5T87

Crystal structure of CDI complex from Cupriavidus taiwanensis LMG 19424


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Target highlights from the first post-PSI CASP experiment (CASP12, May-August 2016).

Kryshtafovych, A.Albrecht, R.Basle, A.Bule, P.Caputo, A.T.Carvalho, A.L.Chao, K.L.Diskin, R.Fidelis, K.Fontes, C.M.G.A.Fredslund, F.Gilbert, H.J.Goulding, C.W.Hartmann, M.D.Hayes, C.S.Herzberg, O.Hill, J.C.Joachimiak, A.Kohring, G.W.Koning, R.I.Lo Leggio, L.Mangiagalli, M.Michalska, K.Moult, J.Najmudin, S.Nardini, M.Nardone, V.Ndeh, D.Nguyen, T.H.Pintacuda, G.Postel, S.van Raaij, M.J.Roversi, P.Shimon, A.Singh, A.K.Sundberg, E.J.Tars, K.Zitzmann, N.Schwede, T.

(2018) Proteins 86 Suppl 1: 27-50

  • DOI: 10.1002/prot.25392

  • PubMed Abstract: 
  • The functional and biological significance of the selected CASP12 targets are described by the authors of the structures. The crystallographers discuss the most interesting structural features of the target proteins and assess whether these features ...

    The functional and biological significance of the selected CASP12 targets are described by the authors of the structures. The crystallographers discuss the most interesting structural features of the target proteins and assess whether these features were correctly reproduced in the predictions submitted to the CASP12 experiment.


    Organizational Affiliation

    Genome Center, University of California, Davis, 451 Health Sciences Drive, Davis, California, 95616.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CdiI immunity protein
A, B, C, D
116Cupriavidus taiwanensis (strain DSM 17343 / BCRC 17206 / CIP 107171 / LMG 19424 / R1)Mutation(s): 0 
Find proteins for B3R1C2 (Cupriavidus taiwanensis (strain DSM 17343 / BCRC 17206 / CIP 107171 / LMG 19424 / R1))
Go to UniProtKB:  B3R1C2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
CdiA toxin
E, F, G, H
76Cupriavidus taiwanensis (strain DSM 17343 / BCRC 17206 / CIP 107171 / LMG 19424 / R1)Mutation(s): 0 
Find proteins for B3R1C1 (Cupriavidus taiwanensis (strain DSM 17343 / BCRC 17206 / CIP 107171 / LMG 19424 / R1))
Go to UniProtKB:  B3R1C1
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E, F, G, H
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.215 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 107.097α = 90.00
b = 107.097β = 90.00
c = 315.271γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-3000phasing
SBC-Collectdata collection
HKL-3000data scaling
HKL-3000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM115586

Revision History 

  • Version 1.0: 2017-09-13
    Type: Initial release
  • Version 1.1: 2017-09-27
    Type: Author supporting evidence
  • Version 1.2: 2017-11-08
    Type: Database references
  • Version 1.3: 2018-02-28
    Type: Database references