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P
rotein
H
omology/analog
Y
R
ecognition
E
ngine V 2.0
Expert Mode
One-to-one threading
Submit both a sequence and a structure. Phyre will attempt to align the sequence and structure and construct a model of your sequence
One to one threading
E-mail address
Optional job description
Amino Acid Sequence
or
upload contents of sequence file
or
UniProt accession
Upload PDB format file
Single chain only
or
AlphaFold Model
"best" model
or
UniProt ID
confidence
Batch processing
Submit a file containing up to 100 sequences for automated modelling by Phyre (to increase limit contact
Harry Powell
)
Batch processing
E-mail address
Job description
Upload file of FASTA sequences (Max 100 seqs)
Phyre3-β
MSA options
E-mail address
Optional job description
Multiple sequence alignment
Or upload alignment
Alignment format
FASTA
CLUSTAL
Stockholm
A2M
A3M
EMBL
MEGA
GCG/MSF
PIR/NBRF
TREECON
Alignment method
local
global
Secondary structure scoring
yes
no
predicted vs predicted only
Secondary structure weight
0.0
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
BackPhyre
Use Phyre in reverse. Submit a PDB structure and search that structure against a wide range of genomes
Backphyre options
E-mail address
Optional job description
Upload PDB format file
Single chain only
Choose 1 or more genomes to search (ctrl-click or cmd-click)
* private genomes
(only searchable by associated users)
Agrobacterium_tumefaciens_C58_Cereon
Aplysia_californica
Arabidopsis_thaliana
Archaeon_GW2011_AR3
Archaeon_GW2011_AR5
Archaeon_GW2011_AR17
Autotransporters
Bacillus_subtilis
Bartonella_henselae_Houston-1
Bdellovibrio_bacteriovorus
Bodo_saltans
Caenorhabditis_elegans_WS244
Caenorhabditis_elegans.WS220.66
Caulobacter_crescents
Clostridium_difficile
Corynebacterium_diphtheriae
Desulfitobacterium_hafniense_Y51
Drosophila_melanogaster
Enterobacteria_phage_T4
Escherichia_coli_K12
Francisella_novicida_U112 *
GiardiaDB-37
Homo_sapiens
Lactobacillus_casei_ATCC_334
Leishmania_major
Listeria_monocytogenes
Mus_musculus
Mycobacterium_tuberculosis_CDC1551
Nanoarchaeota_archaeon_SCGC_AAA011-K22
Nanoarchaeota_archaeon_SCGC_AAA011-L22
Nanoarchaeota_SCGC_G17_aa
Nanoarchaeote_nst1_aa
Nanoarchaeum_equitans_aa
Neisseria_meningitidis_MC58
Plasmodium_falciparum
Pseudomonas_aeruginosa
Pseudomonas_putida_KT2440
Pyrenophora_tritici_repentis_M4 *
Saccharomyces_cerevisiae
Schistosoma_mansoni
Staphylococcus_aureus_COL
Streptococcus_pneumoniae_D39
Streptomyces_coelicolor
Sulfolobus_solfataricus_P2
Synechococcus_CC9311
Thermoplasma_acidophilum
Trypanosoma_brucei_TREU927
Yersinia_pestis_CO92
bp_Rtps_allmgs *
pietro temp
GenSearch
Search your sequence against a wide range of genomes
Gensearch options
E-mail address
Optional job description
Amino acid sequence
Choose 1 or more genomes to search (ctrl-click or cmd-click)
Agrobacterium_tumefaciens_C58_Cereon
Aplysia_californica
Arabidopsis_thaliana
Archaeon_GW2011_AR3
Archaeon_GW2011_AR5
Archaeon_GW2011_AR17
Autotransporters
Bacillus_subtilis
Bartonella_henselae_Houston-1
Bdellovibrio_bacteriovorus
Bodo_saltans
Caenorhabditis_elegans_WS244
Caenorhabditis_elegans.WS220.66
Caulobacter_crescents
Clostridium_difficile
Corynebacterium_diphtheriae
Desulfitobacterium_hafniense_Y51
Drosophila_melanogaster
Enterobacteria_phage_T4
Escherichia_coli_K12
Francisella_novicida_U112
GiardiaDB-37
Homo_sapiens
Lactobacillus_casei_ATCC_334
Leishmania_major
Listeria_monocytogenes
Mus_musculus
Mycobacterium_tuberculosis_CDC1551
Nanoarchaeota_archaeon_SCGC_AAA011-K22
Nanoarchaeota_archaeon_SCGC_AAA011-L22
Nanoarchaeota_SCGC_G17_aa
Nanoarchaeote_nst1_aa
Nanoarchaeum_equitans_aa
Neisseria_meningitidis_MC58
Plasmodium_falciparum
Pseudomonas_aeruginosa
Pseudomonas_putida_KT2440
Saccharomyces_cerevisiae
Schistosoma_mansoni
Staphylococcus_aureus_COL
Streptococcus_pneumoniae_D39
Streptomyces_coelicolor
Sulfolobus_solfataricus_P2
Synechococcus_CC9311
Thermoplasma_acidophilum
Trypanosoma_brucei_TREU927
Yersinia_pestis_CO92
