databases
literature:
ProFusion |
ISI |
ChemIDplus |
subito |
scirus |
DBGET lit |
iHOP |
Factbites |
WebLSD |
GoPubMed |
HUBMED |
TextMed |
EBIMed |
Whatizit |
BioMail |
iProLink |
KAT |
MineBlast |
SeqAnalRef |
genetic:
GOLD |
TIGR |
JGI |
VectorDB |
ATCC Vectors |
CodonUsage |
RegulonDB |
DPInteract |
PRODORIC |
BacTregulators |
STRING |
EcoCyc |
genomes:
Paracoccus denitrificans |
Pd@NCBI |
Rhodobacter sphaerosides |
Rs@NCBI |
Rhodobacter capsulatus |
Rc@Pedent |
Roseobacter denitrificans |
structure:
PDB |
OCA |
ModBase |
HOMSTRAD |
PDBTM |
NDB |
ExPDB |
PDBsum |
PDBreport |
HeteroCompDB |
DBGET pdb |
HIC-Up |
structure:
Membrane Protein Data Bank |
PDB of TM |
Orientations of Proteins in Membranes |
Membrane Proteins of Known Structure |
PDB At A Glance |
tools
packages:
NCBI |
EMBL |
ExPASy |
SRS |
EMBOSS |
BIOwebPasteur |
SMS |
iMolTalk |
BioinfoToolkit |
WHAT IF |
ProtScale |
codon usage:
GCUA |
CUA |
SGD |
sequence analysis:
Dotlet |
SMS |
WebLogo |
GENIO/Logo |
Rev-Compl |
Restriction Mapper |
SeqFacts |
BLAST search:
WU-BLAST2 |
NCBI-BLAST2 |
NCBI-microbial |
PDB BLAST |
sequence alignment:
Pairwise Alignment |
ClustalW |
T-Coffee |
MUSCLE |
ScoreCons |
3DCoffee |
Phylodendron |
primer design:
PrimerGenerator |
GeneFisher |
CODEHOP |
promotor prediction:
NNPP |
VFP |
regulatory sequence prediction:
RSAT |
VFP |
signal sequence prediction:
SignalP |
transmembrane prediction:
ConPredII |
TMHMM |
DAS |
TOPO2 |
TMPred |
SVMtm |
SOSUI |
HMMTOP |
TAMP |
HCA |
structure alignment:
3DCoffee |
Comparer |
CE |
SALIGN |
FATCAT |
POSA |
MASS |
MultiProt |
FUGUE |
MATRAS |
MAMMOTH |
K2 |
SAS |
MetaServer |
[1] |
[2] |
structure folding:
PHYRE |
structure modeling:
FUGUE |
ModWeb |
MODELLER |
SWISS-MODEL |
3D-JIGSAW |
structure validation:
WhatIf |
Procheck |
Errat |
Eval123D |
STRIDE |
RamPage |
Sting |
ProFit |
structure tools:
GeneSilico |
JOY |
StrucTools |
WebMol |
PDBTM |
atm2seq |
SuperPose |
ConSurf |
combosa3D |
TMDET |
structure visualisation:
VMD |
PyMol |
BALLview |
Chimera |
Morph Server |
trajectory |
pdb2mgif |
pdbcartoon |