Useful Chemical Biology Tools

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Swiss Institute of Bioinformatics Resource Portal

Suite of chemical biology tools!

ProtParam; TMMHMM; SWISS-MODEL

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PDB

Protein Data Bank

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PubMed

Scientific search engine

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Basic Local Alignment Search Tool (BLAST)

Sequence similarity calculator

Enzyme Function Initiative Tools

Create networks related to proteins

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Biological Macromolecule Crystallization Database

Successful conditions/parameters involved in crystallization

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Uniprot

Protein database

Bionumbers

Database of useful biological numbers (ions, concentrations, metabolites)

Sequence massager

manipulate genetic code to remove extra stuff (condenses for fasta)

Clustal omega

Sequence alignment tool

Suite of chemical biology tools!

The MEME Suite

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Interpro

Protein sequence analysis & classification

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EMBL-EBI

Suite of chemical biology tools!

Pfam

Protein analysis and classification

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antiSMASH

Metabolite predictor

PKS/NRPS Analysis Website

PKS/NRPS Analysis

Characterizes rare codons in gene of interest

Rare Codon Caltor

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Toxin Exposome Database

Detailed toxin data & comprehensive target information

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DNA/RNA analysis

Integrated DNA Technologies

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E. coli genotypes on OpenWetWare

List of genes and strains in various lab-common E. coli

VenomZone

Information of venoms and targets from 6 taxa

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Suite of chemical biology tools!

Algorithms in Bioinformatics

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Very descriptive metabolic pathway maps

KEGG PATHWAY database

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SIAS - Sequence Identity and Similarity

Pairwise sequence identity and similarity calculation

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Phobius

transmembrane topology and signal peptide predictor

SERp Server

protein mutation predictor for entropy/solubility/crystallization

WormBase

Nematode information

Wormatlas

structure and anatomy of C. elegans

GExplore

C. elegans gene and protein function

Useful Programs

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ApE

A plasmid Editor

SnapGene Viewer

DNA sequence analysis

Prism GraphPad

Statistical analysis and graphing

ChemDraw

Chemical Drawing Program

Mendeley

Reference Management Software

EndNote

Reference Mamagement Software

OriginLab

Statistical analysis and graphing

Mnova

Data manipulation

Benchling

Online shareable lab notebook

Pymol

Protein Visualization Software

Anything not listed here that you think would contribute to this list? Contact us!

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