Questions tagged [crystallography]

For questions concerning crystalline structures and their properties.

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1answer
49 views

Miller indices: How does one translates the orientation to the origin of the unit cell?

In a section discussing Miller indices, my textbook says the following: The rules for determining the Miller indices of a direction or an orientation in a crystal are as follows: translate the ...
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1answer
55 views

How do I view a DSN6 file as text?

I am trying to isolate certain pieces of information within a dsn6 file. Specifically, I want to find the electron density around two atoms within a protein. I want to then run a python code to ...
2
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0answers
48 views

Understanding lattice matching of graphene on silver (111) crystal surface and meaning of the √3 x √3 lattice?

Figure 1 in Ivor Lončarić and Vito Despoja, Phys. Rev. B 90, 075414 Benchmarking van der Waals functionals with noncontact RPA calculations on graphene-Ag(111) (available in Researchgate) shows a ...
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0answers
28 views

How do blue shifts in Raman spectra indicate a co-crystalline compound?

The short conference paper The Acetylene-Butane Co-Crystal: A Potentially Abundant Molecular Mineral on Titan (mentioned in EurekaAlert's 'Bathtub rings' around Titan's lakes might be made of alien ...
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2answers
60 views

How can I find the smaller symmetric structure from big crystal unit cell?

I have Pyrope (Mg3Al2(SiO4)3) crystal structure, downloaded from materialsproject: https://materialsproject.org/materials/mp-6073/# It appeared as triclinic cell, but if you download CIF file and ...
3
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1answer
91 views

Space groups: Herman-Maugin notation, diagrams and Wyckoff positions

I am currently taking an Introduction to Crystallography course. After studying and understanding the punctual symmetry groups (2mm, 4/m 2/m 2/m, 32,...), the flat groups and the diverse elements of ...
2
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1answer
34 views

Why is the order of reflection simplified to n = 1?

My professor told us that for the sake of simplicity, we will assume that the order of reflection for Braggs' Law is always equal to 1 but failed to explain why. Is it because d(h,k,l) for materials ...
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1answer
40 views

What kind of isomerism does Ni(PPh3)2Cl2 have and what is their IUPAC name? [duplicate]

I know that there are 2 isomers that $\ce{Ni(PPh3)2Cl2}$ have and they exist in equilibrium. I am tempted to name them cis- and trans- but it does not sound right.
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2answers
58 views

Why is Libethenite (Cu2(OH)PO4) color green?

It is not a complex compound and the copper atom is not oxidized so I'm wondering how does its color change. The book mentioned that at favorable conditions, adding water in Copper phosphate, which is ...
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0answers
53 views

Silver (111) surface structure, and is bulk structure body-center or face-center cubic?

I'd like to understand the atomic arrangement is on a silver (111) surface. Step 1 would be to find out the bulk crystal structure. Wikipedia lists silver as face-center cubic (fcc) here and here ...
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2answers
33 views

Relation between size of ion and hydration energy [closed]

Suppose I take 1 tablespoon of an ionic crystal and put it in excess water. We know that shall the hydration energy of the crystal be more than the lattice energy, the crystal will separate in ions ...
13
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1answer
160 views

Physical meaning of thermal parameters dimension (Ų)

In single-crystal x-ray crystallography both isotropic and anisotropic displacement parameters $U_{ij}$ of thermal ellipsoids have dimension of square angstrom ($Å^2$) as follows from the definition ...
3
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1answer
86 views

Space group diagram

If you give me the name of a certain space group, for example, the P222 (orthorhombic system). How could I construct the following diagram? Image source: http://img.chem.ucl.ac.uk/sgp/large/sgp.htm ...
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0answers
33 views

What is “detwinning” as a 2D crystallography technique?

The Phys.org article Iron selenide revealed as 'garden-variety iron-based superconductor' is quoted below. Normally I would hesitate to quote so much but in this case it all seems germane. Question: ...
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2answers
3k views

Are there any crystals that are theoretically possible, but haven't yet been made?

