RASA3

UniProt ID: Q14644
Organism: Homo sapiens
Review Status: COMPLETE
Aliases:
RAS p21 protein activator 3 GAP1(IP4BP) R-Ras GAP Inositol 1,3,4,5-tetrakisphosphate-binding protein Ins P4-binding protein
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Gene Description

RASA3 (RAS p21 protein activator 3, also known as GAP1(IP4BP)) is a bifunctional GTPase-activating protein that catalyzes GTP hydrolysis on both RAS family GTPases (H-Ras, N-Ras, K-Ras, R-Ras) and RAP1, converting them from active GTP-bound to inactive GDP-bound states. The protein has a characteristic domain architecture: two N-terminal C2 domains for calcium-dependent phospholipid binding, a central RasGAP catalytic domain containing the arginine finger mechanism, a pleckstrin homology (PH) domain that binds phosphoinositides (PIP3, PI(4,5)P2) and inositol 1,3,4,5-tetrakisphosphate (IP4), and a C-terminal Btk-type zinc finger. RASA3 was originally identified as the first known high-affinity receptor for IP4. Critically, PIP3 binding to the PH domain inhibits RASA3's GAP activity, providing a negative feedback link between PI3K signaling and Ras/Rap1 activity - when PI3K generates PIP3, RASA3 is inactivated, relieving its restraint on Ras/Rap1 signaling. RASA3 is predominantly cytosolic with regulated membrane association via its C2 and PH domains; proper membrane targeting is essential for function. In platelets, RASA3 is the major Rap1-GAP that counterbalances CalDAG-GEFI (Rap-GEF), setting the activation threshold to prevent inappropriate platelet activation and integrin alphaIIbbeta3 engagement. Mouse scat mutant (G125V, disrupts membrane targeting) exhibits severe thrombocytopenia and anemia with ~94% lethality by 30 days due to unchecked Ras activity in hematopoietic cells. In T lymphocytes, RASA3 acts as a gatekeeper restraining Rap1-driven LFA-1 integrin activation until proper TCR/costimulation occurs; RASA3-deficient T cells show constitutive high-affinity integrin states, impaired lymph node egress, and dysregulated immune responses. Human biallelic RASA3 loss-of-function mutations cause Rasopathy-like syndrome with developmental abnormalities and bone marrow failure. Expression is enriched in hematopoietic cells, platelets, megakaryocytes, and T cells.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0005096 GTPase activator activity
IBA
GO_REF:0000033
ACCEPT
Summary: RASA3 functions as a GTPase-activating protein with dual specificity for both Ras and Rap1 GTPases. The IBA annotation is well-supported by phylogenetic inference across GAP1 family members, all of which share this catalytic activity.
Reason: Core enzymatic function of RASA3. The GAP domain uses an arginine-finger mechanism to accelerate GTP hydrolysis on both Ras and Rap1 substrates. This is the primary molecular function of the protein and is well-documented in the literature (PMID:7637787, deep research sources).
Supporting Evidence:
PMID:7637787
In vitro it shows GAP activity against both Rap and Ras
file:human/RASA3/RASA3-deep-research-openai.md
RASA3's primary function is as a GTPase-activating protein for Ras-related small GTPases, meaning it accelerates the hydrolysis of GTP bound to these signaling proteins
GO:1902531 regulation of intracellular signal transduction
IBA
GO_REF:0000033
ACCEPT
Summary: RASA3 regulates intracellular signal transduction by inactivating Ras and Rap1 GTPases, which are central nodes in multiple signaling cascades including MAPK and integrin signaling pathways.
Reason: Core regulatory function. RASA3 acts as a negative regulator of Ras/MAPK signaling and Rap1-dependent integrin activation pathways. This broad biological process term appropriately captures RASA3's role in dampening multiple signaling cascades through its GAP activity.
Supporting Evidence:
file:human/RASA3/RASA3-deep-research-openai.md
By accelerating Ras-GTP turnover, RASA3 dampens Ras-dependent signaling for cell proliferation and differentiation
GO:0005096 GTPase activator activity
IEA
GO_REF:0000120
ACCEPT
Summary: IEA annotation for GTPase activator activity based on domain structure (RasGAP domain) and keyword mapping.
Reason: Redundant with IBA annotation but correctly captures core function. The RasGAP domain is well-characterized and the annotation is accurate.
Supporting Evidence:
file:human/RASA3/RASA3-uniprot.txt
DOMAIN 346..561; /note=Ras-GAP
GO:0005886 plasma membrane
IEA
GO_REF:0000044
ACCEPT
Summary: RASA3 associates with the plasma membrane via its C2 and PH domains, which is essential for accessing membrane-bound Ras/Rap1 substrates.
Reason: Core localization for function. RASA3 is cytosolic at rest but translocates to plasma membrane upon appropriate signals. The PH domain binds PIP3 and PI(4,5)P2 to direct membrane association. Mouse scat mutant (G125V) that disrupts membrane targeting causes severe phenotypes, demonstrating membrane localization is essential for function.
