7D06 | pdb_00007d06

Cryo EM structure of the nucleotide free Acinetobacter MlaFEDB complex

PDB DOI: https://doi.org/10.2210/pdb7D06/pdb
EM Map EMD-30525: EMDB EMDataResource

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

Deposited: 2020-09-09 Released: 2020-12-16
Deposition Author(s): Zhang, Y.Y., Fan, Q.X., Chi, X.M., Zhou, Q., Li, Y.Y.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.10 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Cryo-EM structures of Acinetobacter baumannii glycerophospholipid transporter.

Zhang, Y., Fan, Q., Chi, X., Zhou, Q., Li, Y.

(2020) Cell Discov 6: 86-86

PubMed: 33298869 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1038/s41421-020-00230-5
Primary Citation Related Structures:
7D06, 7D08, 7D09, 7D0A

Organizational Affiliation

Center for Infectious Disease Research, Westlake Laboratory of Life Sciences and Biomedicine, Westlake University, Hangzhou, Zhejiang, 310024, China.

Macromolecule Content

Total Structure Weight: 292.41 kDa
Atom Count: 18,328
Modeled Residue Count: 2,374
Deposited Residue Count: 2,624
Unique protein chains: 4

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Intermembrane phospholipid transport system permease protein MlaE	A, D	258	Acinetobacter baumannii	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for V5V9F4 (Acinetobacter baumannii) Explore V5V9F4 Go to UniProtKB: V5V9F4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	V5V9F4
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ABC transporter ATP-binding protein	B, E	273	Acinetobacter baumannii	Mutation(s): 0
UniProt
Find proteins for A0A086HZU3 (Acinetobacter baumannii) Explore A0A086HZU3 Go to UniProtKB: A0A086HZU3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A086HZU3
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Anti-sigma factor antagonist	C, F	103	Acinetobacter baumannii	Mutation(s): 0
UniProt
Find proteins for V5V9K5 (Acinetobacter baumannii) Explore V5V9K5 Go to UniProtKB: V5V9K5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	V5V9K5
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
MCE family protein	G, H, I, J, K G, H, I, J, K, L	226	Acinetobacter baumannii	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for V5V921 (Acinetobacter baumannii) Explore V5V921 Go to UniProtKB: V5V921
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	V5V921
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PGV (Subject of Investigation/LOI) Query on PGV Download:Ideal Coordinates CCD File SDF format, chain N [auth A] SDF format, chain Q [auth A] SDF format, chain X [auth I] SDF format, chain W [auth D] SDF format, chain V [auth D] SDF format, chain U [auth D] SDF format, chain T [auth D] SDF format, chain S [auth D] SDF format, chain R [auth A] SDF format, chain P [auth A] SDF format, chain O [auth A] SDF format, chain M [auth A] MOL2 format, chain N [auth A] MOL2 format, chain Q [auth A] MOL2 format, chain X [auth I] MOL2 format, chain W [auth D] MOL2 format, chain V [auth D] MOL2 format, chain U [auth D] MOL2 format, chain T [auth D] MOL2 format, chain S [auth D] MOL2 format, chain R [auth A] MOL2 format, chain P [auth A] MOL2 format, chain O [auth A] MOL2 format, chain M [auth A] mmCIF format, chain N [auth A] mmCIF format, chain Q [auth A] mmCIF format, chain X [auth I] mmCIF format, chain W [auth D] mmCIF format, chain V [auth D] mmCIF format, chain U [auth D] mmCIF format, chain T [auth D] mmCIF format, chain S [auth D] mmCIF format, chain R [auth A] mmCIF format, chain P [auth A] mmCIF format, chain O [auth A] mmCIF format, chain M [auth A]	M [auth A] N [auth A] O [auth A] P [auth A] Q [auth A] M [auth A], N [auth A], O [auth A], P [auth A], Q [auth A], R [auth A], S [auth D], T [auth D], U [auth D], V [auth D], W [auth D], X [auth I]	(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE C₄₀ H₇₇ O₁₀ P ADYWCMPUNIVOEA-GPJPVTGXSA-N		Interactions Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth D] Focus chain T [auth D] Focus chain U [auth D] Focus chain V [auth D] Focus chain W [auth D] Focus chain X [auth I] Interactions & Density Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth D] Focus chain T [auth D] Focus chain U [auth D] Focus chain V [auth D] Focus chain W [auth D] Focus chain X [auth I]