6D2C

Structure of Ulvan lyase from Nonlaben Ulvanivorans- NLR48


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.906 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.169 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural and functional characterization of PL28 family ulvan lyase NLR48 fromNonlabens ulvanivorans.

Ulaganathan, T.Banin, E.Helbert, W.Cygler, M.

(2018) J. Biol. Chem. 293: 11564-11573


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ulvan lyase
A, B
303Nonlabens ulvanivoransMutation(s): 0 
Find proteins for A0A084JZF2 (Nonlabens ulvanivorans)
Go to UniProtKB:  A0A084JZF2
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
CA
Query on CA

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Download CCD File 
A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

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Download CCD File 
A, B
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.906 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.169 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 82.488α = 90.00
b = 102.117β = 90.00
c = 103.708γ = 90.00
Software Package:
Software NamePurpose
AutoSolphasing
PHENIXrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-06-06
    Type: Initial release
  • Version 1.1: 2018-12-19
    Type: Data collection, Database references
  • Version 1.2: 2019-04-17
    Type: Author supporting evidence, Data collection