9HAX | pdb_00009hax

F420-dependent glucose-6-phosphate dehydrogenase

PDB DOI: https://doi.org/10.2210/pdb9HAX/pdb

Classification: OXIDOREDUCTASE
Organism(s): Thermomicrobium roseum DSM 5159
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-11-05 Released: 2025-11-19
Deposition Author(s): Palm, G.J., Berndt, L., Lammers, M.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.51 Å
R-Value Free:
0.257 (Depositor), 0.257 (DCC)
R-Value Work:
0.231 (Depositor), 0.231 (DCC)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Discovery of a coenzyme F420-dependent glucose-6-phosphate dehydrogenase from Thermomicrobium roseum

Last, D., Hasan, M., Hemmann, J.T., Kroeber, T.D.U., Palm, G.J., Lammers, M., Lackner, G.

To be published.

Macromolecule Content

Total Structure Weight: 511.7 kDa
Atom Count: 32,985
Modeled Residue Count: 4,079
Deposited Residue Count: 4,560
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Luciferase family protein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	380	Thermomicrobium roseum DSM 5159	Mutation(s): 0 Gene Names: trd_A0676
UniProt
Find proteins for B9L4G2 (Thermomicrobium roseum (strain ATCC 27502 / DSM 5159 / P-2)) Explore B9L4G2 Go to UniProtKB: B9L4G2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B9L4G2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain BA [auth D] SDF format, chain BB [auth J] SDF format, chain CA [auth D] SDF format, chain FA [auth E] SDF format, chain GA [auth E] SDF format, chain GB [auth K] SDF format, chain HA [auth E] SDF format, chain IB [auth K] SDF format, chain KB [auth L] SDF format, chain LA [auth F] SDF format, chain M [auth A] SDF format, chain MA [auth F] SDF format, chain O [auth A] SDF format, chain OA [auth G] SDF format, chain PA [auth G] SDF format, chain QA [auth G] SDF format, chain R [auth B] SDF format, chain S [auth B] SDF format, chain UA [auth H] SDF format, chain V [auth C] SDF format, chain VA [auth H] SDF format, chain X [auth C] SDF format, chain YA [auth I] SDF format, chain ZA [auth I] SDF format, chain W [auth C] SDF format, chain TA [auth H] SDF format, chain T [auth B] SDF format, chain N [auth A] SDF format, chain MB [auth L] SDF format, chain LB [auth L] SDF format, chain KA [auth F] SDF format, chain HB [auth K] SDF format, chain DB [auth J] SDF format, chain CB [auth J] SDF format, chain AA [auth D] MOL2 format, chain BA [auth D] MOL2 format, chain BB [auth J] MOL2 format, chain CA [auth D] MOL2 format, chain FA [auth E] MOL2 format, chain GA [auth E] MOL2 format, chain GB [auth K] MOL2 format, chain HA [auth E] MOL2 format, chain IB [auth K] MOL2 format, chain KB [auth L] MOL2 format, chain LA [auth F] MOL2 format, chain M [auth A] MOL2 format, chain MA [auth F] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth G] MOL2 format, chain PA [auth G] MOL2 format, chain QA [auth G] MOL2 format, chain R [auth B] MOL2 format, chain S [auth B] MOL2 format, chain UA [auth H] MOL2 format, chain V [auth C] MOL2 format, chain VA [auth H] MOL2 format, chain X [auth C] MOL2 format, chain YA [auth I] MOL2 format, chain ZA [auth I] MOL2 format, chain W [auth C] MOL2 format, chain TA [auth H] MOL2 format, chain T [auth B] MOL2 format, chain N [auth A] MOL2 format, chain MB [auth L] MOL2 format, chain LB [auth L] MOL2 