Mineralogy: Crystal Chemistry

Crystal Chemistry

THE NATURE OF CHEMICAL ELEMENTS

Each Mineral composed of element in various combination

elements composed fundamental building block of matter: Proton, Neutron, & Electron

Mass of p⁺ = Mass of neutron > Mass of e- 

P⁺ & n held together in nucleus by attractive force

Atomic number (Z): Each element has specific number of p⁺ in nucleus & Z is number of Proton 

Number of n = Number of p⁺ for elements with small Atomic number, & Number of n > Number of p⁺ for elements with higher Atomic number
تتساوى اعداد النيوترونات مع البروتونات بالعناصر الخفيفة وتزداد بالعناصر الثقيلة: لان كلما زاد عدد البروتونات تزداد قوى التنافر بينها (عدم استقرار النواة) فيزداد عدد النيوترونات لتصل الذرة للاستقرار وكلما زاد عدد النيوترونات يزداد العدد الكتلي وتنتج العناصر الثقيلة “قابلة للانشطار” 

Isotope: element has different number of n

mass number : sum of number of n & p⁺

atomic mass : mass of atom divided by one-twelfth mass of ¹²C atom

Except for ¹²C atomic mass is just trifle different from mass number, Because each isotope has different number of n so each isotope must have different atomic mass

atomic weight: average weight of atomic masses of isotopes, depends on isotopic composition

Only 83 elements are available to make minerals: from 112 element in periodic table only 94 occur naturally, 11 of 94 are geologically ephemeral (occur in small amounts as short-lived radioactive isotopes produced by n-capture or radioactive decay & so it decay rapidly)
عناصر لا تدخل بتركيب المعادن (الغازات النبيلة العناصر النشطة والمصنعة بالمختبرات) والعناصر النشطة لا تدخل لان فترة وجودها صغيرة فهي تتحول لعناصر اخرى ضمن سلسلة من التفاعلات

ELECTRONS

In uncharged atom: number of e- = number of p⁺

Electron don’t orbit randomly around nucleus, but systematically organized into energy level with 4 quantum number

Pauli Exclusion Principle: no 2e- can have same of 4 quantum number
Principal Number (η)
يصف مستويات الطاقة والبعد عن النواة
have any +ve integer value

energy of e- depend on η
higher η → higher energy Because higher energy associated with greater distance from nucleus

η are correlated with shells that traditionally are identified with letters (K, L, M, N…etc)
Angular Momentum Number (l)
Depend on value of η : L = [0, (n – 1)]
distinguishes subshells with different shapes يصف شكل المدار

Calculation
maximum subshell number within shell is limited to n – 1
For K shell: l = η – 1 = 0 →(l=0) has 1s 
For L shell: l = 2 – 1 = 1 → (l=1) 2s & 2p

subshell identified with η of shell & letter of subshell
Ex. p subshell in (n=2) is 2p

magnetic quantum number (Mι)
Depend on value of l : Mι = [-l,+l]
number of orbitals within subshell = 2l + l
It distinguishes among different orbitals with different orientations within subshell
يصف اتجاه المدارات

Spin quantum number (Ms)
Each orbital contain 2e- distinguished by Ms, & the Values of Ms = +½ or ½
electron behave spinning (magnet) on axis, so Ms taken to indicate spin to right & left
each spinning charged e- behave like simple magnet with north & south pole Because magnetic field generated by movement of e-
If electron spins are balanced, so number of right & left spins is same & no net magnetic moment formed
if e- spin aren’t balanced, net magnetic moment result
range of energy levels in subshell of different shell overlap : progression of increase energy level is shown in Figure : 1s < 2s < 2p < 3s < 3p < 4s < 3d….

valence electrons

elements at right side of table (noble gasses) have all of their subshells filled 

Core: inner shell configuration, within shells are entirely filled

Valence electrons: outer shell configuration within shells that are not entirely filled

If core is identical to electron configuration of noble gas It’s called noble-gas core
Ex, Na has Ne noble-gas core + single 3s valence electron

A pseudonoble-gas core consists of noble gas core + entirely filled d & f subshell
Ex. Arsenic (As) has pseudonoble gas core 1s, 2s,2p,3s,3p,4s, & 3d subshells + three 4p valence electrons

