[English] 日本語
Yorodumi Papers
- Database of articles cited by EMDB/PDB/SASBDB data -

+
Search query

Keywords
Structure methods
Author
Journal
IF

-
Structure paper

TitleMolecular insights into the capsular polysaccharide transporter Wza-Wzc complex.
Journal, issue, pagesNat Commun, Vol. 17, Issue 1, Page 1436, Year 2026
Publish dateFeb 5, 2026
AuthorsBiao Yuan / Christian Sieben / Prateek Raj / Tina Rietschel / Rory Hennell James / Anja Gatzemeier / Lothar Jänsch / Thomas C Marlovits / Dirk W Heinz /
PubMed AbstractCapsular polysaccharides (CPS) are key virulence determinants, constituting the protective capsule that surrounds bacterial pathogens. Here, we present the complete cryo-EM structure of Gram-negative ...Capsular polysaccharides (CPS) are key virulence determinants, constituting the protective capsule that surrounds bacterial pathogens. Here, we present the complete cryo-EM structure of Gram-negative bacterial CPS secretion machinery formed by the E. coli K12 Wza-Wzc complex. The structure reveals an elongated, continuous channel spanning the entire envelope that facilitates CPS secretion. Multiple structural snapshots of the ADP-bound Wza-Wzc complex capture intermediate conformations of the double membrane assembly, highlighting its remarkable intrinsic dynamics. In-depth analysis of the isolated Wza translocon and Wzc co-polymerase, reveals mechanistic details of both complex formation and CPS transport. We further uncover the jellyroll domain of Wzc as a CPS-binding module, likely guiding CPS repeat units into a proposed Wzc-Wzy polymerization platform. Collectively, this work provides structural and functional insights into CPS synthesis and transport, advancing our understanding of bacterial capsule formation and virulence mechanisms.
External linksNat Commun / PubMed:41644548 / PubMed Central
MethodsEM (single particle)
Resolution2.7 - 6.7 Å
Structure data

53598

9r60

EMDB-53598, PDB-9r60:
CPS translocon Wza_C1
Method: EM (single particle) / Resolution: 3.0 Å

53599

9r61

EMDB-53599, PDB-9r61:
CPS translocon Wza_C8
Method: EM (single particle) / Resolution: 2.7 Å

53600

9r62

EMDB-53600, PDB-9r62:
CPS co-polymerase Wzc_C1
Method: EM (single particle) / Resolution: 3.4 Å

53601

9r63

EMDB-53601, PDB-9r63:
CPS co-polymerase Wzc_C4
Method: EM (single particle) / Resolution: 3.2 Å

53602

9r64

EMDB-53602, PDB-9r64:
CPS secretion pathway Wza-Wzc_C1 (Conf 0)
Method: EM (single particle) / Resolution: 3.5 Å

53603

9r65

EMDB-53603, PDB-9r65:
CPS secretion pathway Wza-Wzc_C8 (Conf 0)
Method: EM (single particle) / Resolution: 3.2 Å

53604

9r66

EMDB-53604, PDB-9r66:
CPS secretion pathway Wza-Wzc_C1 (Conf 1)
Method: EM (single particle) / Resolution: 3.8 Å

53605

9r67

EMDB-53605, PDB-9r67:
CPS secretion pathway Wza-Wzc_C8 (Conf 1)
Method: EM (single particle) / Resolution: 3.5 Å

53606

9r68

EMDB-53606, PDB-9r68:
CPS secretion pathway Wza-Wzc_C1 (Conf 2)
Method: EM (single particle) / Resolution: 5.8 Å

53607

9r69

EMDB-53607, PDB-9r69:
CPS secretion pathway Wza-Wzc_C8 (Conf 2)
Method: EM (single particle) / Resolution: 4.3 Å

53608

9r6a

EMDB-53608, PDB-9r6a:
CPS secretion pathway Wza-Wzc (Conf 3)
Method: EM (single particle) / Resolution: 6.3 Å

53609

9r6b

EMDB-53609, PDB-9r6b:
CPS secretion pathway Wza-Wzc (Conf 4)
Method: EM (single particle) / Resolution: 4.6 Å

53610

9r6c

EMDB-53610, PDB-9r6c:
CPS secretion pathway Wza-Wzc (Conf 5)
Method: EM (single particle) / Resolution: 6.7 Å

Chemicals

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

ChemComp-MG:
Unknown entry

Source
  • escherichia coli k-12 (bacteria)
KeywordsTRANSPORT PROTEIN / capsular polysaccharide / Capsular polysaccharide co-polymerase / Capsular polysaccharide secretion pathway / CPS transporter

+
About Yorodumi Papers

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242)：Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi Papers

Database of articles cited by EMDB/PDB/SASBDB data

  • Database of articles cited by EMDB, PDB, and SASBDB entries
  • Using PubMed data

Related info.:EMDB / PDB / SASBDB / Yorodumi / EMN Papers / Changes in new EM Navigator and Yorodumi

Read more