Are there any crystals (that exist at standard temperature and pressure) that are theoretically possible, but haven't yet been made? For example, the predicted requirements for temperature, pressure, ...
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30 views

Explanation of metallic crystal structures using orbitals and electron configuration

There has to be a direct relation between metallic crystal structure formation and electrons in orbitals. For instance, we know that Fe2+ forms body centered cubic or bcc structure with the ...
9
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1answer
283 views

Use of geometry index for the determination of coordination environment

Geometry index $\tau$ is supposed to resolve proper geometry for coordination numbers (C.N.) 4 and 5 based on its extreme values ($0$ or $1$). There is also a web app Geom which handles both cases for ...
5
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0answers
854 views

Can a solid be both crystalline and amorphous? [closed]

The first line in the Wikipedia article for "Glass" reads: Glass is a non-crystalline amorphous solid that is often transparent and has widespread practical, technological, and decorative usage in, ...
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1answer
89 views

Are electronic descalers a scam?

It seems there are some electronic kits sold around nowadays by major retailers (e.g., Home Depot and Amazon) claimed to remove built-up scale from water pipes. But, do they actually work? If so, ...
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2answers
548 views

Sulfuric acid symmetry point group

On the following page: https://cccbdb.nist.gov/pglist.asp It appears that the point symmetry group of sulphuric acid is $C_2$. I know that $C_2$ means that there is an axis of symmetry of order 2 (180 ...
5
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0answers
54 views

Effect of spontaneous transmutation of atom in crystal

What happens to a compound when one of its atoms changes via spontaneous nuclear reaction to an atom with very different bonding? For example, beryllium-7 turns into lithium-7 with a half-life of 53 ...
3
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1answer
94 views

Testing for asbestos using readily available chemicals and tools?

Given that it is difficult to determine who is telling the truth in the recent claim that J&J covered up finding asbestos in their powder, is there any chemical test that we can perform on our own ...
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1answer
51 views

Lattice type from image

What type of 2D lattice is depicted in the image shown below? Is it possible to determine without knowing the length of the unit vectors and the angles in between them? I'm confused because it ...
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2answers
5k views

Cubic lattice: How corner atom of a cube is shared by 8 atoms? [closed]

Each atom is at the corner of a cube and 8 cubes meet at each corner. Therefore each atom is shared by 8 cubes. But I can't imagine it in space, so please tell how I visualize it.
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4answers
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What is the smallest molar volume?

I wondered how small a volume a mole of material could occupy, so I started with carbon, which would need 12 grams. That's 60 carats, and there happens to be a famous 60 carat diamond. If my density/...
8
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3answers
788 views

How to add hydrogens to a crystal structure?

PDB protein crystal structures most of the time lack hydrogen atoms. Usually I use PyMOL (h_add) but it does not always seem to be giving the correct result. What ...
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1answer
2k views

How to make pyramid-shaped NaCl salt crystals

I'm attempting to make sea salt pyramids like the one below. I understand this needs to be evaporated at a reasonable speed to stop the crystals forming a cube, as the when formed quickly, the edges ...
3
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0answers
812 views

What is the symmetry of the cuboctahedron (FCC metal)?

The background to this is that I've recently given a tutorial wherein we had to go through the determination of point groups for atoms in various lattices (BCC, FCC/CCP and HCP). BCC and HCP, I have ...
3
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2answers
76 views

Is there a piece of software that can help me see the (hkl) planes in a crystal lattice?

I am doing research with calcium carbonate structures. I need a way in which I can familiarize myself with the lattice structure of calcium carbonate polymorphs, especially calcite. I really struggle ...
2
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1answer
179 views

How to get ionic radii for coordination number 12?

I am studying $\ce{ABX3}$ perovskites, and I would like to calculate Goldschmidt tolerance factors for them. The $\ce{A}$ sites in these materials have a coordination number $12$. The Shannon's ...
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0answers
150 views

X-ray structure analysis mirrored coordinates?

How to ensure, that X-ray crystallography structure analysis was done right to provide correct, non-mirrored atomic coordinates? Example: Following Wikipedia image, is generated from data taken from ...
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0answers
48 views

Reading Stereographs

On an old paper, I found an interesting representation of some symmetry operations: stereographs. Online I found a set of symmetry operations and related stereographs (see: http://newton.ex.ac.uk/...
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1answer
496 views

Slips System of BCC

We have been taught that there are 48 slip Systems in BCC. I need the miller indices of each slip plane and direction. Out of 48 I got miller indices of 12 systems of $\{110\}\ \left<111\right>$...
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1answer
193 views

What is the Crystal System of MoS2?

