7ZP9

KtrAB complex - KtrA8 ring with a KtrB dimer on each side

PDB DOI: https://doi.org/10.2210/pdb7ZP9/pdb
EM Map EMD-14851: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Vibrio alginolyticus
Expression System: Escherichia coli
Mutation(s): No
Membrane Protein: Yes OPMPDBTMMemProtMD

Deposited: 2022-04-27 Released: 2023-05-10
Deposition Author(s): Vonck, J., Stautz, J.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 2.0 of the entry. See complete history.

Literature

KtrAB complex

Stautz, J.

To be published.

Macromolecule Content

Total Structure Weight: 411.68 kDa
Atom Count: 22,339
Modelled Residue Count: 2,802
Deposited Residue Count: 3,580
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ktr system potassium uptake protein A	A [auth H] B [auth D] C [auth E] D [auth F] F [auth A] A [auth H], B [auth D], C [auth E], D [auth F], F [auth A], G [auth B], H [auth J], I [auth L]	220	Vibrio alginolyticus	Mutation(s): 0 Gene Names: ktrA Membrane Entity: Yes
UniProt
Find proteins for O87952 (Vibrio alginolyticus) Explore O87952 Go to UniProtKB: O87952
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O87952
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Ktr system potassium uptake protein B	E [auth I], J [auth M], K [auth C], L [auth G]	455	Vibrio alginolyticus	Mutation(s): 0 Gene Names: ktrB Membrane Entity: Yes
UniProt
Find proteins for O87953 (Vibrio alginolyticus) Explore O87953 Go to UniProtKB: O87953
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O87953
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
LMT Query on LMT Download Ideal Coordinates CCD File SDF format, chain AA [auth I] SDF format, chain AB [auth C] SDF format, chain BA [auth I] SDF format, chain BB [auth C] SDF format, chain CA [auth I] SDF format, chain CB [auth C] SDF format, chain DA [auth I] SDF format, chain DB [auth C] SDF format, chain EA [auth I] SDF format, chain EB [auth C] SDF format, chain FB [auth C] SDF format, chain GB [auth C] SDF format, chain HA [auth A] SDF format, chain IB [auth G] SDF format, chain JB [auth G] SDF format, chain KB [auth G] SDF format, chain LB [auth G] SDF format, chain MB [auth G] SDF format, chain NB [auth G] SDF format, chain OB [auth G] SDF format, chain PA [auth M] SDF format, chain PB [auth G] SDF format, chain QA [auth M] SDF format, chain RA [auth M] SDF format, chain SA [auth M] SDF format, chain TA [auth M] SDF format, chain U [auth I] SDF format, chain UA [auth M] SDF format, chain VA [auth M] SDF format, chain W [auth I] SDF format, chain WA [auth C] SDF format, chain X [auth I] SDF format, chain Y [auth I] SDF format, chain YA [auth C] SDF format, chain Z [auth I] SDF format, chain ZA [auth C] MOL2 format, chain AA [auth I] MOL2 format, chain AB [auth C] MOL2 format, chain BA [auth I] MOL2 format, chain BB [auth C] MOL2 format, chain CA [auth I] MOL2 format, chain CB [auth C] MOL2 format, chain DA [auth I] MOL2 format, chain DB [auth C] MOL2 format, chain EA [auth I] MOL2 format, chain EB [auth C] MOL2 format, chain FB [auth C] MOL2 format, chain GB [auth C] MOL2 format, chain HA [auth A] MOL2 format, chain IB [auth G] MOL2 format, chain JB [auth G] MOL2 format, chain KB [auth G] MOL2 format, chain LB [auth G] MOL2 format, chain MB [auth G] MOL2 format, chain NB [auth G] MOL2 format, chain OB [auth G] MOL2 format, chain PA [auth M] MOL2 format, chain PB [auth G] MOL2 format, chain QA [auth M] MOL2 format, chain RA [auth M] MOL2 format, chain SA [auth M] MOL2 format, chain TA [auth M] MOL2 format, chain U [auth I] MOL2 format, chain UA [auth M] MOL2 format, chain VA [auth M] MOL2 format, chain W [auth I] MOL2 format, chain WA [auth C] MOL2 format, chain X [auth I] MOL2 format, chain Y [auth I] MOL2 format, chain YA [auth C] MOL2 format, chain Z [auth I] MOL2 format, chain ZA [auth C]	AA [auth I] AB [auth C] BA [auth I] BB [auth C] CA [auth I] AA [auth I], AB [auth C], BA [auth I], BB [auth C], CA [auth I], CB [auth C], DA [auth I], DB [auth C], EA [auth I], EB [auth C], FB [auth C], GB [auth C], HA [auth A], IB [auth G], JB [auth G], KB [auth G], LB [auth G], MB [auth G], NB [auth G], OB [auth G], PA [auth M], PB [auth G], QA [auth M], RA [auth M], SA [auth M], TA [auth M], U [auth I], UA [auth M], VA [auth M], W [auth I], WA [auth C], X [auth I], Y [auth I], YA [auth C], Z [auth I], ZA [auth C]	DODECYL-BETA-D-MALTOSIDE C₂₄ H₄₆ O₁₁ NLEBIOOXCVAHBD-QKMCSOCLSA-N		Interactions Focus chain AA [auth I] Focus chain AB [auth C] Focus chain BA [auth I] Focus chain BB [auth C] Focus chain CA [auth I] Focus chain CB [auth C] Focus chain DA [auth I] Focus chain DB [auth C] Focus chain EA [auth I] Focus chain EB [auth C] Focus chain FB [auth C] Focus chain GB [auth C] Focus chain HA [auth A] Focus chain IB [auth G] Focus chain