organic-mechanisms

organic-mechanisms is a skill for Claude Code from Kdevos12/ALKYL. It costs 61 tokens per session (570 once invoked), scanned A, original, MIT.

A guide for explaining polar organic reaction mechanisms using the EASE framework: identify the electrophile, check acid-base chemistry, assess steric crowding, and follow electron movement. It covers common reactions such as SN1, SN2, E1, and E2, plus retrosynthesis.

In plain words
What is it for?
Solving organic chemistry mechanism problems, identifying nucleophiles and electrophiles, predicting substitution or elimination products, explaining selectivity, and planning synthesis steps.
Why use it?
It provides a repeatable way to decide what reacts, where bonds change, and which competing reaction is most likely.

Skill for Claude Code

Written for Claude Code: shipped in a Claude Code plugin.

Part of the alkyl plugin — 27 skills shipped together

Good fit Solving organic chemistry mechanism problems, identifying nucleophiles and electrophiles, predicting substitution or elimination products, explaining selectivity, and planning synthesis steps.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/kdevos12/alkyl/organic-mechanisms
Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add Kdevos12/ALKYL --skill organic-mechanisms
Clone the repo
git clone --depth 1 https://github.com/Kdevos12/ALKYL

Made for: Claude Code.

Or install alkyl, the plugin that ships this one along with the rest of its 27 skills.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for organic-mechanisms

README.md
[![agentmods](https://agentmods.dev/badge/skills/kdevos12/alkyl/organic-mechanisms/github.svg)](https://agentmods.dev/skills/kdevos12/alkyl/organic-mechanisms)
Your own site
<a href="https://agentmods.dev/skills/kdevos12/alkyl/organic-mechanisms"><img src="https://agentmods.dev/badge/skills/kdevos12/alkyl/organic-mechanisms/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for organic-mechanisms

Your own site · 80×15
<a href="https://agentmods.dev/skills/kdevos12/alkyl/organic-mechanisms"><img src="https://agentmods.dev/badge/skills/kdevos12/alkyl/organic-mechanisms.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 61 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 570 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00061 $0.00570
Opus 5.5 $0.00024 $0.00228
Sonnet 5.5 $0.00012 $0.00114
Haiku 4.5 $0.00006 $0.00057

Measured 1mo ago against content hash 542f9a1628dd, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

organic-mechanisms scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 1mo ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

skills/organic-mechanisms/SKILL.md · 46 lines

What it actually says

Organic Mechanisms — EASE Framework

Source: AceOrganicChem.com Ace Organic Chemistry Mechanisms with E.A.S.E. (2013) + standard references (Clayden, March).

When to Use

Any polar organic mechanism or synthesis problem. Apply EASE iteratively — one step at a time, rinse and repeat.

The Four Steps (Quick Reference)

E — Electrophile   Identify E+ and Nu−. Use resonance if unclear.
A — Acid/Base      Strong acid/base present? Move proton FIRST before continuing.
S — Sterics        Bulky group on Nu or E+? Reassess: block / carbocation / overcome.
E — Electron Flow  Nu− → E+. Draw curved arrows. Check valence. Done?
                   If not, repeat from Step 1 with new intermediates.

Reference Files

File Content
ease-framework.md Full step-by-step logic, decision rules, worked examples
electrophiles-nucleophiles.md Identification rules, pKa table, nucleophilicity scales
sterics-substitution.md SN1/SN2/E1/E2 decision tree, steric groups, Zaitsev/Hofmann
electron-flow.md Arrow pushing, HSAB (1,2 vs 1,4), intra vs inter, stereochemistry
retrosynthesis.md Disconnections, synthons, FGI, toolbox (C–C / C–X / FGI)
method-limits.md When EASE fails: RedOx table, radicals, organometallics

Quick Routing

"What is the mechanism?" → ease-framework.md "Which product forms?" → sterics-substitution.md (SN/E) or electron-flow.md (HSAB) "How do I make X from Y?" → retrosynthesis.md "Reagent does something weird" → method-limits.md "I can't find the nucleophile" → electrophiles-nucleophiles.md (draw resonance structures)

Core Rule

Electrons always flow from nucleophile to electrophile. Arrows point to where electrons are going. If you cannot identify a nucleophile, draw all resonance structures first.

Files

What ships with it

6 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 1mo ago First seen · 46 lines · 61 tokens per session scan A 542f9a1628dd

Subscribe to this mod's changes

organic-mechanisms is a skill published in the GitHub repository Kdevos12/ALKYL (7 stars, last pushed 7mo ago), licensed MIT. It adds 61 tokens to every session and 570 once invoked, about $0.0002 per session on Opus 5.5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.

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