Examples

This gallery shows examples of possible use cases of Biotite. Some of them are real world examples, others are fictional applications.

Sequences

Sequence logo of the Anderson promoter collection

Sequence logo of the Anderson promoter collection

Sequence logo of the Anderson promoter collection
Pairwise sequence alignment of Avidin with Streptavidin

Pairwise sequence alignment of Avidin with Streptavidin

Pairwise sequence alignment of Avidin with Streptavidin
Bionigma style multiple sequence alignment

Bionigma style multiple sequence alignment

Bionigma style multiple sequence alignment
Dendrogram of the BLOSUM62 matrix

Dendrogram of the BLOSUM62 matrix

Dendrogram of the BLOSUM62 matrix
Calculation of codon usage

Calculation of codon usage

Calculation of codon usage
Biotite color schemes

Biotite color schemes

Biotite color schemes
Biotite color schemes for protein sequences

Biotite color schemes for protein sequences

Biotite color schemes for protein sequences
Comparative genome assembly of SARS-CoV-2 B.1.1.7 variant

Comparative genome assembly of SARS-CoV-2 B.1.1.7 variant

Comparative genome assembly of SARS-CoV-2 B.1.1.7 variant
Genome comparison between chloroplasts and cyanobacteria

Genome comparison between chloroplasts and cyanobacteria

Genome comparison between chloroplasts and cyanobacteria
Finding homologs of a gene in a genome

Finding homologs of a gene in a genome

Finding homologs of a gene in a genome
Homology of G-protein coupled receptors

Homology of G-protein coupled receptors

Homology of G-protein coupled receptors
Hydropathy and conservation of HCN channels

Hydropathy and conservation of HCN channels

Hydropathy and conservation of HCN channels
Similarity of HCN and related channels

Similarity of HCN and related channels

Similarity of HCN and related channels
Multiple sequence alignment of Cas9 homologs

Multiple sequence alignment of Cas9 homologs

Multiple sequence alignment of Cas9 homologs
Conservation of *LexA* DNA-binding site

Conservation of LexA DNA-binding site

Conservation of *LexA* DNA-binding site
Statistics of local alignments and the E-value

Statistics of local alignments and the E-value

Statistics of local alignments and the E-value
Sequence comparison of bacterial luciferases

Sequence comparison of bacterial luciferases

Sequence comparison of bacterial luciferases
Feature map of a synthetic operon

Feature map of a synthetic operon

Feature map of a synthetic operon
Identification of potential open reading frames

Identification of potential open reading frames

Identification of potential open reading frames
Comparison of human PI3K family

Comparison of human PI3K family

Comparison of human PI3K family
Plasmid map of a pET15 vector

Plasmid map of a pET15 vector

Plasmid map of a pET15 vector
Visualization of a custom plasmid

Visualization of a custom plasmid

Visualization of a custom plasmid
Quality control of sequencing data

Quality control of sequencing data

Quality control of sequencing data
Identification of the ribosomal binding site

Identification of the ribosomal binding site

Identification of the ribosomal binding site
Quality of sequence reads

Quality of sequence reads

Quality of sequence reads
Visualization of region in proximity to *lac* operon

Visualization of region in proximity to lac operon

Visualization of region in proximity to *lac* operon
Mutual information as measure for coevolution of residues

Mutual information as measure for coevolution of residues

Mutual information as measure for coevolution of residues
Domains of bacterial sigma factors

Domains of bacterial sigma factors

Domains of bacterial sigma factors
Polymorphisms in the THCA synthase gene

Polymorphisms in the THCA synthase gene

Polymorphisms in the THCA synthase gene

Structures

Construction of an adjacency matrix

Construction of an adjacency matrix

Construction of an adjacency matrix
Plotting the base pairs of a tRNA-like-structure

Plotting the base pairs of a tRNA-like-structure

Plotting the base pairs of a tRNA-like-structure
Biological assembly of a structure

Biological assembly of a structure

Biological assembly of a structure
Contact sites of protein-DNA interaction

Contact sites of protein-DNA interaction

Contact sites of protein-DNA interaction
Calculation of protein diameter

Calculation of protein diameter

Calculation of protein diameter
Detection of disulfide bonds

Detection of disulfide bonds

Detection of disulfide bonds
Docking biotin to streptavidin

Docking biotin to streptavidin

Docking biotin to streptavidin
Hydrogen bonds between protein domains

Hydrogen bonds between protein domains

Hydrogen bonds between protein domains
Missing residues in protein structures of DNA-PKcs

Missing residues in protein structures of DNA-PKcs

Missing residues in protein structures of DNA-PKcs
Visualization of glycosylated amino acids

Visualization of glycosylated amino acids

Visualization of glycosylated amino acids
Superimposition of two protein structures

Superimposition of two protein structures

Superimposition of two protein structures
Identification of lipid bilayer leaflets

Identification of lipid bilayer leaflets

Identification of lipid bilayer leaflets
Leontis-Westhof Nomenclature

Leontis-Westhof Nomenclature

Leontis-Westhof Nomenclature
Basic analysis of a MD simulation

Basic analysis of a MD simulation

Basic analysis of a MD simulation
Creating an MMTF based PDB archive

Creating an MMTF based PDB archive

Creating an MMTF based PDB archive
MMTF as trajectory format

MMTF as trajectory format

MMTF as trajectory format
Molecular visualization of caffeine

Molecular visualization of caffeine

Molecular visualization of caffeine
Visualization of normal modes from an elastic network model

Visualization of normal modes from an elastic network model

Visualization of normal modes from an elastic network model
Structural alignment of lysozyme variants using 'Protein Blocks'

Structural alignment of lysozyme variants using ‘Protein Blocks’

Structural alignment of lysozyme variants using 'Protein Blocks'
Annual releases of PDB structures

Annual releases of PDB structures

Annual releases of PDB structures
Partial charge distribution

Partial charge distribution

Partial charge distribution
Assembly of a straight peptide from sequence

Assembly of a straight peptide from sequence

Assembly of a straight peptide from sequence
Ramachandran plot of dynein motor domain

Ramachandran plot of dynein motor domain

Ramachandran plot of dynein motor domain
Determination of amino acid enantiomers

Determination of amino acid enantiomers

Determination of amino acid enantiomers
Creation of an amino acid rotamer library

Creation of an amino acid rotamer library

Creation of an amino acid rotamer library
Arrangement of beta-sheets

Arrangement of beta-sheets

Arrangement of beta-sheets
Solvation shells of sodium and chloride ions

Solvation shells of sodium and chloride ions

Solvation shells of sodium and chloride ions
Secondary structure during an MD simulation

Secondary structure during an MD simulation

Secondary structure during an MD simulation
Comparison of a tRNA-like-structure with a tRNA

Comparison of a tRNA-like-structure with a tRNA

Comparison of a tRNA-like-structure with a tRNA
Four ways to get the secondary structure of a protein

Four ways to get the secondary structure of a protein

Four ways to get the secondary structure of a protein
Cavity solvation in different states of HCN4

Cavity solvation in different states of HCN4

Cavity solvation in different states of HCN4
Visualization of Watson-Crick base pairs

Visualization of Watson-Crick base pairs

Visualization of Watson-Crick base pairs

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