I'm confused about the crystal system of MoS2. In the case of the monolayer MoS2, it has 3-fold rotation symmetry when viewed from the top of its unit cell (c-axis). Even in the case of bulk (AB ...
9
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1answer
307 views

Is the 'central Tin atom' in crystalline tin oxide really offset like this?

Is the position of the central Tin atom as shown in the first figure ($\ce{SnO2}$) drawn offset towards the oxygen to the right for a reason? The oxygen also seems to reciprocate and move towards the ...
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1answer
395 views

What about Miller Indices of planes passing through origin?

For Miller Indices of planes if we encounter a case where the plane passes through the origin then I have heard that the only remedy can be arrived by shifting the origin to a different point.However ...
8
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2answers
2k views

Calculate the third and fourth nearest neighbours in bcc

My textbook has given data for third and fourth nearest neighbours to be 12 and 8 with distances $\sqrt{2}a$ and $\frac{\sqrt{11}a}{2}$. I have been able to calculate for the first and second ...
5
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1answer
132 views

What is the diagram of the roto-inversion of $\bar 6$?

Using the standard way of representation: Here we have a rotation followed by an inversion (technically called 'rotational inversion'). So as to represent it, what I have done is: 1) Both rotation ...
0
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1answer
962 views

Solubility curve for sodium tetraborate in water

What is the solubility curve for sodium tetraborate decahydrate ($\ce{Na2[B4O5(OH)4]·8H2O}$), otherwise known as borax, in water ($\ce{H2O}$)? Additionally, what is the solubility of the ...
8
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2answers
657 views

What is the difference between crystal structures of proteins, organic and inorganic materials?

From the definition of crystal and the main differences between crystalline and amorphous material, it is known that crystal formation requires ordered bonding between atoms or molecules. How can ...
3
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1answer
72 views

Does a molecule need to be placed symmetrically in the unit cell?

I was watching an OCW by MIT (3.091X) on solid state. My previous notion of lattice point and unit cell got shattered after this example. Where are the unit cell and lattice points in this picture? ...
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0answers
55 views

Rietveld (FullProf) general background function

I was reading through Eric Mittemeijer's book 'Modern Diffraction Methods' when I found the following statement in the Rietveld chapter by Robert Dinnebier. It is common practice to use orthogonal ...
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1answer
370 views

Length of NaH bond from the edge length of unit cell

If the edge length of $\ce{NaH}$ unit cell is $\pu{488 pm}$, what is the length in $\pu{pm}$ of an $\ce{NaH}$ bond? The answer is $\pu{244 pm}$, I thought that $d = 2 \sqrt{2}\times r$ , do you not ...
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0answers
35 views

Rietveld refinement “fronting” of peak signal

I was trying to refine a crystal structure using Rietveld refinement yesterday. The crystal structure is already known for a related compound and the powder pattern seems to show a phase pure compound....
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1answer
113 views

Why lattice constant (unit cell) is always a parallelepiped?

Wikipedia defines lattice constant as physical dimension of unit cells in a crystal lattice. Unit cell is defined as: The unit cell is defined as the smallest repeating unit having the full ...
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0answers
437 views

Body centered cubic lattice vs Primitive cubic unit cell

I was reading about Bravias lattices(cubic crystal system) when got confused about an article in my book. Please refer to Counting body center as lattice point when basis consists of 2 atoms. The ...
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1answer
64 views

Crystal structure database search for space groups

I'm usually using databases like the Springer Materials site or the free Crystallography Open Database to get crystal structure data. But none of these offers the possibility to search for all entries ...
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1answer
283 views

How to dock aggregated structures comprised of “elementary” protein units like LEGO pieces?

There are proteins with intrinsic symmetries. For example: I was wondering how to use transformations such as: rotations, translation, replications to construct possible structures using 2 types of ...
5
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1answer
215 views

What does it mean to say “the 222 space group”?

I know there are supposed to be a few rotation axes, that it is non-centrosymmetric, it belongs to the orthorhombic crystal system, and it has four equivalent positions. What do the 2s mean?
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1answer
18 views

Electrochemical manufacturing of small metal components

Metal crystals easily can be grown via electrochemical pathways. Copper is a great example of this. I recently had an idea of growing those crystals in controlled ways (i.e.: surrounding the electrode ...