format, chain KA [auth F] MOL2 format, chain HB [auth K] MOL2 format, chain DB [auth J] MOL2 format, chain CB [auth J] MOL2 format, chain AA [auth D] mmCIF format, chain BA [auth D] mmCIF format, chain BB [auth J] mmCIF format, chain CA [auth D] mmCIF format, chain FA [auth E] mmCIF format, chain GA [auth E] mmCIF format, chain GB [auth K] mmCIF format, chain HA [auth E] mmCIF format, chain IB [auth K] mmCIF format, chain KB [auth L] mmCIF format, chain LA [auth F] mmCIF format, chain M [auth A] mmCIF format, chain MA [auth F] mmCIF format, chain O [auth A] mmCIF format, chain OA [auth G] mmCIF format, chain PA [auth G] mmCIF format, chain QA [auth G] mmCIF format, chain R [auth B] mmCIF format, chain S [auth B] mmCIF format, chain UA [auth H] mmCIF format, chain V [auth C] mmCIF format, chain VA [auth H] mmCIF format, chain X [auth C] mmCIF format, chain YA [auth I] mmCIF format, chain ZA [auth I] mmCIF format, chain W [auth C] mmCIF format, chain TA [auth H] mmCIF format, chain T [auth B] mmCIF format, chain N [auth A] mmCIF format, chain MB [auth L] mmCIF format, chain LB [auth L] mmCIF format, chain KA [auth F] mmCIF format, chain HB [auth K] mmCIF format, chain DB [auth J] mmCIF format, chain CB [auth J] mmCIF format, chain AA [auth D]	AA [auth D] BA [auth D] BB [auth J] CA [auth D] CB [auth J] AA [auth D], BA [auth D], BB [auth J], CA [auth D], CB [auth J], DB [auth J], FA [auth E], GA [auth E], GB [auth K], HA [auth E], HB [auth K], IB [auth K], KA [auth F], KB [auth L], LA [auth F], LB [auth L], M [auth A], MA [auth F], MB [auth L], N [auth A], O [auth A], OA [auth G], PA [auth G], QA [auth G], R [auth B], S [auth B], T [auth B], TA [auth H], UA [auth H], V [auth C], VA [auth H], W [auth C], X [auth C], YA [auth I], ZA [auth I]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain AA [auth D] Focus chain BA [auth D] Focus chain BB [auth J] Focus chain CA [auth D] Focus chain CB [auth J] Focus chain DB [auth J] Focus chain FA [auth E] Focus chain GA [auth E] Focus chain GB [auth K] Focus chain HA [auth E] Focus chain HB [auth K] Focus chain IB [auth K] Focus chain KA [auth F] Focus chain KB [auth L] Focus chain LA [auth F] Focus chain LB [auth L] Focus chain M [auth A] Focus chain MA [auth F] Focus chain MB [auth L] Focus chain N [auth A] Focus chain O [auth A] Focus chain OA [auth G] Focus chain PA [auth G] Focus chain QA [auth G] Focus chain R [auth B] Focus chain S [auth B] Focus chain T [auth B] Focus chain TA [auth H] Focus chain UA [auth H] Focus chain V [auth C] Focus chain VA [auth H] Focus chain W [auth C] Focus chain X [auth C] Focus chain YA [auth I] Focus chain ZA [auth I] Interactions & Density Focus chain AA [auth D] Focus chain BA [auth D] Focus chain BB [auth J] Focus chain CA [auth D] Focus chain CB [auth J] Focus chain DB [auth J] Focus chain FA [auth E] Focus chain GA [auth E] Focus chain GB [auth K] Focus chain HA [auth E] Focus chain HB [auth K] Focus chain IB [auth K] Focus chain KA [auth F] Focus chain KB [auth L] Focus chain LA [auth F] Focus chain LB [auth L] Focus chain M [auth A] Focus chain MA [auth F] Focus chain MB [auth L] Focus chain N [auth A] Focus chain O [auth A] Focus chain OA [auth G] Focus chain PA [auth G] Focus chain QA [auth G] Focus chain R [auth B] Focus chain