3DEG

Complex of elongating Escherichia coli 70S ribosome and EF4(LepA)-GMPPNP

Structural Biology Knowledgebase: 3DEG SBKB.org


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10.9 Å
  • Reconstruction Method: n/a

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3DEG

Classification: RIBOSOME

Total Structure Weight: 190060.31


Macromolecule Entities
Molecule Chains Length Organism Details
GTP-binding protein lepA C 545 Escherichia coli EC#: 3.6.5.n1 IUBMB
Fragment: EF4
Gene Name(s): lepA b2569 JW2553
30S ribosomal protein S12 D 123 Escherichia coli Gene Name(s): rpsL strA b3342 JW3304
50S ribosomal protein L11 H 141 Escherichia coli Gene Name(s): rplK relC b3983 JW3946
Macromolecule Entities
Molecule Chains Length Organism Details
A/L-tRNA A 76 Escherichia coli
P-tRNA B 77 Escherichia coli
30S RNA helix 8 E 16 Escherichia coli
30S RNA helix 14 F 12 Escherichia coli
50S RNA helix 42-44 G 70 Escherichia coli
50S RNA helix 95 I 29 Escherichia coli
50S RNA helix 71 J 18 Escherichia coli
50S RNA helix 92 K 15 Escherichia coli

Small Molecules
Modified Residues 11 Unique
ID Chains Type Formula 2D Diagram Parent
2MG
Query on 2MG
A RNA LINKING C11 H16 N5 O8 P G
H2U
Query on H2U
A RNA LINKING C9 H15 N2 O9 P U
M2G
Query on M2G
A RNA LINKING C12 H18 N5 O8 P G
OMC
Query on OMC
A RNA LINKING C10 H16 N3 O8 P C
OMG
Query on OMG
A RNA LINKING C11 H16 N5 O8 P G
YG
Query on YG
A RNA LINKING C21 H29 N6 O12 P G
PSU
Query on PSU
A RNA LINKING C9 H13 N2 O9 P U
5MC
Query on 5MC
A RNA LINKING C10 H16 N3 O8 P C
7MG
Query on 7MG
A RNA LINKING C11 H18 N5 O8 P G
5MU
Query on 5MU
A, B RNA LINKING C10 H15 N2 O9 P U
1MA
Query on 1MA
A RNA LINKING C11 H16 N5 O7 P A

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10.9 Å
  • Reconstruction Method: n/a

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-06-10
  • Released Date: 2008-08-19
  • Deposition author(s): Connell, S.R., Topf, M., Qin, Y., Wilson, D.N., Mielke, T., Fucini, P., Nierhaus, K.H., Spahn, C.M.T.

Revision History

  • 2014-04-16
    Type: Citation | Details: Citation update
  • 2012-05-30
    Type: Refinement description | Details: added map resolution
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4