7ZPR | pdb_00007zpr

KtrAB complex with N-terminal deletion of KtrB 1-19

PDB DOI: https://doi.org/10.2210/pdb7ZPR/pdb
EM Map EMD-14862: EMDB EMDataResource

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

Deposited: 2022-04-28 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: 3.56 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

KtrAB complex with N-terminal deletion of KtrB 1-19

Stautz, J.

To be published.

Macromolecule Content

Total Structure Weight: 384.11 kDa
Atom Count: 20,858
Modeled Residue Count: 2,766
Deposited Residue Count: 3,504
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]	436	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 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP Query on ADP Download Ideal Coordinates CCD File SDF format, chain BA [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] SDF format, chain W [auth A] SDF format, chain X [auth B] SDF format, chain Z [auth J] MOL2 format, chain BA [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] MOL2 format, chain W [auth A] MOL2 format, chain X [auth B] MOL2 format, chain Z [auth J] mmCIF format, chain BA [auth L] mmCIF format, chain N [auth H] mmCIF format, chain O [auth D] mmCIF format, chain Q [auth E] mmCIF format, chain S [auth F] mmCIF format, chain W [auth A] mmCIF format, chain X [auth B] mmCIF format, chain Z [auth J]	BA [auth L] N [auth H] O [auth D] Q [auth E] S [auth F] BA [auth L], N [auth H], O [auth D], Q [auth E], S [auth F], W [auth A], X [auth B], Z [auth J]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain BA [auth L] Focus chain N [auth H] Focus chain O [auth D] Focus chain Q [auth E] Focus chain S [auth F] Focus chain W [auth A] Focus chain X [auth B] Focus chain Z [auth J] Interactions & Density Focus chain BA [auth L] Focus chain N [auth H] Focus chain O [auth D] Focus chain Q [auth E] Focus chain S [auth F] Focus chain W [auth A] Focus chain X [auth B] Focus chain Z [auth J]
K Query on K Download Ideal Coordinates CCD File SDF format, chain DA [auth M] SDF format, chain EA [auth C] SDF format, chain FA [auth G] SDF format, chain U [auth I] MOL2 format, chain DA [auth M] MOL2 format, chain EA [auth C] MOL2 format, chain FA [auth G] MOL2 format, chain U [auth I] mmCIF format, chain DA [auth M] mmCIF format, chain EA [auth C] mmCIF format, chain FA [auth G] mmCIF format, chain U [auth I]	DA [auth M], EA [auth C], FA [auth G], U [auth I]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain DA [auth M] Focus chain EA [auth C] Focus chain FA [auth G] Focus chain U [auth I] Interactions & Density Focus chain DA [auth M] Focus chain EA [auth C] Focus chain FA [auth G] Focus chain U [auth I]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain AA [auth J] SDF format, chain CA [auth L] SDF format, chain M [auth H] SDF format, chain P [auth D] SDF format, chain R [auth E] SDF format, chain T [auth F] SDF format, chain V [auth A] SDF format, chain Y [auth B] MOL2 format, chain AA [auth J] MOL2 format, chain CA [auth L] MOL2 format, chain M [auth H] MOL2 format, chain P [auth D] MOL2 format, chain R [auth E] MOL2 format, chain T [auth F] MOL2 format, chain V [auth A] MOL2 format, chain Y [auth B] mmCIF format, chain AA [auth J] mmCIF format, chain CA [auth L] mmCIF format, chain M [auth H] mmCIF format, chain P [auth D] mmCIF format, chain R [auth E] mmCIF format, chain T [auth F] mmCIF format, chain V [auth A] mmCIF format, chain Y [auth B]	AA [auth J] CA [auth L] M [auth H] P [auth D] R [auth E] AA [auth J], CA [auth L], M [auth H], P [auth D], R [auth E], T [auth F], V [auth A], Y [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AA [auth J] Focus chain CA [auth L] Focus chain M [auth H] Focus chain P [auth D] Focus chain R [auth E] Focus chain T [auth F] Focus chain V [auth A] Focus chain Y [auth B] Interactions & Density Focus chain AA [auth J] Focus chain CA [auth L] Focus chain M [auth H] Focus chain P [auth D] Focus chain R [auth E] Focus chain T [auth F] Focus chain V [auth A] Focus chain Y [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.56 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