Supporting Evidence:
file:human/RASA3/RASA3-deep-research-openai.md
the spontaneous mouse mutant 'scat' carries a single G125V substitution in the Rasa3 protein that disrupts its membrane targeting
file:human/RASA3/RASA3-uniprot.txt
SUBCELLULAR LOCATION: Cell membrane.
GO:0006950 response to stress
IEA
GO_REF:0000117
REMOVE
Summary: This is a very broad term derived from ARBA machine learning. While RASA3 regulates Ras/MAPK signaling which can respond to stress, this term is too general and not specifically supported for RASA3.
Reason: Overly broad annotation without specific evidence for RASA3 involvement in stress response pathways. The ARBA-derived annotation likely reflects general properties of signaling regulators rather than specific RASA3 function. RASA3's core roles are in hematopoiesis, platelet activation, and lymphocyte trafficking - not stress response per se.
GO:0008270 zinc ion binding
IEA
GO_REF:0000043
ACCEPT
Summary: RASA3 contains a Btk-type zinc finger domain that coordinates zinc ions via conserved cysteine residues.
Reason: Accurate structural annotation. UniProt documents a Btk-type zinc finger at positions 679-715 with four zinc-binding residues (Cys687, Cys698, Cys699, Cys709). This is a well-characterized structural feature.
Supporting Evidence:
file:human/RASA3/RASA3-uniprot.txt
ZN_FING 679..715; /note=Btk-type
GO:0035556 intracellular signal transduction
IEA
GO_REF:0000002
ACCEPT
Summary: RASA3 participates in intracellular signal transduction as a negative regulator of Ras and Rap1 signaling pathways.
Reason: Accurate biological process annotation. RASA3 regulates multiple intracellular signaling cascades including Ras-MAPK and Rap1-integrin pathways. While somewhat redundant with GO:1902531, this is the more general parent term and is correctly applied.
Supporting Evidence:
PMID:7637787
cloning and characterization of this protein as a GTPase-activating protein
GO:0046580 negative regulation of Ras protein signal transduction
IEA
GO_REF:0000002
ACCEPT
Summary: RASA3 negatively regulates Ras protein signal transduction by catalyzing GTP hydrolysis on Ras family GTPases, converting them to inactive GDP-bound states.
Reason: Core biological function. This precisely captures RASA3's role as a RasGAP that turns off Ras signaling. Loss of RASA3 function leads to elevated Ras-GTP levels and hyperactive MAPK signaling, as demonstrated in mouse scat mutant and human patients with biallelic RASA3 mutations causing Rasopathy-like syndrome.
Supporting Evidence:
file:human/RASA3/RASA3-deep-research-openai.md
RASA3's GAP domain stimulates GTP hydrolysis on both Ras and Rap1
file:human/RASA3/RASA3-deep-research-openai.md
loss of functional RASA3 led to excessive Ras-GTP in erythroid cells and a block in erythropoiesis
GO:0046872 metal ion binding
IEA
GO_REF:0000043
KEEP AS NON CORE
Summary: Generic metal ion binding annotation. RASA3 binds zinc through its Btk-type zinc finger and calcium through its C2 domains.
Reason: While accurate, this is a parent term of more specific GO:0008270 (zinc ion binding). The C2 domains also bind calcium for membrane targeting. Keep as non-core since it is redundant with the more specific zinc binding term.
Supporting Evidence:
file:human/RASA3/RASA3-uniprot.txt
ZN_FING 679..715; /note=Btk-type
file:human/RASA3/RASA3-deep-research-openai.md
The C2 domains (at the N-terminus) are Ca2+-binding modules
GO:0005246 calcium channel regulator activity
IDA
PMID:10828023
Distinct localization and function of (1,4,5)IP(3) receptor ...
MODIFY
Summary: The PMID:10828023 study examined IP3 receptors and GAP1(IP4BP)/RASA3 in platelet membranes. It showed that IP4 could induce Ca2+ flux through plasma membrane, and GAP1(IP4BP) was found in plasma membrane fractions. However, the paper does not demonstrate that RASA3 directly regulates calcium channels - rather it shows that IP4 (which binds RASA3) can trigger Ca2+ entry.
Reason: The original paper (PMID:10828023) shows that IP4 can induce Ca2+ flux in platelet plasma membranes and that GAP1(IP4BP)/RASA3 is present in those membranes. However, this does not establish that RASA3 itself has "calcium channel regulator activity". The study shows IP4-mediated Ca2+ flux but does not demonstrate RASA3 directly regulates calcium channels. RASA3's established function is as a GTPase activator. The annotation may conflate IP4 binding with calcium channel regulation.
Supporting Evidence:
PMID:10828023
Ca(++) release activities were present with both (1,4,5)IP(3) and (1, 3,4,5)IP(4)
PMID:10828023
The PM fractions were found to contain the type III (1,4,5)IP(3)R and GAP1(IP4BP)
GO:0030168 platelet activation
IDA
PMID:10828023
Distinct localization and function of (1,4,5)IP(3) receptor ...
ACCEPT
