6URT | pdb_00006urt

Extended Sensor Paddles with Bound Lipids Revealed in Mechanosensitive Channel YnaI

PDB DOI: https://doi.org/10.2210/pdb6URT/pdb
EM Map EMD-20862: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli
Mutation(s): No
Membrane Protein: Yes OPM PDBTM MemProtMD

Deposited: 2019-10-24 Released: 2020-10-28
Deposition Author(s): Hu, W., Wang, Z., Zheng, H.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.27 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 6URT

This is version 1.1 of the entry. See complete history.

Literature

Extended Sensor Paddles with Bound Lipids Revealed in Mechanosensitive Channel YnaI

Hu, W., Wang, Z., Zheng, H.

To be published.

Macromolecule Content

Total Structure Weight: 276.8 kDa
Atom Count: 18,263
Modeled Residue Count: 2,317
Deposited Residue Count: 2,401
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Low conductance mechanosensitive channel YnaI	A [auth G] B [auth A] C [auth B] D [auth C] E [auth D] A [auth G], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F]	343	Escherichia coli K-12	Mutation(s): 0 Gene Names: ynaI, b1330, JW1323 Membrane Entity: Yes
UniProt
Find proteins for P0AEB5 (Escherichia coli (strain K12)) Explore P0AEB5 Go to UniProtKB: P0AEB5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0AEB5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
QGD Query on QGD Download:Ideal Coordinates CCD File SDF format, chain N [auth F] SDF format, chain M [auth E] SDF format, chain L [auth D] SDF format, chain K [auth C] SDF format, chain J [auth B] SDF format, chain I [auth A] SDF format, chain H [auth G] MOL2 format, chain N [auth F] MOL2 format, chain M [auth E] MOL2 format, chain L [auth D] MOL2 format, chain K [auth C] MOL2 format, chain J [auth B] MOL2 format, chain I [auth A] MOL2 format, chain H [auth G] mmCIF format, chain N [auth F] mmCIF format, chain M [auth E] mmCIF format, chain L [auth D] mmCIF format, chain K [auth C] mmCIF format, chain J [auth B] mmCIF format, chain I [auth A] mmCIF format, chain H [auth G]	H [auth G] I [auth A] J [auth B] K [auth C] L [auth D] H [auth G], I [auth A], J [auth B], K [auth C], L [auth D], M [auth E], N [auth F]	O-{(R)-hydroxy[(2R)-3-(icosyloxy)-2-(tetradecanoyloxy)propoxy]phosphoryl}-L-serine C₄₀ H₈₀ N O₉ P FQGGGDDJZMNTTN-AMAPPZPBSA-N		Interactions Focus chain H [auth G] Focus chain I [auth A] Focus chain J [auth B] Focus chain K [auth C] Focus chain L [auth D] Focus chain M [auth E] Focus chain N [auth F] Interactions & Density Focus chain H [auth G] Focus chain I [auth A] Focus chain J [auth B] Focus chain K [auth C] Focus chain L [auth D] Focus chain M [auth E] Focus chain N [auth F]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.27 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

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Entry History

Deposition Data

Released Date: 2020-10-28

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2020-10-28
Type: Initial release
Version 1.1: 2024-03-20
Changes: Data collection, Database references

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.