6QDW

Cryo-EM structure of the 50S ribosomal subunit at 2.83 Angstroms with modeled GBC SecM peptide


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.83 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Cryo-EM structure of the 50S ribosomal subunit at 2.83 Angstroms with modeled GBC SecM peptide

Schulte, L.Reitz, J.Hodirnau, V.V.Kudlinzki, D.Mao, J.Glaubitz, C.Frangakis, A.Schwalbe, H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L28
0
78Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmB
Find proteins for A0A140N3L9 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N3L9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L29
1
63Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmC
Find proteins for A0A140N7F5 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N7F5
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L30
2
59Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmD
Find proteins for A0A140N7G4 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N7G4
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L32
3
57Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmF
Find proteins for A0A140NAZ2 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140NAZ2
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L33
4
55Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmG
Find proteins for A0A140N5Z7 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N5Z7
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L34
6
46Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmH
Find proteins for A0A140NHV0 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140NHV0
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L35
7
65Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmI
Find proteins for A0A140N9E3 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N9E3
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L36
8
38Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmJ
Find proteins for A0A140N5M6 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N5M6
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L2
c
273Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplB
Find proteins for A0A140N7J1 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N7J1
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L3
d
209Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplC
Find proteins for A0A140N3G7 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N3G7
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L4
e
201Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplD
Find proteins for A0A140N5K8 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N5K8
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L5
f
179Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplE
Find proteins for A0A140N5A3 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N5A3
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L6
g
177Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplF
Find proteins for A0A140N2T1 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N2T1
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L9
h
149Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplI
Find proteins for A0A140NDV1 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140NDV1
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L13
j
142Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplM
Find proteins for A0A140N598 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N598
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L14
k
123Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplN
Find proteins for A0A140N3H4 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N3H4
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L15
l
144Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplO
Find proteins for A0A140N711 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N711
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L16
m
136Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplP
Find proteins for A0A140N6Z2 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N6Z2
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L17
n
127Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplQ
Find proteins for A0A140N4M0 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N4M0
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L18
o
117Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplR
Find proteins for A0A140N4L0 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N4L0
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L19
p
115Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplS
Find proteins for A0A140N6T7 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N6T7
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L20
q
118Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplT
Find proteins for A0A140NBS1 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140NBS1
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L21
r
103Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplU
Find proteins for A0A140N5D7 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N5D7
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L22
s
110Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplV
Find proteins for A0A140N2S3 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N2S3
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L23
t
100Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplW
Find proteins for C6EGE8 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  C6EGE8
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L24
u
104Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplX
Find proteins for A0A140N5L7 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N5L7
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L25
w
94Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rplY
Find proteins for A0A140N846 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N846
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L27
y
85Escherichia coli (strain B / BL21-DE3)Mutation(s): 0 
Gene Names: rpmA
Find proteins for A0A140N340 (Escherichia coli (strain B / BL21-DE3))
Go to UniProtKB:  A0A140N340
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
Gamma-crystallin B
z
61Bos taurusMutation(s): 0 
Gene Names: CRYGB
Find proteins for P02526 (Bos taurus)
Go to Gene View: CRYGB
Go to UniProtKB:  P02526
Entity ID: 9
MoleculeChainsLengthOrganism
5S rRNAa120Escherichia coli BL21(DE3)
Entity ID: 10
MoleculeChainsLengthOrganism
23S rRNAb2906Escherichia coli BL21(DE3)
Entity ID: 29
MoleculeChainsLengthOrganism
glycine-tRNA glyTv75Escherichia coli BL21(DE3)
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.83 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2020-01-15
    Type: Initial release