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Research draft

ATPase

vr.tr.atpase · PHY.MAT

Let an agent explain ATPases and their families, relay mechanisms and examples from biochemistry references, describe physiological and medical roles, and distinguish ATPases from ATP synthase operating in reverse and from kinases.

Thing Registry Physical world and living systems

Research draft, second pass

A second pass drafted this model: the structure a model of this thing needs, and what is known about it in the world. The line under this one says how the second half was obtained - researched against sources, or recalled without web access, in which case nothing here was read anywhere and every claim is a lead to verify. Unreviewed either way.

written by Claude from model knowledge without web access - no source was read, every claim is a lead to verify

Researched by: Claude

Purpose and description

Let an agent explain ATPases and their families, relay mechanisms and examples from biochemistry references, describe physiological and medical roles, and distinguish ATPases from ATP synthase operating in reverse and from kinases.

A class of enzymes that catalyse the hydrolysis of ATP into ADP and phosphate and use the released energy to drive processes such as ion transport across membranes, molecular motion and DNA remodelling, including P-type ATPases such as the sodium-potassium pump and calcium, potassium, magnesium and zinc transporting ATPases, F-type and V-type rotary ATPases, ABC transporters, AAA+ ATPases acting on DNA and proteins, and motor proteins such as myosin and kinesin.

What it is for: Not applicable; an enzyme class.

It can be explain families and mechanisms; relay examples; describe physiological roles; distinguish from related enzymes.

Distinguishing features

ATP hydrolysis coupled to work

Diverse families

Membrane and soluble forms

Drug targets

What it looks like

Not a visible object; membrane and cytoplasmic proteins.

Physical character

sodium-potassium pump share of resting energy: about 20-30 percent - in many cells

EC subclass: 3.6.1 and 3.6.3-3.6.4 number - acid anhydride hydrolases

How it is recognised

Enzymes hydrolysing ATP to do work

P-type, F-type, V-type, ABC, AAA+ and motor ATPases; ion-transporting ATPases

ATP synthase makes ATP; kinases transfer phosphate to substrates; GTPases use GTP

Related models

is a kind of - in registry terms

hydrolase

is a kind of - in registry terms

nucleoside-triphosphatase

is a kind of - in registry terms

acid anhydride hydrolases

includes - the sodium-potassium pump

Na+/K+-ATPase

In practice

Families and kinds

P-type ATPases including Na+/K+, Ca2+, H+/K+, K+, Mg2+ and Zn2+ transporting ATPases

F-type and V-type rotary ATPases

ABC transporters

AAA+ ATPases acting on DNA and proteins

motor ATPases such as myosin, kinesin and dynein

other nucleoside-triphosphatases

Identifiers

EC 3.6.1.3 and related ATPases

GO GO:0016887 ATP hydrolysis activity

Standards and regulation

IUBMB enzyme nomenclature

No regulation of the concept

Failure modes and hazards

Confusing ATPases with ATP synthase and kinases

Overgeneralising across families

Registry aliases naming specific transporters

Also called

ATPase, acting on DNAP-type ATPaseK+-transporting ATPaseMg2+-importing ATPaseNa+-exporting ATPaseZn2+-exporting ATPaseMutS proteinsDynein heavy chain 6/14, axonemalATP-binding protein UupTerminase, large subunit gp19Terminase, large subunit, gp17-likeTerminase, large subunit BPP22-likeATPase ARIP4-likeTATA-binding protein-associated factor Mot1MICRORCHIDIA ATPase familySliding-clamp-loader large subunitATPase, AFG1-likeBacteriophage lambda, GpAATPase, type IV, pilus assembly, PilBEndonuclease MutS2K+ transporting P-type ATPase, F subunitATPase family AAA domain-containing protein 2Sporulation stage IV, protein ADNA helicase Ino80Arsenical pump ATPase, ArsA/GET3Rotavirus A/C, non-structural protein 5P-type ATPase, subfamily IIIBABC transporter, vitamin B12, BtuDProteasome ATPaseSWI/SNF complex subunit SMARCA2ATPase RavAStructural maintenance of chromosomes protein 6SWI/SNF complex subunit BRG1Ribosome-binding ATPase YchF/Obg-like ATPase 1Potassium-transporting ATPase C chainheat shock protein Hsp90 familyMidasinDNA repair protein Rad50, eukaryotesStructural maintenance of chromosomes proteinPeroxisome biogenesis factor 1

+48

Where this came from

wikidata · CC0 1.0

Source repository Registry entry point

Drafted structure

Bundle to layer to finding to question, as the second pass will find it: 4 bundles · 8 layers · 8 findings · 16 questions.

Understand What ATPases are.

Science.

Definition

Definition and families.

Definition

Definition.

  1. What is an ATPase, and what are the P-type, F-type, V-type, ABC, AAA+ and motor families? definition
  2. Is the question about ATPases, ATP synthase, kinases or GTPases? boundary

Examples

Examples.

Examples

Examples.

  1. What do the sodium-potassium pump, calcium ATPases, potassium, magnesium and zinc transporting ATPases and DNA-acting ATPases do? definition
  2. Which entry fits the specific enzyme? action
Mechanism Mechanisms.

Science.

Coupling

Energy coupling.

Coupling

Coupling.

  1. How do ATPases couple hydrolysis to transport, rotation or motion? provenance
  2. Which references are standard? provenance

Structure

Structures.

Structure

Structure.

  1. What have structural studies revealed about P-type and rotary ATPases? provenance
  2. Which entry fits the specific structure? action
Biology Roles and medicine.

Science.

Physiology

Physiology.

Physiology

Physiology.

  1. How do ATPases maintain ion gradients, muscle contraction, acid secretion and protein turnover? provenance
  2. Which sources are cited? provenance

Medicine

Drugs and disease.

Medicine

Medicine.

  1. How are ATPases targeted by drugs such as digoxin and proton pump inhibitors, and what diseases involve them? provenance
  2. Which entry fits proton pump inhibitor? action
Context Evolution and history.

Context.

Evolution

Evolution.

Evolution

Evolution.

  1. How did ATPase families evolve across the domains of life? provenance
  2. Which entry fits molecular evolution? action

History

History.

History

History.

  1. How were the sodium-potassium pump and rotary ATPases discovered, including Nobel-recognised work? provenance
  2. Which entry fits the history of biochemistry? action

What the second pass must settle

  • Should P-type ATPase and the sodium-potassium pump be separate primary entries?
  • How should enzyme databases be linked?
  • The registry entry has merged aliases naming specific transporters; should they be split off?
Draft as JSON