Summary: RASA3 is a critical regulator of platelet activation through its Rap1-GAP activity. It counterbalances CalDAG-GEFI to set the threshold for platelet activation. However, PMID:10828023 specifically focuses on IP4 receptor localization in platelet membranes, not the regulatory role in platelet activation per se. More definitive evidence comes from later studies.
Reason: While the specific PMID cited focuses on IP4 binding/localization, RASA3's role in platelet activation is extensively documented. RASA3 is the major Rap1-GAP in platelets that restrains Rap1-dependent integrin alphaIIbbeta3 activation. Loss of RASA3 causes spontaneous platelet activation and thrombocytopenia. The term accurately describes a core physiological function even if the original reference is not the most direct evidence.
Supporting Evidence:
file:human/RASA3/RASA3-deep-research-falcon.md
RASA3 is a critical inhibitor of Rap1-dependent platelet activation
file:human/RASA3/RASA3-deep-research-openai.md
RASA3 is the chief GAP that inactivates Rap1 in platelets, counterbalancing the Rap1 activator CalDAG-GEFI
PMID:10828023
Distinct localization and function of (1,4,5)IP(3) receptor subtypes and the (1,3,4,5)IP(4) receptor GAP1(IP4BP) in highly purified human platelet membranes.
GO:0005829 cytosol
TAS
Reactome:R-HSA-5658231
ACCEPT
Summary: RASA3 is primarily a cytosolic protein that translocates to the plasma membrane upon appropriate signals. Reactome pathway annotation.
Reason: Core localization. RASA3 lacks transmembrane regions and resides in the cytosol at rest. Its membrane association is regulated by lipid binding through C2 and PH domains. This is consistent with its role as a cytosolic GAP that must translocate to membranes to access substrates.
Supporting Evidence:
file:human/RASA3/RASA3-deep-research-openai.md
RASA3 is predominantly a cytosolic protein with regulated membrane association
GO:0005829 cytosol
TAS
Reactome:R-HSA-5658435
ACCEPT
Summary: Duplicate cytosol annotation from different Reactome pathway.
Reason: Same as above - core localization. Duplicate with different Reactome pathway reference is acceptable.
Supporting Evidence:
file:human/RASA3/RASA3-deep-research-openai.md
RASA3 is predominantly a cytosolic protein with regulated membrane association
GO:0009898 cytoplasmic side of plasma membrane
IDA
PMID:10828023
Distinct localization and function of (1,4,5)IP(3) receptor ...
ACCEPT
Summary: PMID:10828023 identified GAP1(IP4BP)/RASA3 in highly purified platelet plasma membrane fractions, indicating localization at the cytoplasmic face of the plasma membrane.
Reason: Specific and well-supported localization. RASA3 associates with the inner leaflet of the plasma membrane via its PH domain binding to phosphoinositides (PIP3, PI(4,5)P2) and C2 domain interactions with phospholipids. This membrane-associated localization is essential for accessing membrane-bound Ras/Rap1 substrates.
Supporting Evidence:
PMID:10828023
The PM fractions were found to contain the type III (1,4,5)IP(3)R and GAP1(IP4BP)
file:human/RASA3/RASA3-deep-research-openai.md
RASA3 must localize to the inner surface of the plasma membrane to access its GTPase substrates
GO:0005096 GTPase activator activity
TAS
PMID:7637787
Identification of a specific Ins(1,3,4,5)P4-binding protein ...
ACCEPT
Summary: The original cloning paper (PMID:7637787) demonstrated that RASA3/GAP1(IP4BP) has GAP activity against both Ras and Rap1 in vitro.
Reason: Primary experimental evidence for core molecular function. This is the original paper characterizing RASA3 as a GTPase-activating protein with dual specificity for Ras and Rap.
Supporting Evidence:
PMID:7637787
In vitro it shows GAP activity against both Rap and Ras
GO:0007165 signal transduction
TAS
PMID:7637787
Identification of a specific Ins(1,3,4,5)P4-binding protein ...
KEEP AS NON CORE
Summary: RASA3 participates in signal transduction as a negative regulator of Ras and Rap1 pathways.
Reason: Accurate but very broad term. This is a high-level parent term of more specific annotations like GO:0046580 (negative regulation of Ras protein signal transduction) and GO:1902531 (regulation of intracellular signal transduction). Keep as non-core since more specific terms are preferred.
Supporting Evidence:
PMID:7637787
cloning and characterization of this protein as a GTPase-activating protein
GO:0007159 leukocyte cell-cell adhesion
NAS NEW
Summary: Added to align core_functions with existing annotations.
Reason: Core function term not present in existing_annotations.
Supporting Evidence:
PMID:7637787
In vitro it shows GAP activity against both Rap and Ras, but only the Ras GAP activity is inhibited by phospholipids and is specifically stimulated by Ins(1,3,4,5)P4
file:human/RASA3/RASA3-deep-research-openai.md
RASA3 is the chief GAP that inactivates Rap1 in platelets, counterbalancing the Rap1 activator CalDAG-GEFI
file:human/RASA3/RASA3-deep-research-openai.md
PIP3 binding inhibits RASA3's GAP activity, providing a feedback link between PI3K signaling and Ras/Rap regulation

