8QXU

In situ structure average of GroEL14-GroES7 complexes with wide GroEL7 trans ring conformation in Escherichia coli cytosol obtained by cryo electron tomography

PDB DOI: https://doi.org/10.2210/pdb8QXU/pdb
EM Map EMD-18737: EMDB EMDataResource

Classification: CHAPERONE
Organism(s): Escherichia coli BL21(DE3)
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-10-25 Released: 2024-07-03
Deposition Author(s): Wagner, J., Caravajal, A.I., Beck, F., Bracher, A., Wan, W., Bohn, S., Koerner, R., Baumeister, W., Fernandez-Busnadiego, R., Hartl, F.U.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 12.0 Å
Aggregation State: CELL
Reconstruction Method: SUBTOMOGRAM AVERAGING

Starting Models: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Visualizing chaperonin function in situ by cryo-electron tomography

Wagner, J., Caravajal, A.I., Beck, F., Bracher, A., Wan, W., Bohn, S., Koerner, R., Baumeister, W., Fernandez-Busnadiego, R., Hartl, F.U.

(2024) Nature

Macromolecule Content

Total Structure Weight: 881.88 kDa
Atom Count: 59,458
Modelled Residue Count: 8,008
Deposited Residue Count: 8,337
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chaperonin GroEL	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N	547	Escherichia coli BL21(DE3)	Mutation(s): 0 Gene Names: groEL, groL, mopA, b4143, JW4103 EC: 5.6.1.7
UniProt
Find proteins for P0A6F5 (Escherichia coli (strain K12)) Explore P0A6F5 Go to UniProtKB: P0A6F5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0A6F5
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Co-chaperonin GroES	O, P, Q, R, S O, P, Q, R, S, T, U	97	Escherichia coli BL21(DE3)	Mutation(s): 0 Gene Names: groES, groS, mopB, b4142, JW4102
UniProt
Find proteins for P0A6F9 (Escherichia coli (strain K12)) Explore P0A6F9 Go to UniProtKB: P0A6F9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0A6F9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP Query on ATP Download Ideal Coordinates CCD File SDF format, chain BA [auth C] SDF format, chain EA [auth D] SDF format, chain HA [auth E] SDF format, chain KA [auth F] SDF format, chain NA [auth G] SDF format, chain V [auth A] SDF format, chain Y [auth B] MOL2 format, chain BA [auth C] MOL2 format, chain EA [auth D] MOL2 format, chain HA [auth E] MOL2 format, chain KA [auth F] MOL2 format, chain NA [auth G] MOL2 format, chain V [auth A] MOL2 format, chain Y [auth B]	BA [auth C] EA [auth D] HA [auth E] KA [auth F] NA [auth G] BA [auth C], EA [auth D], HA [auth E], KA [auth F], NA [auth G], V [auth A], Y [auth B]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain BA [auth C] Focus chain EA [auth D] Focus chain HA [auth E] Focus chain KA [auth F] Focus chain NA [auth G] Focus chain V [auth A] Focus chain Y [auth B] Interactions & Density Focus chain BA [auth C] Focus chain EA [auth D] Focus chain HA [auth E] Focus chain KA [auth F] Focus chain NA [auth G] Focus chain V [auth A] Focus chain Y [auth B]
ADP Query on ADP Download Ideal Coordinates CCD File SDF format, chain CB [auth L] SDF format, chain FB [auth M] SDF format, chain IB [auth N] SDF format, chain QA [auth H] SDF format, chain TA [auth I] SDF format, chain WA [auth J] SDF format, chain ZA [auth K] MOL2 format, chain CB [auth L] MOL2 format, chain FB [auth M] MOL2 format, chain IB [auth N] MOL2 format, chain QA [auth H] MOL2 format, chain TA [auth I] MOL2 format, chain WA [auth J] MOL2 format, chain ZA [auth K]	CB [auth L] FB [auth M] IB [auth N] QA [auth H] TA [auth I] CB [auth L], FB [auth M], IB [auth N], QA [auth H], TA [auth I], WA [auth J], ZA [auth K]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain CB [auth L] Focus chain FB [auth M] Focus chain IB [auth N] Focus chain QA [auth H] Focus chain TA [auth I] Focus chain WA [auth J] Focus chain ZA [auth K] Interactions & Density Focus chain CB [auth L] Focus chain FB [auth M] Focus chain IB [auth N] Focus chain QA [auth H] Focus chain TA [auth I] Focus chain WA [auth J] Focus chain ZA [auth K]
