)
Go to Gene View: RPS17
Go to UniProtKB:  G1TU13
Entity ID: 69
MoleculeChainsSequence LengthOrganismDetails
uS13
SS
144Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100356144
Find proteins for G1TPG3 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TPG3
Entity ID: 70
MoleculeChainsSequence LengthOrganismDetails
eS19
TT
141N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 71
MoleculeChainsSequence LengthOrganismDetails
uS10
UU
100Bos taurusMutation(s): 0 
Gene Names: RPS20
Find proteins for Q3ZBH8 (Bos taurus)
Go to Gene View: RPS20
Go to UniProtKB:  Q3ZBH8
Entity ID: 72
MoleculeChainsSequence LengthOrganismDetails
eS21
VV
83Bos taurusMutation(s): 0 
Gene Names: RPS21
Find proteins for Q32PB8 (Bos taurus)
Go to Gene View: RPS21
Go to UniProtKB:  Q32PB8
Entity ID: 73
MoleculeChainsSequence LengthOrganismDetails
uS8
WW
129Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS15A
Find proteins for G1TG89 (Oryctolagus cuniculus)
Go to Gene View: RPS15A
Go to UniProtKB:  G1TG89
Entity ID: 74
MoleculeChainsSequence LengthOrganismDetails
uS12
XX
141Bos taurusMutation(s): 0 
Gene Names: RPS23
Find proteins for Q3T199 (Bos taurus)
Go to Gene View: RPS23
Go to UniProtKB:  Q3T199
Entity ID: 75
MoleculeChainsSequence LengthOrganismDetails
eS24
YY
124Homo sapiensMutation(s): 0 
Gene Names: RPS24
Find proteins for P62847 (Homo sapiens)
Go to Gene View: RPS24
Go to UniProtKB:  P62847
Entity ID: 76
MoleculeChainsSequence LengthOrganismDetails
eS25
ZZ
75Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS25
Find proteins for G1TDB3 (Oryctolagus cuniculus)
Go to Gene View: RPS25
Go to UniProtKB:  G1TDB3
Entity ID: 77
MoleculeChainsSequence LengthOrganismDetails
eS26
aa
101Bos taurusMutation(s): 0 
Gene Names: RPS26
Find proteins for Q56JV1 (Bos taurus)
Go to Gene View: RPS26
Go to UniProtKB:  Q56JV1
Entity ID: 78
MoleculeChainsSequence LengthOrganismDetails
eS27
bb
83Bos taurusMutation(s): 0 
Gene Names: RPS27
Find proteins for Q2KHT7 (Bos taurus)
Go to Gene View: RPS27
Go to UniProtKB:  Q2KHT7
Entity ID: 79
MoleculeChainsSequence LengthOrganismDetails
eS28
cc
62Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS28
Find proteins for G1TIB4 (Oryctolagus cuniculus)
Go to Gene View: RPS28
Go to UniProtKB:  G1TIB4
Entity ID: 80
MoleculeChainsSequence LengthOrganismDetails
uS14
dd
55Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS29
Find proteins for G1U7M4 (Oryctolagus cuniculus)
Go to Gene View: RPS29
Go to UniProtKB:  G1U7M4
Entity ID: 81
MoleculeChainsSequence LengthOrganismDetails
eS30
ee
55Oryctolagus cuniculusMutation(s): 0 
Gene Names: FAU
Find proteins for G1T8A2 (Oryctolagus cuniculus)
Go to Gene View: FAU
Go to UniProtKB:  G1T8A2
Entity ID: 82
MoleculeChainsSequence LengthOrganismDetails
eS31
ff
68Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100348379
Find proteins for G1SK22 (Oryctolagus cuniculus)
Go to UniProtKB:  G1SK22
Entity ID: 83
MoleculeChainsSequence LengthOrganismDetails
RACK1
gg
313Oryctolagus cuniculusMutation(s): 0 
Gene Names: RACK1
Find proteins for G1SJB4 (Oryctolagus cuniculus)
Go to Gene View: RACK1
Go to UniProtKB:  G1SJB4
Entity ID: 1
MoleculeChainsLengthOrganism
28S rRNA53597Oryctolagus cuniculus
Entity ID: 2
MoleculeChainsLengthOrganism
5S rRNA7120Oryctolagus cuniculus
Entity ID: 3
MoleculeChainsLengthOrganism
5.8S rRNA8151Oryctolagus cuniculus
Entity ID: 50
MoleculeChainsLengthOrganism
18S rRNA91698Oryctolagus cuniculus
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