Core Functions

Bifunctional RasGAP that catalyzes GTP hydrolysis on both RAS family proteins (H-Ras, N-Ras, K-Ras, R-Ras) and RAP1, converting active GTP-bound forms to inactive GDP-bound states using an arginine-finger catalytic mechanism. Acts as the major Rap1-GAP in platelets and T cells. The PH domain binds IP4, PIP3, and PI(4,5)P2; importantly, PIP3 binding inhibits GAP activity, providing negative feedback between PI3K signaling and Ras/Rap1 activation. This allows relief of RASA3-mediated suppression when PI3K is activated by upstream signals.

Supporting Evidence:
  • PMID:7637787
    In vitro it shows GAP activity against both Rap and Ras, but only the Ras GAP activity is inhibited by phospholipids and is specifically stimulated by Ins(1,3,4,5)P4
  • file:human/RASA3/RASA3-deep-research-openai.md
    RASA3 is the chief GAP that inactivates Rap1 in platelets, counterbalancing the Rap1 activator CalDAG-GEFI
  • file:human/RASA3/RASA3-deep-research-openai.md
    PIP3 binding inhibits RASA3's GAP activity, providing a feedback link between PI3K signaling and Ras/Rap regulation

The PH domain of RASA3 binds phosphatidylinositol 3,4,5-trisphosphate (PIP3) with high affinity. This binding has dual effects: it recruits RASA3 to the plasma membrane and simultaneously inhibits its GAP catalytic activity. This creates a negative feedback loop where PI3K activation (generating PIP3) suppresses RASA3, allowing sustained Ras/Rap1 signaling until PIP3 levels decline. The PH domain also binds PI(4,5)P2 and soluble IP4.

Supporting Evidence:
  • file:human/RASA3/RASA3-deep-research-openai.md
    the RASA3 PH domain has high affinity for the tris-phosphorylated phosphoinositide PI(3,4,5)P3
  • file:human/RASA3/RASA3-deep-research-openai.md
    activating PI3K (which raises PIP3 levels at the membrane) functionally inactivates RASA3

References

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Suggested Questions for Experts

Q: Is RASA3 preferentially a Rap1-GAP or Ras-GAP in vivo, or does substrate preference depend on cellular context?

Q: What is the precise mechanism by which PIP3 binding to the PH domain inhibits GAP activity?

Q: Are there tissue-specific or isoform-specific differences in RASA3 function?

Q: Does RASA3 have scaffolding or adapter functions beyond its catalytic GAP activity?

Suggested Experiments

Experiment: Structural studies (cryo-EM or crystallography) of RASA3 with and without PIP3 bound to understand inhibitory mechanism

Experiment: Proteomics to identify RASA3 binding partners in different cell types

Experiment: Targeted studies of RASA3 in non-hematopoietic cell types to understand tissue-specific functions

Deep Research

Falcon

(RASA3-deep-research-falcon.md)

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OpenAI

(RASA3-deep-research-openai.md)

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