9S5H | pdb_00009s5h

anammox-specific heterodimeric ketoacyl-ACP synthase (amxFabFhet) from Brocadia fulgida

PDB DOI: https://doi.org/10.2210/pdb9S5H/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Candidatus Brocadia fulgida
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-07-29 Released: 2026-08-12
Deposition Author(s): Granatino, P., Barends, T.
Funding Organization(s): European Research Council (ERC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.267 (Depositor), 0.263 (DCC)
R-Value Work:
0.219 (Depositor), 0.213 (DCC)
R-Value Observed:
0.221 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

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

Literature

beta-Ketoacyl Synthase II Homologs from a Ladderane-Producing Organism Form a Ketosynthase/Chain Length Factor-like functional heterodimer

Granatino, P., Barends, T.

To be published.

Macromolecule Content

Total Structure Weight: 534.31 kDa
Atom Count: 37,500
Modeled Residue Count: 4,916
Deposited Residue Count: 4,950
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3-oxoacyl-(Acyl-carrier-protein) synthase	A [auth B] C [auth A] E G I A [auth B], C [auth A], E, G, I, K	413	Candidatus Brocadia fulgida	Mutation(s): 0 Gene Names: BROFUL_02171
UniProt
Find proteins for A0A0M2USV6 (Candidatus Brocadia fulgida) Explore A0A0M2USV6 Go to UniProtKB: A0A0M2USV6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0M2USV6
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
3-oxoacyl-(Acyl-carrier-protein) synthase	B [auth C] D F H J B [auth C], D, F, H, J, L	412	Candidatus Brocadia fulgida	Mutation(s): 0 Gene Names: BROFUL_02170
UniProt
Find proteins for A0A0M2UTJ1 (Candidatus Brocadia fulgida) Explore A0A0M2UTJ1 Go to UniProtKB: A0A0M2UTJ1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0M2UTJ1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 7 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EPE Query on EPE Download:Ideal Coordinates CCD File SDF format, chain N [auth B] MOL2 format, chain N [auth B] mmCIF format, chain N [auth B]	N [auth B]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Interactions Focus chain N [auth B] Interactions & Density Focus chain N [auth B]
1PE Query on 1PE Download:Ideal Coordinates CCD File SDF format, chain W [auth F] SDF format, chain S [auth D] SDF format, chain O [auth C] SDF format, chain CA [auth H] MOL2 format, chain W [auth F] MOL2 format, chain S [auth D] MOL2 format, chain O [auth C] MOL2 format, chain CA [auth H] mmCIF format, chain W [auth F] mmCIF format, chain S [auth D] mmCIF format, chain O [auth C] mmCIF format, chain CA [auth H]	CA [auth H], O [auth C], S [auth D], W [auth F]	PENTAETHYLENE GLYCOL C₁₀ H₂₂ O₆ JLFNLZLINWHATN-UHFFFAOYSA-N		Interactions Focus chain CA [auth H] Focus chain O [auth C] Focus chain S [auth D] Focus chain W [auth F] Interactions & Density Focus chain CA [auth H] Focus chain O [auth C] Focus chain S [auth D] Focus chain W [auth F]
TAM Query on TAM Download:Ideal Coordinates CCD File SDF format, chain EA [auth J] SDF format, chain BA [auth H] MOL2 format, chain EA [auth J] MOL2 format, chain BA [auth H] mmCIF format, chain EA [auth J] mmCIF format, chain BA [auth H]	BA [auth H], EA [auth J]	TRIS(HYDROXYETHYL)AMINOMETHANE C₇ H₁₇ N O₃ GKODZWOPPOTFGA-UHFFFAOYSA-N		Interactions Focus chain BA [auth H] Focus chain EA [auth J] Interactions & Density Focus chain BA [auth H] Focus chain EA [auth J]
PO4 Query on PO4 Download:Ideal Coordinates CCD File SDF format, chain Z [auth G] SDF format, chain V [auth F] SDF format, chain R [auth D] SDF format, chain P [auth C] SDF format, chain HA [auth L] SDF format, chain AA [auth H] MOL2 format, chain Z [auth G] MOL2 format, chain V [auth F] MOL2 format, chain R [auth D] MOL2 format, chain P [auth C] MOL2 format, chain HA [auth L] MOL2 format, chain AA [auth H] mmCIF format, chain Z [auth G] mmCIF format, chain V [auth F] mmCIF format, chain R [auth D] mmCIF format, chain P [auth C] mmCIF format, chain HA [auth L] mmCIF format, chain AA [auth H]	AA [auth H] HA [auth L] P [auth C] R [auth D] V [auth F] AA [auth H], HA [auth L], P [auth C], R [auth D], V [auth F], Z [auth G]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain AA [auth H] Focus chain HA [auth L] Focus chain P [auth C] Focus chain R [auth D] Focus chain V [auth F] Focus chain Z [auth G] Interactions & Density Focus chain AA [auth H] Focus chain HA [auth L] Focus chain P [auth C] Focus chain R [auth D] Focus chain V [auth F] Focus chain Z [auth G]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain X [auth F] SDF format, chain T [auth D] SDF format, chain FA [auth J] MOL2 format, chain X [auth F] MOL2 format, chain T [auth D] MOL2 format, chain FA [auth J] mmCIF format, chain X [auth F] mmCIF format, chain T [auth D] mmCIF format, chain FA [auth J]	FA [auth J], T [auth D], X [auth F]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain FA [auth J] Focus chain T [auth D] Focus chain X [auth F] Interactions & Density Focus chain FA [auth J] Focus chain T [auth D] Focus chain X [auth F]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain Q [auth A] MOL2 format, chain Q [auth A] mmCIF format, chain Q [auth A]	Q [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain Q [auth A] Interactions & Density Focus chain Q [auth A]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain Y [auth G] SDF format, chain U [auth E] SDF format, chain M [auth B] SDF format, chain GA [auth K] SDF format, chain DA [auth I] MOL2 format, chain Y [auth G] MOL2 format, chain U [auth E] MOL2 format, chain M [auth B] MOL2 format, chain GA [auth K] MOL2 format, chain DA [auth I] mmCIF format, chain Y [auth G] mmCIF format, chain U [auth E] mmCIF format, chain M [auth B] mmCIF format, chain GA [auth K] mmCIF format, chain DA [auth I]	DA [auth I], GA [auth K], M [auth B], U [auth E], Y [auth G]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain DA [auth I] Focus chain GA [auth K] Focus chain M [auth B] Focus chain U [auth E] Focus chain Y [auth G] Interactions & Density Focus chain DA [auth I] Focus chain GA [auth K] Focus chain M [auth B] Focus chain U [auth E] Focus chain Y [auth G]