7Q02

Zn-free structure of lipocalin-like Milk protein, inspired from Diploptera punctata, expressed in Saccharomyces cerevisiae


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.150 
  • R-Value Observed: 0.152 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Structure of recombinantly expressed cockroach Lili-Mip protein in glycosylated and deglycosylated forms.

KanagaVijayan, D.Subramanian, R.Santhakumari, P.R.Chavas, L.M.G.Banerjee, S.

(2022) Biochim Biophys Acta Gen Subj 1866: 130064-130064

  • DOI: https://doi.org/10.1016/j.bbagen.2021.130064
  • Primary Citation of Related Structures:  
    7BKX, 7Q02

  • PubMed Abstract: 

    The Pacific Beetle Cockroach is the only known viviparous cockroach. The pregnant females provide nutrition to the embryos by secreting milk proteins (Lili-Mips), which crystallize in vivo. The crystals that grow in the embryo are heterogeneous in their protein sequence. It is not apparent from the structure determined what role heterogeneity and glycosylation played in crystallization. Lili-Mips are very nutritious.


  • Organizational Affiliation

    Biological Sciences, Purdue University, West Lafayette, IN 47907, USA; Institute for Stem Cell Science and Regenerative Medicine, Bengaluru, Karnataka 560065, India.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Milk protein164Diploptera punctataMutation(s): 0 
UniProt
Find proteins for Q6SVB5 (Diploptera punctata)
Explore Q6SVB5 
Go to UniProtKB:  Q6SVB5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6SVB5
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PAM (Subject of Investigation/LOI)
Query on PAM

Download Ideal Coordinates CCD File 
B [auth A]PALMITOLEIC ACID
C16 H30 O2
SECPZKHBENQXJG-FPLPWBNLSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.150 
  • R-Value Observed: 0.152 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 33.362α = 90
b = 47.692β = 90
c = 97.612γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Biotechnology (DBT, India)IndiaBT/PR5801/INF/22/156/2012
Department of Biotechnology (DBT, India)IndiaDBT-RA fellowship
Science and Engineering Research Board (SERB)Indiapostdoc fellowship

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-22
    Type: Initial release
  • Version 1.1: 2022-05-18
    Changes: Database references
  • Version 1.2: 2024-01-31
    Changes: Data collection, Refinement description