Formation Of Ions

Ions: atoms with excess or deficiency of e- compared to number of p⁺ in nucleus

Anions: Ion with net -ve charge because have more e- than p⁺

Cations: Ion with net +Ve charge because have fewer e- than p⁺

valence or oxidation state: charge of ion

Whether element will form anion or cation can be inferred from configuration of valence electrons

Cation Vs. Anion

Metals that have noble gas or pseudonoble gas cores, have Little energy to lose valence e- to form electron configuration of noble gas, so they form cation

Nonmetals, have valence subshells that need few e- to be filled, & nonmetals have strong affinity for e- to fill outer subshell to form anion
Electronegativity (δ-)
measure propensity of element to gain or lose electrons

Elements with low δ- lose outer valence e- readily to form cations
Elements with high δ- have strong affinity for extra e- & tend to form anion

δ- values are used to estimate nature of chemical bonds
عدد التأكسد الممكن لجميع العناصر

ABUNDANCE OF THE ELEMENTS

8 element are present in substantial amounts (O, Si, Al, Fe, Ca, Na, K, & Mg) comprise large majority of crust, & are elements from which most common minerals are composed (all are cation except O)

The oceanic crust is richer in Fe & Mg (Basalt) than average crust

Determining composition of entire Earth is even more difficult because mantle & core cannot be sampled directly, & Estimates are obtained by:
1. Earth’s mass & density distribution as determined by geophysics
2. Composition of basalt derived from mantle & samples of mantle that arrive with magma
3. Composition of meteorites, represent material from which Earth accreted
4. Applying appropriate cosmological, geochemical, & petrophysical models to evaluate these data

Chemical Bonds

Chemical Bonding

Is the force that hold atoms together

grouped into 2 categories:
1. bonds involve valence electrons
2. bonds don’t involve valence electrons

Some mineral have different bond types, such as Graphite:
1. Covalent σ & π bonds
2. Intermediate covalent/metallic character
3. Van Der Waals bonds

bonds involve valence electrons (Valence Related Bonding)

involve mechanisms allow elements to acquire of noble gas or pseudo-noble- gas configuration by gain, loss, or sharing valence electron, would be in lower-energy, & form stable configuration

Types of Valence Related Bonding
1. ionic bond
2. covalent bond (sigma σ or Pi π)
3. metallic bond (conduction, valence)band

Bond Not Involving Valence Electron

depend on relatively weak electrostatic forces that can develop because of asymmetric charge distribution

These bonds are sometimes referred to as molecular or intermolecular bonds

2 mechanisms by which asymmetric charge distribution is developed are illustrated by hydrogen & Van Der Waals bonding

Types of bonds don’t involve valence e-
1. van der Waals
2. hydrogen bonding

Ionic Bond

formed by electrostatic attraction between +ve & – ve ions (Anion + Cation)

Ex. halite (NaCI) make ionic bound because:
1. Exchange of electron between Na (loss) & Cl (gains) produce stable electron configuration for both
2. Na (+ve) & Cl (-ve) have opposite charges

Nature of attractive force between oppositely charged given by Coulomb law
                         F α (q₁* q₂) / d²

Equilibrium distance between Na & Cl is given where F = 0 (At greater distances attractive force & smaller distances repulsive force is larger) F=0 → Fattractive = Frepulsive

Charges must balance Ion bonds together if net +ve charge = net -ve charge

Ionic bond fairly strong because:
1. Ion act like charged sphere & pack together in systematic & symmetrical manner
2. +ve & -ve charges alternate to form electrical neutral crystalline solid, This represent low-energy configuration

Ionic-bonded crystals tend to be brittle

Ionic crystals have strong resistance to sliding different parts past each other Because like charges repel each other

Forcing issue result in rupture rather than ductile deformation Because structures quite orderly

Failure commonly occur along cleavage plane

Covalent Bond

formed by sharing of electrons, & occurs when orbitals of 2 atoms overlap

Provided overlapping orbitals have no more than 2 electrons combined

electrons in orbital begin move about both atom because attracted to nuclei of both atom, bond established

