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The atomic number $Z$ is the number of protons in an atomic nucleus, and fixes the chemical element. It is a count, with no units. An atomic nucleus with six protons is always carbon, regardless of how many neutrons accompany them or how many Electrons surround it. See the IUPAC Gold Book, atomic number.

Three independent bookkeeping questions become easy once their symbols are kept separate. Let $N$ count neutrons, $n_e$ count Electrons, $A$ be the mass number, and $Q$ be the net electric charge. A proton carries electric charge $+e$ and an Electron carries $-e$, where $e$ is the positive elementary charge; a neutron carries zero net electric charge. HenceThe reasoning is just counting: add protons and neutrons for $A$, and subtract negative Electron contributions from positive proton contributions for $Q$. A neutral chemical atom has $Q=0$, so $n_e=Z$. For a positively charged ion, fewer Electrons remain. Notation ${}_Z^A\mathrm{X}$ gives the mass number at upper left and atomic number at lower left, with $\mathrm{X}$ standing for the chemical element; a right superscript such as $+$ specifies the electric charge in units of $e$. See Flowers et al., Chemistry 2e, atomic structure and symbolism.

For neutral carbon-12, ${}_6^{12}\mathrm{C}$, the atomic number gives six protons, the subtraction $N=12-6=6$ gives six neutrons, and neutrality gives six Electrons. Neutral carbon-13, ${}_6^{13}\mathrm{C}$, instead has $N=13-6=7$ neutrons, with the same six protons and six Electrons. Thus these two isotopes occupy the same carbon box in the periodic table.

For neutral sodium of mass number $23$, ${}_{11}^{23}\mathrm{Na}$, the counts are eleven protons, $23-11=12$ neutrons, and eleven Electrons. Removing one Electron gives the ion ${}_{11}^{23}{\mathrm{Na}}^{+}$: $Q/e=1$, so $n_e=11-1=10$. Both its atomic number and its twelve neutrons stay unchanged. This is ionization, not conversion into the chemical element neon, even though a neutral neon chemical atom also has ten Electrons.

This bookkeeping is useful whenever a symbol must be translated into a physical inventory. Mass number answers how many protons plus neutrons there are; electric charge answers the imbalance between protons and Electrons; atomic number alone answers which chemical element it is. Keeping those questions distinct prevents an isotope or an ion from being mistaken for a different chemical element.

A chemical element is an identity shared by all chemical atoms whose atomic nuclei contain the same number of protons. That number is its atomic number, $Z$: six means carbon, eleven means sodium. The identity survives differences in neutron count, which distinguish isotopes, and differences in Electron count, which distinguish neutral chemical atoms from ions. See the IUPAC Gold Book, chemical element.

The same name can also denote a pure chemical substance containing only that chemical element. These two uses answer different questions. Molecular oxygen, ${\mathrm{O}}_2$, is a chemical substance made entirely of oxygen; water, ${\mathrm{H}}_2\mathrm{O}$, is a chemical compound containing both hydrogen and oxygen. A water molecule contains three chemical atoms but only two chemical elements. Joining chemical atoms through chemical bonds changes their arrangement without changing their atomic numbers.

This distinction makes stoichiometry possible: ordinary chemical reactions rearrange chemical atoms, so one can count each chemical element before and after a transformation. Changing the proton count instead changes the chemical element and requires a nuclear reaction. The periodic table organizes these identities into a useful map, while atomic number bookkeeping keeps identity, isotope, and electric charge separate.

Isotopes of a chemical element have the same atomic number $Z$, hence the same number of protons, but different neutron numbers $N$ and therefore different mass numbers $A=Z+N$. For example, every neon atomic nucleus contains ten protons: neon-20, neon-21, and neon-22 contain ten, eleven, and twelve neutrons, respectively. They occupy one chemical element box in the periodic table, rather than three boxes.

Three labels answer different questions. The chemical element fixes $Z$; the isotope specifies which neutron number accompanies that $Z$; the ion label specifies the net electric charge. Neutral ${}_{10}^{22}\mathrm{Ne}$ and the ion ${}_{10}^{22}{\mathrm{Ne}}^{+}$ both contain ten protons and twelve neutrons; they contain ten and nine Electrons, respectively. Ordinary ionization changes the Electron count, leaving the isotope unchanged. Changing the neutron number can change nuclear binding energy and the possibility of radioactive decay. Isotopic abundances can help distinguish material sources, while radioactive decay can additionally supply chronological information.

A mass spectrum makes the distinction experimentally visible: a single chemical element can give separate ion peaks at different mass-to-charge ratios. Its bulk atomic weight is a weighted mean governed by isotopic abundances, rather than the location of one compulsory peak. The historical mass spectrograph experiment and the synthetic neon mass spectrum below illustrate these complementary observations.

The periodic table arranges chemical elements in increasing atomic number, across successive periodic table periods. Its columns are periodic groups, numbered 1–18. The layout places recurring outer electron configurations above one another, making similarities in chemical bonds and chemical reactions easier to recognize. Ordering is by proton count, not by mass; the mass number of a particular isotope does not determine its box. See the official IUPAC periodic table and numbering conventions.

For the first eighteen neutral chemical atoms in their ground states, a compact description counts Electrons in successive electron shells. Thus carbon has $(2,4)$, meaning two Electrons in the first electron shell and four in the second; the sum $2+4=6$ agrees with its atomic number. Sodium has $(2,8,1)$, whose sum is $11$. These are occupancy counts, not circular trajectories of Electrons.

Reading each row from left to right gives:

The counting outline is short: the occupied electron subshells in this range are $1s$, $2s$, $2p$, $3s$, and $3p$, filled in that order for these neutral ground states. Each $s$ electron subshell holds up to two Electrons and each $p$ electron subshell up to six, giving $2$, $2+6=8$, and $2+6=8$ along these three rows. This $2,8,8$ summary applies only through argon; it is not a general rule that each electron shell fills completely before the next begins, nor a claim that the third electron shell can hold only eight Electrons. See Flowers et al., Chemistry 2e, electronic structure and electron configurations.

The recurring outer counts make the arrangement useful. Lithium and sodium each have one valence electron, whereas fluorine and chlorine each have seven valence electrons. Such similarities help anticipate chemical reactions, without making all properties identical throughout a periodic group. Helium is an instructive exception to an eight-Electron shortcut: its two Electrons complete the first electron shell, so it belongs above neon and argon in periodic group 18. Hydrogen shares column 1 with lithium and sodium but has its own distinct chemistry. See Flowers et al., Chemistry 2e, periodic-table organization.