9ZQZ | pdb_00009zqz

Azotobacter vinelandii FixABCX - as purified

PDB DOI: https://doi.org/10.2210/pdb9ZQZ/pdb
EM Map EMD-74585: EMDB EMDataResource

Classification: OXIDOREDUCTASE
Organism(s): Azotobacter vinelandii
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-12-19 Released: 2026-10-21
Deposition Author(s): Mohamed-Raseek, N., Findlay, J.L., Peters, J.W., Lawrence, C.M.
Funding Organization(s): Department of Energy (DOE, United States), National Science Foundation (NSF, United States), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.72 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Azotobacter vinelandii FixABCX - as purified.

Mohamed-Raseek, N., Findlay, J.L., Peters, J.W., Lawrence, C.M.

To be published.

Macromolecule Content

Total Structure Weight: 263.55 kDa
Atom Count: 17,618
Modeled Residue Count: 2,236
Deposited Residue Count: 2,334
Unique protein chains: 4

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein FixA	A, D	281	Azotobacter vinelandii	Mutation(s): 0 Gene Names: fixA, Avin_10520
UniProt
Find proteins for C1DNR7 (Azotobacter vinelandii (strain DJ / ATCC BAA-1303)) Explore C1DNR7 Go to UniProtKB: C1DNR7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C1DNR7
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Electron transfer flavoprotein, alpha subunit, FixB	B, E	360	Azotobacter vinelandii	Mutation(s): 0 Gene Names: fixB, Avin_10530
UniProt
Find proteins for C1DNR8 (Azotobacter vinelandii (strain DJ / ATCC BAA-1303)) Explore C1DNR8 Go to UniProtKB: C1DNR8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C1DNR8
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein FixC	C, F	432	Azotobacter vinelandii	Mutation(s): 0 Gene Names: fixC, Avin_10540
UniProt
Find proteins for C1DNR9 (Azotobacter vinelandii (strain DJ / ATCC BAA-1303)) Explore C1DNR9 Go to UniProtKB: C1DNR9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C1DNR9
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Ferredoxin-like protein	G [auth X], H [auth Y]	94	Azotobacter vinelandii	Mutation(s): 0 Gene Names: fixX, Avin_10550
UniProt
Find proteins for C1DNS0 (Azotobacter vinelandii (strain DJ / ATCC BAA-1303)) Explore C1DNS0 Go to UniProtKB: C1DNS0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C1DNS0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FAD (Subject of Investigation/LOI) Query on FAD Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain J [auth C] SDF format, chain K [auth D] SDF format, chain L [auth F] SDF format, chain M [auth X] SDF format, chain P [auth Y] MOL2 format, chain I [auth A] MOL2 format, chain J [auth C] MOL2 format, chain K [auth D] MOL2 format, chain L [auth F] MOL2 format, chain M [auth X] MOL2 format, chain P [auth Y] mmCIF format, chain I [auth A] mmCIF format, chain J [auth C] mmCIF format, chain K [auth D] mmCIF format, chain L [auth F] mmCIF format, chain M [auth X] mmCIF format, chain P [auth Y]	I [auth A] J [auth C] K [auth D] L [auth F] M [auth X] I [auth A], J [auth C], K [auth D], L [auth F], M [auth X], P [auth Y]	FLAVIN-ADENINE DINUCLEOTIDE C₂₇ H₃₃ N₉ O₁₅ P₂ VWWQXMAJTJZDQX-UYBVJOGSSA-N		Interactions Focus chain I [auth A] Focus chain J [auth C] Focus chain K [auth D] Focus chain L [auth F] Focus chain M [auth X] Focus chain P [auth Y] Interactions & Density Focus chain I [auth A] Focus chain J [auth C] Focus chain K [auth D] Focus chain L [auth F] Focus chain M [auth X] Focus chain P [auth Y]
SF4 (Subject of Investigation/LOI) Query on SF4 Download:Ideal Coordinates CCD File SDF format, chain N [auth X] SDF format, chain O [auth X] SDF format, chain Q [auth Y] SDF format, chain R [auth Y] MOL2 format, chain N [auth X] MOL2 format, chain O [auth X] MOL2 format, chain Q [auth Y] MOL2 format, chain R [auth Y] mmCIF format, chain N [auth X] mmCIF format, chain O [auth X] mmCIF format, chain Q [auth Y] mmCIF format, chain R [auth Y]	N [auth X], O [auth X], Q [auth Y], R [auth Y]	IRON/SULFUR CLUSTER Fe₄ S₄ LJBDFODJNLIPKO-UHFFFAOYSA-N		Interactions Focus chain N [auth X] Focus chain O [auth X] Focus chain Q [auth Y] Focus chain R [auth Y] Interactions & Density Focus chain N [auth X] Focus chain O [auth X] Focus chain Q [auth Y] Focus chain R [auth Y]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.72 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	2.0_5885
RECONSTRUCTION	cryoSPARC

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-21

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Energy (DOE, United States)	United States	DE-CS0018143
National Science Foundation (NSF, United States)	United States	DBI-1828765
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	P30GM140963