4XSO | pdb_00004xso

Crystal structure of apo-form Alr3699/HepE from Anabaena sp. strain PCC 7120


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 
    0.246 (Depositor), 0.251 (DCC) 
  • R-Value Work: 
    0.194 (Depositor), 0.203 (DCC) 
  • R-Value Observed: 
    0.197 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 4XSO

This is version 1.2 of the entry. See complete history

Literature

Structural and enzymatic analyses of a glucosyltransferase Alr3699/HepE involved in Anabaena heterocyst envelop polysaccharide biosynthesis

Wang, X.P.Jiang, Y.L.Dai, Y.N.Cheng, W.Chen, Y.Zhou, C.Z.

(2016) Glycobiology 26: 520-531

  • DOI: https://doi.org/10.1093/glycob/cwv167
  • Primary Citation Related Structures: 
    4XSO, 4XSP, 4XSR, 4XSU

  • PubMed Abstract: 

    Formation of the heterocyst envelope polysaccharide (HEP) is a key process for cyanobacterial heterocyst differentiation. The maturation of HEP in Anabaena sp. strain PCC 7120 is controlled by a gene cluster termed HEP island in addition to an operon alr3698-alr3699, which encodes two putative proteins termed Alr3698/HepD and Alr3699/HepE. Here we report the crystal structures of HepE in the apo-form and three complex forms that bind to UDP-glucose (UDPG), UDP&glucose, and UDP, respectively. The overall structure of HepE displays a typical GT-B fold of glycosyltransferases, comprising two separate β/α/β Rossmann-fold domains that form an inter-domain substrate-binding crevice. Structural analyses combined with enzymatic assays indicate that HepE is a glucosyltransferase using UDPG as a sugar donor. Further site-directed mutageneses enable us to assign the key residues that stabilize the sugar donor and putative acceptor. Based on the comparative structural analyses, we propose a putative catalytic cycle of HepE, which undergoes "open-closed-open" conformational changes upon binding to the substrates and release of products. These findings provide structural and catalytic insights into the first enzyme involved in the HEP biosynthesis pathway.


  • Organizational Affiliation
    • Hefei National Laboratory for Physical Sciences at the Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230027, People's Republic of China.

Macromolecule Content 

  • Total Structure Weight: 85.12 kDa 
  • Atom Count: 5,733 
  • Modeled Residue Count: 728 
  • Deposited Residue Count: 776 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Alr3699 proteinA [auth B],
B [auth A]
388Nostoc sp. PCC 7120 = FACHB-418Mutation(s): 0 
Gene Names: alr3699
UniProt
Find proteins for A0ACD6B985 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576))
Explore A0ACD6B985 
Go to UniProtKB:  A0ACD6B985
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0ACD6B985
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free:  0.246 (Depositor), 0.251 (DCC) 
  • R-Value Work:  0.194 (Depositor), 0.203 (DCC) 
  • R-Value Observed: 0.197 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.289α = 90
b = 133.469β = 90
c = 142.812γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PHENIXphasing
HKL-2000data extraction

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31370757

Revision History  (Full details and data files)

  • Version 1.0: 2016-01-13
    Type: Initial release
  • Version 1.1: 2016-04-13
    Changes: Database references
  • Version 1.2: 2024-03-20
    Changes: Data collection, Database references, Derived calculations