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Why do methane, ammonia, and water have different shapes when each central chemical atom is surrounded by eight valence electrons? The answer separates the positions of atomic nuclei from the electron domains used in a VSEPR model.

Molecular geometry describes the three-dimensional arrangement of the atomic nuclei in a molecule, including bond lengths and bond angles. For a larger molecule, a shape name often describes just the neighbours of one central chemical atom. A Lewis structure records connections and electron bookkeeping; its flat layout does not fix molecular geometry.

In the VSEPR model, electron pair geometry includes both bonding electron domains and lone pairs, whereas molecular geometry counts only the chemical atoms. In methane, four bond pairs and no lone pairs give tetrahedral molecular geometry. In ammonia, three bond pairs and one lone pair give trigonal pyramidal molecular geometry. In water, two bond pairs and two lone pairs give bent molecular geometry. All three use the same ideal tetrahedral electron pair geometry; this does not make their actual bond angles equal. See Flowers, Theopold, Langley and Robinson, Chemistry 2e, §7.6: electron-pair and molecular geometries.

A static drawing also needs a physical interpretation. The atomic nuclei undergo oscillations; an arrangement at a minimum of potential energy and an experimentally averaged arrangement need not have identical bond lengths or bond angles. This distinction matters when comparing measurements with quantum mechanics calculations; see the IUPAC Gold Book: experimental bond-length conventions. Gas electron diffraction gives a concrete route from a laboratory signal to molecular geometry rather than inferring shape from a drawing alone.

In tetrahedral molecular geometry, four neighbouring chemical atoms surround a central chemical atom in the directions of the vertices of a tetrahedron. In the regular idealization, the central atomic nucleus lies at the centre of a regular tetrahedron, and every pair of chemical bonds makes the same bond angle. Methane, ${\mathrm{CH}}_4$, provides the standard example: its carbon has four bonding electron domains and no lone pair. See Chemistry 2e, §7.6: tetrahedral methane.

The exact ideal bond angle follows from four directions proportional to $(1,1,1)$, $(1,-1,-1)$, $(-1,1,-1)$, and $(-1,-1,1)$. Each has squared Euclidean norm $3$, and each distinct pair has dot product $-1$. HenceThis is a statement about a regular tetrahedron, rather than a universal exact value for every molecule labelled tetrahedral. It also explains why a cross-shaped flat drawing with $90^{\circ }$ gaps is misleading: four equal directions can spread out more evenly in three dimensions.

The same vectors sum to zero. Consequently, four equal bond-dipole contributions along those directions cancel. The symmetric methane molecule is nonpolar, but a tetrahedral shape alone does not imply a nonpolar molecule: replacing one neighbour can make the electronic distribution and bond contributions unequal. Chemical polarity depends on both molecular geometry and electron density. See McMurry, Organic Chemistry, §2.2: molecular dipoles and methane.