6FRK

Structure of a prehandover mammalian ribosomal SRP and SRP receptor targeting complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.7 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of a prehandover mammalian ribosomal SRP·SRP receptor targeting complex.

Jomaa, A.Lee, J.H.Chandrasekar, S.Boehringer, D.Shan, S.O.Ban, N.Kobayashi, K.

(2018) Science 360: 323-327


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL28
3
125N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L12
4
163N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
60S acidic ribosomal protein P0
6
202N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L8
A
244N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL3
B
394N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL4
C
367N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL18
D
292N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL6
E
236N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL30
F
225N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL8
G
238N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL6
H
190N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL16
I
213N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL5
J
170N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL13
L
210N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL14
M
138N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L15
N
203N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL13
O
201N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL22
P
153N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL18
Q
187N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL19
R
180N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL20
S
175N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL21
T
159N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL22
U
99N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L23
V
131N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL24
W
63N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL23
X
119N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL24
Y
134N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L27
Z
135N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL15
a
147N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L29
b
75N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL30
c
94N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL31
d
107N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL32
e
128N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL33
f
109N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL34
g
114N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein uL29
h
122N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL36
i
102N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L37
j
86N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL38
k
69N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 45
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL39
l
50N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 46
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL40
m
52N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 47
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL41
n
23N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 48
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL42
o
104N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein eL43
p
91N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 50
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle subunit SRP19
q
105Canis lupus familiarisMutation(s): 0 
Gene Names: SRP19
Find proteins for J9PAS6 (Canis lupus familiaris)
Go to Gene View: SRP19
Go to UniProtKB:  J9PAS6
Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle subunit SRP72,Signal recognition particle subunit SRP72,Signal recognition particle subunit SRP72
r
605Canis lupus familiarisMutation(s): 0 
Gene Names: SRP72
Find proteins for P33731 (Canis lupus familiaris)
Go to Gene View: SRP72
Go to UniProtKB:  P33731
Entity ID: 52
MoleculeChainsSequence LengthOrganismDetails
Signal sequence
t
11N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 53
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle subunit SRP68
u
568Canis lupus familiarisMutation(s): 0 
Gene Names: SRP68
Find proteins for Q00004 (Canis lupus familiaris)
Go to Gene View: SRP68
Go to UniProtKB:  Q00004
Entity ID: 54
MoleculeChainsSequence LengthOrganismDetails
SRP receptor beta subunit
v
213Oryctolagus cuniculusMutation(s): 0 
Gene Names: SRPRB
Find proteins for G1STG2 (Oryctolagus cuniculus)
Go to Gene View: SRPRB
Go to UniProtKB:  G1STG2
Entity ID: 55
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle 9 kDa protein
w
74Canis lupus familiarisMutation(s): 0 
Gene Names: SRP9
Find proteins for P21262 (Canis lupus familiaris)
Go to Gene View: SRP9
Go to UniProtKB:  P21262
Entity ID: 56
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle 54 kDa protein
x
504Canis lupus familiarisMutation(s): 0 
Gene Names: SRP54
Find proteins for P61010 (Canis lupus familiaris)
Go to Gene View: SRP54
Go to UniProtKB:  P61010
Entity ID: 57
MoleculeChainsSequence LengthOrganismDetails
SRP receptor alpha subunit
y
657Oryctolagus cuniculusMutation(s): 0 
Gene Names: SRPRA
Find proteins for G1TCX6 (Oryctolagus cuniculus)
Go to Gene View: SRPRA
Go to UniProtKB:  G1TCX6
Entity ID: 58
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle 14 kDa protein
z
110Canis lupus familiarisMutation(s): 0 
Gene Names: SRP14
Find proteins for P16255 (Canis lupus familiaris)
Go to Gene View: SRP14
Go to UniProtKB:  P16255
Entity ID: 1
MoleculeChainsLengthOrganism
Canis lupus familiaris RNA, 7SL, cytoplasmic 1 (RN7SL1), SRP RNA1299Canis lupus familiaris
Entity ID: 2
MoleculeChainsLengthOrganism
tRNA276Oryctolagus cuniculus
Entity ID: 5
MoleculeChainsLengthOrganism
28S ribosomal RNA53658Oryctolagus cuniculus
Entity ID: 7
MoleculeChainsLengthOrganism
5S ribosomal RNA7120Oryctolagus cuniculus
Entity ID: 8
MoleculeChainsLengthOrganism
5.8S ribosomal RNA8156Oryctolagus cuniculus
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
j, m, o
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GTP
Query on GTP

Download SDF File 
Download CCD File 
v
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
5, 7, 8, g, P, v, V, x, y
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
GNP
Query on GNP

Download SDF File 
Download CCD File 
x, y
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
r
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.7 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland51NF40_141735
Swiss National Science FoundationSwitzerland310030B_163478

Revision History 

  • Version 1.0: 2018-03-28
    Type: Initial release
  • Version 1.1: 2018-04-11
    Type: Data collection, Database references
  • Version 1.2: 2018-05-02
    Type: Data collection, Database references