7UQW

PCC6803 Cyanophycinase S132DAP covalently bound to cyanophycin dimer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.181 
  • R-Value Observed: 0.182 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

The structure of cyanophycinase in complex with a cyanophycin degradation intermediate.

Sharon, I.Grogg, M.Hilvert, D.Schmeing, T.M.

(2022) Biochim Biophys Acta Gen Subj 1866: 130217-130217

  • DOI: 10.1016/j.bbagen.2022.130217
  • Primary Citation of Related Structures:  
    7UQV, 7UQW

  • PubMed Abstract: 
  • Cyanophycinases are serine protease family enzymes which are required for the metabolism of cyanophycin, the natural polymer multi-L-arginyl-poly(L-aspartic acid). Cyanophycinases degrade cyanophycin to β-Asp-Arg dipeptides, which enables use of this important store of fixed nitrogen ...

    Cyanophycinases are serine protease family enzymes which are required for the metabolism of cyanophycin, the natural polymer multi-L-arginyl-poly(L-aspartic acid). Cyanophycinases degrade cyanophycin to β-Asp-Arg dipeptides, which enables use of this important store of fixed nitrogen.


    Organizational Affiliation

    Department of Biochemistry and Centre de recherche en biologie structurale, McGill University, Montréal, QC H3G 0B1, Canada. Electronic address: martin.schmeing@mcgill.ca.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CyanophycinaseA, B, C276Synechocystis sp. PCC 6803Mutation(s): 1 
Gene Names: cphBslr2001
EC: 3.4.15.6
UniProt
Find proteins for P73832 (Synechocystis sp. (strain PCC 6803 / Kazusa))
Explore P73832 
Go to UniProtKB:  P73832
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP73832
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
7ID (Subject of Investigation/LOI)
Query on 7ID

Download Ideal Coordinates CCD File 
D [auth A],
E [auth A],
G [auth B],
H [auth B],
N [auth C],
D [auth A],
E [auth A],
G [auth B],
H [auth B],
N [auth C],
O [auth C]
(2~{S})-4-[[(2~{S})-5-[[azanyl($l^{4}-azanylidene)methyl]amino]-1-$l^{1}-oxidanyl-1-oxidanylidene-pentan-2-yl]amino]-2-$l^{2}-azanyl-4-oxidanylidene-butanoic acid
C10 H19 N5 O5
QCGCETFHYOEVAI-WDSKDSINSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
F [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
ARF
Query on ARF

Download Ideal Coordinates CCD File 
I [auth B],
J [auth B],
K [auth B],
L [auth B],
M [auth B],
I [auth B],
J [auth B],
K [auth B],
L [auth B],
M [auth B],
P [auth C],
Q [auth C]
FORMAMIDE
C H3 N O
ZHNUHDYFZUAESO-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
DPP
Query on DPP
A, B, C L-PEPTIDE LINKINGC3 H8 N2 O2ALA
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.181 
  • R-Value Observed: 0.182 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.463α = 90
b = 132.947β = 90
c = 164.092γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PHENIXrefinement
XDSdata reduction
pointlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)Canada178084

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-10
    Type: Initial release