JB [auth G] Focus chain KB [auth G] Focus chain LB [auth G] Focus chain MB [auth G] Focus chain NB [auth G] Focus chain OB [auth G] Focus chain PA [auth M] Focus chain PB [auth G] Focus chain QA [auth M] Focus chain RA [auth M] Focus chain SA [auth M] Focus chain TA [auth M] Focus chain U [auth I] Focus chain UA [auth M] Focus chain VA [auth M] Focus chain W [auth I] Focus chain WA [auth C] Focus chain X [auth I] Focus chain Y [auth I] Focus chain YA [auth C] Focus chain Z [auth I] Focus chain ZA [auth C] Interactions & Density Focus chain AA [auth I] Focus chain AB [auth C] Focus chain BA [auth I] Focus chain BB [auth C] Focus chain CA [auth I] Focus chain CB [auth C] Focus chain DA [auth I] Focus chain DB [auth C] Focus chain EA [auth I] Focus chain EB [auth C] Focus chain FB [auth C] Focus chain GB [auth C] Focus chain HA [auth A] Focus chain IB [auth G] Focus chain JB [auth G] Focus chain KB [auth G] Focus chain LB [auth G] Focus chain MB [auth G] Focus chain NB [auth G] Focus chain OB [auth G] Focus chain PA [auth M] Focus chain PB [auth G] Focus chain QA [auth M] Focus chain RA [auth M] Focus chain SA [auth M] Focus chain TA [auth M] Focus chain U [auth I] Focus chain UA [auth M] Focus chain VA [auth M] Focus chain W [auth I] Focus chain WA [auth C] Focus chain X [auth I] Focus chain Y [auth I] Focus chain YA [auth C] Focus chain Z [auth I] Focus chain ZA [auth C]
ADP Query on ADP Download Ideal Coordinates CCD File SDF format, chain GA [auth A] SDF format, chain IA [auth B] SDF format, chain KA [auth J] SDF format, chain MA [auth L] SDF format, chain N [auth H] SDF format, chain O [auth D] SDF format, chain Q [auth E] SDF format, chain S [auth F] MOL2 format, chain GA [auth A] MOL2 format, chain IA [auth B] MOL2 format, chain KA [auth J] MOL2 format, chain MA [auth L] MOL2 format, chain N [auth H] MOL2 format, chain O [auth D] MOL2 format, chain Q [auth E] MOL2 format, chain S [auth F]	GA [auth A] IA [auth B] KA [auth J] MA [auth L] N [auth H] GA [auth A], IA [auth B], KA [auth J], MA [auth L], N [auth H], O [auth D], Q [auth E], S [auth F]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain GA [auth A] Focus chain IA [auth B] Focus chain KA [auth J] Focus chain MA [auth L] Focus chain N [auth H] Focus chain O [auth D] Focus chain Q [auth E] Focus chain S [auth F] Interactions & Density Focus chain GA [auth A] Focus chain IA [auth B] Focus chain KA [auth J] Focus chain MA [auth L] Focus chain N [auth H] Focus chain O [auth D] Focus chain Q [auth E] Focus chain S [auth F]
K Query on K Download Ideal Coordinates CCD File SDF format, chain HB [auth G] SDF format, chain OA [auth M] SDF format, chain V [auth I] SDF format, chain XA [auth C] MOL2 format, chain HB [auth G] MOL2 format, chain OA [auth M] MOL2 format, chain V [auth I] MOL2 format, chain XA [auth C]	HB [auth G], OA [auth M], V [auth I], XA [auth C]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain HB [auth G] Focus chain OA [auth M] Focus chain V [auth I] Focus chain XA [auth C] Interactions & Density Focus chain HB [auth G] Focus chain OA [auth M] Focus chain V [auth I] Focus chain XA [auth C]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain FA [auth A] SDF format, chain JA [auth B] SDF format, chain LA [auth J] SDF format, chain M [auth H] SDF format, chain NA [auth L] SDF format, chain P [auth D] SDF format, chain R [auth E] SDF format, chain T [auth F] MOL2 format, chain FA [auth A] MOL2 format, chain JA [auth B] MOL2 format, chain LA [auth J] MOL2 format, chain M [auth H] MOL2 format, chain NA [auth L] MOL2 format, chain P [auth D] MOL2 format, chain R [auth E] MOL2 format, chain T [auth F]	FA [auth A] JA [auth B] LA [auth J] M [auth H] NA [auth L] FA [auth A], JA [auth B], LA [auth J], M [auth H], NA [auth L], P [auth D], R [auth E], T [auth F]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain FA [auth A] Focus chain JA [auth B] Focus chain LA [auth J] Focus chain M [auth H] Focus chain NA [auth L] Focus chain P [auth D] Focus chain R [auth E] Focus chain T [auth F] Interactions & Density Focus chain FA [auth A] Focus chain JA [auth B] Focus chain LA [auth J] Focus chain M [auth H] Focus chain NA [auth L] Focus chain P [auth D] Focus chain R [auth E] Focus chain T [auth F]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-05-10

Deposition Author(s):

Vonck, J.

Stautz, J.

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	VO 1449_1-1
German Research Foundation (DFG)	Germany	HA 6322/4-1

Revision History (Full details and data files)

Version 1.0: 2023-05-10
Type: Initial release
Version 2.0: 2024-02-28
Type: Coordinate replacement
Reason: Model completeness
Changes: Advisory, Atomic model, Data collection, Derived calculations, Refinement description, Structure summary