Strength of covalent bonds is function of degree to which orbitals of adjacent atoms overlap, & more overlap yields stronger bonds (such as in diamond)

Ionic bond not possible in diamond because: 
1. all C have identical electron configuration & affinity for valence electron
2. One C cannot steal electron from another to form +ve & – ve ions

Types of covalent bond:
1. sigma (σ): has high degree of symmetry about axis parallel to length of orbitals that overlap end to end, like bond in diamond
2. pi bonds (π): orbitals overlap side to side, so e- shared laterally, found in graphite
In diamond, high degree of overlap produces very strong bond
Diamond composed of (C) & noble-gas configuration obtained by gaining or losing 4e-, & To produce covalent bond it must be share 4e-, but in ground-state configuration of C only three 2p orbitals are available, 2 have e- & third has none, & 2s orbitals cannot share nay e- because contains 2e- & To create 4 unpaired orbitals, hybrid orbitals formed:
1. One of e- in 2s promoted to vacant 2p orbital; this provides 4 unpaired orbitals
2. Because all 4 bond to adjacent C must be identical, orbital in 2s & 2p hybridized into 4 identical 3sp³ orbital 
3. Each of orbitals consists large lobe pointing in one direction & small in opposite, positioned around nucleus so that large lobes define corners on tetrahedron
4. Each of 3sp shared with identical hybrid orbital to form continuous crystal structure of diamond, Each are sigma σ covalent bonds
Bond in graphite
π & σ bonding within sheets of C is very strong, stronger than bonds in diamond, That attested by observation that C-C bonds in graphite are shorter than in diamond

low hardness of graphite is consequence of van der Waals bonds that hold sheets together

Metallic Bonds

considered to type of covalent bond in which valence electrons delocalized & free to move throughout crystal structure

Formation of metallic bonds depends on:
1. Valence electrons held weakly: like Metals that have low electronigativity
2. Number of electron shared must be large
3. Availability of vacant energy levels into which valence electrons can readily move: This is controlled by spacing between atoms

If spacing between atoms = infinite, so all atoms have same energy level & orbitals 

Width of energy band produced by subshell increases as a proximity of atoms increases

e- become free to migrate throughout structure if:
1. energy level of unfilled band overlaps that of filled band
2. outer valence subshell is only partially filled

Mg illustrates overlap of unfilled band with filled band, When Mg atoms placed in close proximity, width of energy band increase so 3s & 3p band overlap

Abundance of available energy levels allows electrons to migrate easily via structure

conduction band band has more energy level than their electrons & can conduct electrons via crystal if voltage is applied, such ad 3p band in Mg

valence band provide electrons move into conduction band, such as 3s band in Mg

inner subshells don’t contribute to electrical conduction because energy gap, known as band gap, is present between bands

Na have conduction band + valence band

Only half of energy levels in 3s band can be occupied at any one time so remaining energy levels are available for conduction

Transition metal utilize both mechanisms to produce metallic bond, conduction occur in d band (contain unfilled orbitals) & energy level of d band overlap higher s & p bands

Metalic bond no directional because metalic bond don’t involve matching specific orbital on adjacent atoms,

Metals atoms back together in highly symmetrical manner & held together by weak bonds provided by valence e- migrating throughout structure in conductiin band

Because metalic bonds are weak metals tend to be relatively soft & malleable

Because metal atoms have their valence requirements satisfied by sea of valence e-, it very easy for one metal atom to substitute for another in crystal structure

Width of energy bands increases as atoms are brought closer together

Hydrogen Bonding

Ice is most familiar mineral have H-bond

Ice composed of H₂O, Bonding occurs because H₂O polar molecule, 2H covalently bond to O by sharing electrons

Polar: Because O has high electronigativity than H, it places greater claim on shared electrons than do H & This produces electrical polarity to water molecule
Water molecule

Van Der Waals Bonds

Depend on asymmetrical charge distribution, but asymmetry is produced in different way

Van der Waals bonds are quite weak, & mineral have them (graphite & talc) are soft & greasy

soft & greasy properties used to advantage: 
1. graphite soft & black, used to make pencil, with which sheets slide past each other
2. Talc used as body powder because it is soft & helps prevent chafing of tender skin
3. Weakness found in clay minerals also leads to major engineering problem, known as swelling soil
In Graphite that consist sheet of C covalently σ & π bonded
more -ve charged electron on one side than other producing polarization, & polarization on one sheet are similar in its neighborse, & Van Der Waals pond produced by weak electrostatic atraction between opposite charge of poth sheets