Download SDF File 
Download CCD File 
v
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
 Ligand Interaction
ZN
Query on ZN

Download SDF File 
Download CCD File 
aa, ff, g, j, KK, m, o, p
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
5, 7, 8, 9, A, a, j, P, TT, V, v
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  33 Unique
IDChainsTypeFormula2D DiagramParent
A2M
Query on A2M
5, 9
RNA LINKINGC11 H16 N5 O7 PA
PSU
Query on PSU
5, 9
RNA LINKINGC9 H13 N2 O9 PU
5MC
Query on 5MC
5, 9
RNA LINKINGC10 H16 N3 O8 PC
DDE
Query on DDE
v
L-PEPTIDE LINKINGC13 H24 N5 O3HIS
B9B
Query on B9B
5
RNA linkingC13 H20 N5 O8 PG
6MZ
Query on 6MZ
5, 9
RNA LINKINGC11 H16 N5 O7 PA
OMU
Query on OMU
5, 8, 9
RNA LINKINGC10 H15 N2 O9 PU
M7A
Query on M7A
5, 9
RNA linkingC11 H18 N5 O7 PA
MHG
Query on MHG
5
RNA linkingC17 H30 N5 O8 PG
MLZ
Query on MLZ
C, m
L-PEPTIDE LINKINGC7 H16 N2 O2LYS
B8N
Query on B8N
9
RNA linkingC14 H22 N3 O11 P

--

B8Q
Query on B8Q
5, 9
RNA linkingC10 H18 N3 O8 PC
BGH
Query on BGH
5
RNA LINKINGC13 H20 N5 O9 PG
1MA
Query on 1MA
5
RNA LINKINGC11 H16 N5 O7 PA
OMC
Query on OMC
5, 9
RNA LINKINGC10 H16 N3 O8 PC
MA6
Query on MA6
9
RNA LINKINGC12 H18 N5 O7 PA
P7G
Query on P7G
5
RNA linkingC13 H22 N5 O8 PG
B8K
Query on B8K
5
RNA linkingC12 H18 N5 O9 PG
B8W
Query on B8W
5
RNA linkingC11 H16 N5 O8 PG
E6G
Query on E6G
5
RNA linkingC12 H18 N5 O8 PG
2MG
Query on 2MG
5
RNA LINKINGC11 H16 N5 O8 PG
I4U
Query on I4U
5
RNA linkingC12 H19 N2 O9 PU
UR3
Query on UR3
5, 9
RNA LINKINGC10 H15 N2 O9 PU
E7G
Query on E7G
5
RNA linkingC12 H20 N5 O8 PG
E3C
Query on E3C
9
RNA linkingC11 H20 N3 O8 PC
OMG
Query on OMG
5, 9
RNA LINKINGC11 H16 N5 O8 PG
7MG
Query on 7MG
5
RNA LINKINGC11 H18 N5 O8 PG
5MU
Query on 5MU
5, 9
RNA LINKINGC10 H15 N2 O9 PU
B8T
Query on B8T
5
RNA linkingC10 H16 N3 O8 PC
P4U
Query on P4U
5
RNA linkingC12 H19 N2 O9 PU
B8H
Query on B8H
5
RNA linkingC10 H15 N2 O9 PU
4AC
Query on 4AC
9
RNA LINKINGC11 H16 N3 O9 P

--

B9H
Query on B9H
5
RNA linkingC13 H24 N3 O8 PC
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-11-21
    Type: Initial release
  • Version 2.0: 2019-05-15
    Type: Atomic model, Data collection, Derived calculations, Polymer sequence