SUPERFAMILY 1.75 HMM library and genome assignments server

SUPERFAMILY 2 can be accessed from supfam.org. Please contact us if you experience any problems.

double-SIS domain alignments

These alignments are sequences aligned to the 0039383 model.

Sophisticated options are available for refining alignments:


Jump to [ Top of page · Refine alignments · Add alignments from genomes ]

Alignments

The numbers along the top are the segment numbers of the HMM states, and each sequence is seperately aligned to the model.
The first sequence is the seed the model was built from.
Upper case letters are aligned, lower case letters are insertions, '-' signifies a deletion and '.' is nothing.

                  10         20        30        40         50        60        70        80        
                   |          |         |         |          |         |         |         |        
d1j5xa_ sk--TLKEITDQKNELKKFFEnF-VL-NLEKTEIFSEIQKNLTdEVLFVGCGSSYNLALTISYYFERVLKIRTKAIPAGEVAFQKIPDLEER


        90       100       110       120       130       140       150       160       170       180
         |         |         |         |         |         |         |         |         |         |
d1j5xa_ GLAFLFSRTGNTTEVLLANDVLKKRNHRTIGITIEEESRLAKESDLPLVFPVREEAIVMTKSFSMILLSLMFLADKIAGNSTERFSELVGYS


               190       200       210       220       230       240       250       260       270  
                 |         |         |         |         |         |         |         |         |  
d1j5xa_ PEFFDISWKVIEKIDLKEHDHFVFLGMSEFFGVSLESALKCIEMSLTFSEAYSTLEYRHGPKALVKKGTLVFMQKVSGMDEQEKRLRKELES


             280       290       300       310       320           
               |         |         |         |         |           
d1j5xa_ LGATVLEVGEGGDIPVSNDWKSAFLRTVPAQILGYQKAISRGISPDKPPHLEKTV--vl


Statistics on alignment.   Save alignment.

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Refine alignments

Sophisticated options are available for refining alignments:

Add your sequences to the alignment:
Members of the same: including
Include all superfamily members: , or just those assigned by the selected model:
Initial T99 seed sequence: NoYes

You may enter many sequences at once using
FASTA format:

Upload a multiple sequence FASTA file:




Model: 0039383 (list models)
Initial SAMT99 seed:
Alignment:



Display Options:
Output in FASTA-like format: NoYes
Output column indices: NoYes
Sequence index (number) on each line: NoYes

Max number of insertions shown: (0 does not show insertions)
Characters per line:
Character to show inserts:
Maximum number of sequences:
Exclude sequences shorter than: residues



Jump to [ Top of page · Alignments · Refine alignments ]

Add alignments from genomes

Select below additional genomes you would like to see alignments for, then click on 'Re-Submit'. The genome assignments will be added to this page.


Select to display   Genome
NoYes   ALL (only advised for small superfamilies)


Jump to [ Top of page · Alignments · Refine alignments · Add alignments from genomes ]