K Query on K Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain BB [auth K] SDF format, chain DA [auth C] SDF format, chain EB [auth L] SDF format, chain GA [auth D] SDF format, chain HB [auth M] SDF format, chain JA [auth E] SDF format, chain KB [auth N] SDF format, chain MA [auth F] SDF format, chain PA [auth G] SDF format, chain SA [auth H] SDF format, chain VA [auth I] SDF format, chain X [auth A] SDF format, chain YA [auth J] MOL2 format, chain AA [auth B] MOL2 format, chain BB [auth K] MOL2 format, chain DA [auth C] MOL2 format, chain EB [auth L] MOL2 format, chain GA [auth D] MOL2 format, chain HB [auth M] MOL2 format, chain JA [auth E] MOL2 format, chain KB [auth N] MOL2 format, chain MA [auth F] MOL2 format, chain PA [auth G] MOL2 format, chain SA [auth H] MOL2 format, chain VA [auth I] MOL2 format, chain X [auth A] MOL2 format, chain YA [auth J]	AA [auth B] BB [auth K] DA [auth C] EB [auth L] GA [auth D] AA [auth B], BB [auth K], DA [auth C], EB [auth L], GA [auth D], HB [auth M], JA [auth E], KB [auth N], MA [auth F], PA [auth G], SA [auth H], VA [auth I], X [auth A], YA [auth J]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain BB [auth K] Focus chain DA [auth C] Focus chain EB [auth L] Focus chain GA [auth D] Focus chain HB [auth M] Focus chain JA [auth E] Focus chain KB [auth N] Focus chain MA [auth F] Focus chain PA [auth G] Focus chain SA [auth H] Focus chain VA [auth I] Focus chain X [auth A] Focus chain YA [auth J] Interactions & Density Focus chain AA [auth B] Focus chain BB [auth K] Focus chain DA [auth C] Focus chain EB [auth L] Focus chain GA [auth D] Focus chain HB [auth M] Focus chain JA [auth E] Focus chain KB [auth N] Focus chain MA [auth F] Focus chain PA [auth G] Focus chain SA [auth H] Focus chain VA [auth I] Focus chain X [auth A] Focus chain YA [auth J]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain AB [auth K] SDF format, chain CA [auth C] SDF format, chain DB [auth L] SDF format, chain FA [auth D] SDF format, chain GB [auth M] SDF format, chain IA [auth E] SDF format, chain JB [auth N] SDF format, chain LA [auth F] SDF format, chain OA [auth G] SDF format, chain RA [auth H] SDF format, chain UA [auth I] SDF format, chain W [auth A] SDF format, chain XA [auth J] SDF format, chain Z [auth B] MOL2 format, chain AB [auth K] MOL2 format, chain CA [auth C] MOL2 format, chain DB [auth L] MOL2 format, chain FA [auth D] MOL2 format, chain GB [auth M] MOL2 format, chain IA [auth E] MOL2 format, chain JB [auth N] MOL2 format, chain LA [auth F] MOL2 format, chain OA [auth G] MOL2 format, chain RA [auth H] MOL2 format, chain UA [auth I] MOL2 format, chain W [auth A] MOL2 format, chain XA [auth J] MOL2 format, chain Z [auth B]	AB [auth K] CA [auth C] DB [auth L] FA [auth D] GB [auth M] AB [auth K], CA [auth C], DB [auth L], FA [auth D], GB [auth M], IA [auth E], JB [auth N], LA [auth F], OA [auth G], RA [auth H], UA [auth I], W [auth A], XA [auth J], Z [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AB [auth K] Focus chain CA [auth C] Focus chain DB [auth L] Focus chain FA [auth D] Focus chain GB [auth M] Focus chain IA [auth E] Focus chain JB [auth N] Focus chain LA [auth F] Focus chain OA [auth G] Focus chain RA [auth H] Focus chain UA [auth I] Focus chain W [auth A] Focus chain XA [auth J] Focus chain Z [auth B] Interactions & Density Focus chain AB [auth K] Focus chain CA [auth C] Focus chain DB [auth L] Focus chain FA [auth D] Focus chain GB [auth M] Focus chain IA [auth E] Focus chain JB [auth N] Focus chain LA [auth F] Focus chain OA [auth G] Focus chain RA [auth H] Focus chain UA [auth I] Focus chain W [auth A] Focus chain XA [auth J] Focus chain Z [auth B]