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🐍 PyPI

CVE-2026-3408

Open Babel CDXML File atom.cpp GetExplicitValence null pointer dereference

Also known asGHSA-rxpr-wq63-jr7pPYSEC-2026-2791
Published
Mar 2, 2026
Updated
Jul 15, 2026
Affected
1 pkg
Patched
1 / 1
Exploits
None indexed

EPSS Exploitation Probability

via FIRST.org ↗
0.4%probability of exploitation in next 30 days
Lower Risk32th percentile0.00%
0.00%0.30%0.60%0.89%0.1%0.1%0.1%0.4%0.4%Apr 26Jun 26Jul 26

EPSS (Exploit Prediction Scoring System) is a daily probability model maintained by FIRST.org. It estimates the likelihood a CVE will be exploited in production environments within the next 30 days, derived from real-world threat intelligence signals.

Blast Radius

1 pkg affected
🐍openbabel

Real-time download stats are indexed for npm and PyPI packages. This vulnerability affects PyPI packages — download data is not available via public APIs for these ecosystems.

Description

A vulnerability was identified in Open Babel up to 3.1.1. This impacts the function OBAtom::GetExplicitValence of the file isrc/atom.cpp of the component CDXML File Handler. Such manipulation leads to null pointer dereference. The attack can be launched remotely. The exploit is publicly available and might be used. The name of the patch is e23a224b8fd9d7c2a7cde9ef4ec6afb4c05aa08a. It is best practice to apply a patch to resolve this issue.

Affected Packages

1 total 1 fixed
EcosystemPackageVulnerable rangeFix
🐍PyPIopenbabelall versions3.2.0

Detection & mitigation playbook

Open-source dependency
  1. Detect

    Scan your dependency tree (package-lock.json, pnpm-lock.yaml, requirements.txt, go.sum, etc.) for openbabel. O3's reachability analysis confirms whether the vulnerable code path is actually invoked in your application, so you act on real exposure instead of every transitive match.

  2. Fix

    Update openbabel to 3.2.0 or later, then make sure no transitive (indirect) dependency still pins the vulnerable range — O3 confirms CVE-2026-3408 is resolved across your whole dependency graph.

  3. Workarounds

    If you can't upgrade right away: gate or disable the affected feature, validate untrusted input at the boundary, and avoid passing attacker-controlled data into the vulnerable path. O3's runtime protection blocks exploitation in production as an interim safeguard until the upgrade lands.

  4. How O3 protects you

    O3 pinpoints whether CVE-2026-3408 is reachable in your code and exactly where to fix it, then blocks exploitation in production at runtime until the patched version is deployed.

Tailored to CVE-2026-3408. Runtime protection reduces exposure until a permanent patch is applied and verified — it complements patching, it doesn't replace it.

Frequently Asked Questions

A vulnerability was identified in Open Babel up to 3.1.1. This impacts the function OBAtom::GetExplicitValence of the file isrc/atom.cpp of the component CDXML File Handler. Such manipulation leads to null pointer dereference. The attack can be launched remotely. The exploit is publicly available and might be used. The name of the patch is e23a224b8fd9d7c2a7cde9ef4ec6afb4c05aa08a. It is best practice to apply a patch to resolve this issue.
O3 Security · Impact-Aware SCA

Is CVE-2026-3408 in your dependencies?

O3 detects CVE-2026-3408 across PyPI dependencies and uses function-level reachability to confirm whether the vulnerable code path is actually reachable — not just present. No false positives.