S [auth B] Focus chain T [auth B] Focus chain TA [auth H] Focus chain UA [auth H] Focus chain V [auth C] Focus chain VA [auth H] Focus chain W [auth C] Focus chain X [auth C] Focus chain YA [auth I] Focus chain ZA [auth I]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain AB [auth I] SDF format, chain DA [auth D] SDF format, chain FB [auth J] SDF format, chain JA [auth E] SDF format, chain JB [auth K] SDF format, chain NA [auth F] SDF format, chain NB [auth L] SDF format, chain Q [auth A] SDF format, chain RA [auth G] SDF format, chain SA [auth G] SDF format, chain Z [auth C] SDF format, chain Y [auth C] SDF format, chain XA [auth H] SDF format, chain WA [auth H] SDF format, chain U [auth B] SDF format, chain P [auth A] SDF format, chain IA [auth E] SDF format, chain EB [auth J] SDF format, chain EA [auth D] MOL2 format, chain AB [auth I] MOL2 format, chain DA [auth D] MOL2 format, chain FB [auth J] MOL2 format, chain JA [auth E] MOL2 format, chain JB [auth K] MOL2 format, chain NA [auth F] MOL2 format, chain NB [auth L] MOL2 format, chain Q [auth A] MOL2 format, chain RA [auth G] MOL2 format, chain SA [auth G] MOL2 format, chain Z [auth C] MOL2 format, chain Y [auth C] MOL2 format, chain XA [auth H] MOL2 format, chain WA [auth H] MOL2 format, chain U [auth B] MOL2 format, chain P [auth A] MOL2 format, chain IA [auth E] MOL2 format, chain EB [auth J] MOL2 format, chain EA [auth D] mmCIF format, chain AB [auth I] mmCIF format, chain DA [auth D] mmCIF format, chain FB [auth J] mmCIF format, chain JA [auth E] mmCIF format, chain JB [auth K] mmCIF format, chain NA [auth F] mmCIF format, chain NB [auth L] mmCIF format, chain Q [auth A] mmCIF format, chain RA [auth G] mmCIF format, chain SA [auth G] mmCIF format, chain Z [auth C] mmCIF format, chain Y [auth C] mmCIF format, chain XA [auth H] mmCIF format, chain WA [auth H] mmCIF format, chain U [auth B] mmCIF format, chain P [auth A] mmCIF format, chain IA [auth E] mmCIF format, chain EB [auth J] mmCIF format, chain EA [auth D]	AB [auth I] DA [auth D] EA [auth D] EB [auth J] FB [auth J] AB [auth I], DA [auth D], EA [auth D], EB [auth J], FB [auth J], IA [auth E], JA [auth E], JB [auth K], NA [auth F], NB [auth L], P [auth A], Q [auth A], RA [auth G], SA [auth G], U [auth B], WA [auth H], XA [auth H], Y [auth C], Z [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain AB [auth I] Focus chain DA [auth D] Focus chain EA [auth D] Focus chain EB [auth J] Focus chain FB [auth J] Focus chain IA [auth E] Focus chain JA [auth E] Focus chain JB [auth K] Focus chain NA [auth F] Focus chain NB [auth L] Focus chain P [auth A] Focus chain Q [auth A] Focus chain RA [auth G] Focus chain SA [auth G] Focus chain U [auth B] Focus chain WA [auth H] Focus chain XA [auth H] Focus chain Y [auth C] Focus chain Z [auth C] Interactions & Density Focus chain AB [auth I] Focus chain DA [auth D] Focus chain EA [auth D] Focus chain EB [auth J] Focus chain FB [auth J] Focus chain IA [auth E] Focus chain JA [auth E] Focus chain JB [auth K] Focus chain NA [auth F] Focus chain NB [auth L] Focus chain P [auth A] Focus chain Q [auth A] Focus chain RA [auth G] Focus chain SA [auth G] Focus chain U [auth B] Focus chain WA [auth H] Focus chain XA [auth H] Focus chain Y [auth C] Focus chain Z [auth C]