Relation among Valence-Dependent Bond

values of electronegativity can be used to estimate the nature of chemical bond
1. Ionic bonding should be expected if δ- is quite different
2. Covalent & Metallic involve sharing of e- among atoms with similar affinity for e- & small or zero difference in δ-

Crystals with ionic & covalent bond have low electrical conductivity because:
1. Valenc e- held tightly in specific orbital
2. Electrical conductivity increases if crystals heated because thermal energy increases 

Crystals with metallic bonds have high electrical conductivity because:
1. Electron are free to migrate throughout structure in conduction bands
2. Electrical conductivity of metallic bonds decreases as temperature increases because greater thermal vibrational energy of lattice tends to impede migration of electron
mathematical relationship is Percent ionic character

Figure show: Empirical relationship between difference in δ- & degree of ionic character produced
Native elements, like diamond C, graphite C, sulfur S, gold Au, & silver Ag, form bonds in Δδ- = zero, These bond are intermediate between covalent & metallic

Sulfate → covalent + metallic

Silicate → covalent + ionic

Cation Vs Anion

About atoms!

Volume occupied by proton, neutron, & electron that comprise isolated atom or ion defined by probability of finding electrons at specific locations around nucleus

Probability aren’t spherical, except electron in s shells, & don’t have defined boundaries

Some probability, always exists of finding electron at great distance from nucleus

Chemical bond involve some degree of covalent bonding in which orbital from atoms or ions are inferred to overlap, to allow sharing electrons

Effective radius

Atom behave as little sphere, It convenient to define sizes of atoms in term of effective radius based on distance between centers of atoms

Effective radius of atom or ion: is size it would have if it behaved like small hard sphere

Atomic radius: effective radius of uncharged atom

Ionic radius: effective radius of anion or cation

In covalent or metallic bond bond length (L) is equal to 2 effective radius 2R
                                     L = 2R

– Techniques of X-ray diffraction used to measure bond length & sum of effective radius of atoms

– There are 2 sets of data depending on nature of chemical bonds involved:
1. For metals & semimetals, radii based on metallic bonding in structures in which atoms closely packed so that each atom is in contact with 12 other atoms
2. For non-metals, radii based on single covalent bonds

In ionic-bond, length between anion & cation = to sum of effective ionic radii of cation Rc & anion Ra
                             L = Rc + Ra

Techniques of X-ray measurement length between anions & cations but cannot tell us how much of bond length to allot to cation & how much to anion

to estimate of effective ionic radii of anions & cations:
1. Comparing different structure
2. Evaluate cation-anion & anion-anion distance

principal variables influence effective ionic radius:
1. Oxidation state (valence) of ion
2. Coordination Number (CN): Number of anions in contact with cation
3. spin state: factor in transition metals with d orbitals

Oxidation State & Coordination Number

Cations are smaller than uncharged atom Increase +ve charge produce smaller ion (size decreases) because electron held more tightly& closely to nucleus

Anions are larger than uncharged atom because nucleus is less able to hold additional electrons tightly

Interatomic distances, & effective ionic radii, influenced by number of anions contact with cation (CN)

Anions larger than cations, so structure considered to consist framework of packed anions with smaller cation tucked into interstice, or hole between anions

size of interstice determine by coordination number (CN)

large hole require more anion to define boundaries

coordination number of 4 -for example- involves 4 anion arranged at corners of tetrahedron with small space in middle in which small cation may reside

as coordination number increases, effective ionic radius of cations occupying hole defined by anions

cations expand or shrink to fill space available between anions
High spin state ions have minimum pairing of electrons in d orbitals; & low have maximum pairing & smaller

high spin state is preferred because having unpaired electrons represents lower energy configuration than having paired electrons within d orbital

some bonding geometries require hybridization that favors low-spin configuration

Iron exhibits different spin states
Under crustal conditions, high-spin configuration dominates in most minerals

The End

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