9B6L | pdb_00009b6l

Apo Decameric Rubisco from Candidatus Methanofastidiosum methylthiophilus

PDB DOI: https://doi.org/10.2210/pdb9B6L/pdb
EM Map EMD-44265: EMDB EMDataResource

Classification: LYASE
Organism(s): Candidatus Methanofastidiosum methylothiophilum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-03-25 Released: 2025-08-27
Deposition Author(s): Kaeser, B.P., Liu, A.K., Shih, P.M.
Funding Organization(s): Howard Hughes Medical Institute (HHMI), Department of Energy (DOE, United States)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.33 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Apo Decameric Rubisco from Candidatus Methanofastidiosum methylthiophilus

Kaeser, B.P., Liu, A.K.

To be published.

Macromolecule Content

Total Structure Weight: 528.9 kDa
Atom Count: 31,310
Modeled Residue Count: 3,990
Deposited Residue Count: 4,750
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribulose bisphosphate carboxylase	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	475	Candidatus Methanofastidiosum methylothiophilum	Mutation(s): 0 Gene Names: rbcL, APG10_01785, APG11_00293 EC: 4.1.1.39
UniProt
Find proteins for A0A150IHQ4 (Candidatus Methanofastidiosum methylothiophilum) Explore A0A150IHQ4 Go to UniProtKB: A0A150IHQ4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A150IHQ4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG (Subject of Investigation/LOI) Query on MG Download Ideal Coordinates CCD File SDF format, chain K [auth A] SDF format, chain L [auth B] SDF format, chain M [auth C] SDF format, chain N [auth D] SDF format, chain O [auth E] SDF format, chain P [auth F] SDF format, chain Q [auth G] SDF format, chain R [auth H] SDF format, chain S [auth I] SDF format, chain T [auth J] MOL2 format, chain K [auth A] MOL2 format, chain L [auth B] MOL2 format, chain M [auth C] MOL2 format, chain N [auth D] MOL2 format, chain O [auth E] MOL2 format, chain P [auth F] MOL2 format, chain Q [auth G] MOL2 format, chain R [auth H] MOL2 format, chain S [auth I] MOL2 format, chain T [auth J] mmCIF format, chain K [auth A] mmCIF format, chain L [auth B] mmCIF format, chain M [auth C] mmCIF format, chain N [auth D] mmCIF format, chain O [auth E] mmCIF format, chain P [auth F] mmCIF format, chain Q [auth G] mmCIF format, chain R [auth H] mmCIF format, chain S [auth I] mmCIF format, chain T [auth J]	K [auth A] L [auth B] M [auth C] N [auth D] O [auth E] K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain K [auth A] Focus chain L [auth B] Focus chain M [auth C] Focus chain N [auth D] Focus chain O [auth E] Focus chain P [auth F] Focus chain Q [auth G] Focus chain R [auth H] Focus chain S [auth I] Focus chain T [auth J] Interactions & Density Focus chain K [auth A] Focus chain L [auth B] Focus chain M [auth C] Focus chain N [auth D] Focus chain O [auth E] Focus chain P [auth F] Focus chain Q [auth G] Focus chain R [auth H] Focus chain S [auth I] Focus chain T [auth J]