5X6C

Crystal structure of SepRS-SepCysE from Methanocaldococcus jannaschii


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.101 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural basis for tRNA-dependent cysteine biosynthesis

Chen, M.Kato, K.Kubo, Y.Tanaka, Y.Liu, Y.Long, F.Whitman, W.B.Lill, P.Gatsogiannis, C.Raunser, S.Shimizu, N.Shinoda, A.Nakamura, A.Tanaka, I.Yao, M.

(2017) Nat Commun 8: 1521-1521


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
O-phosphoserine--tRNA(Cys) ligase
A, B
553N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Uncharacterized protein MJ1481
E, F
216Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)N/A
Find proteins for Q58876 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440))
Go to UniProtKB:  Q58876
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download SDF File 
Download CCD File 
A, B
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.101 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.185 
  • Space Group: I 21 3
Unit Cell:
Length (Å)Angle (°)
a = 279.821α = 90.00
b = 279.821β = 90.00
c = 279.821γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-12-06
    Type: Initial release