SUPERFAMILY 1.75 HMM library and genome assignments server

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Metalloproteases ("zincins"), catalytic domain alignments

These alignments are sequences aligned to the 0047529 model.

Sophisticated options are available for refining alignments:


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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    
                                                                           |         |         |    
d1j7na1 ..........................................................ERNKTQEEHLKEIMKHIVKIEVKGEEAVKKEAAE
d1j7na2 pkskidtkiqeaqlninqewnkalglpkytklitfnvhnryasnivesaylilnewkn------------------------------NIQS


            40        50        60        70        80        90       100       110       120      
             |         |         |         |         |         |         |         |         |      
d1j7na1 KLLEKVPSDVLEMYKAIGGKIYIVDGDITKHISLEALSEDKKKIKDIYGKDALLHEHYVYAKEGYEPVLVIQSSEDYVENTEKALNVYYEIG
d1j7na2 DLIKKVTNYLVD----GNGRFVFTDITLPNIAEQYTHQDEIYEQVHSKGLYVPE-----------SRSILLHGPSKGVELRNDSEGFIHEFG


         130              140       150       160       170       180       190       200         21
           |                |         |         |         |         |         |         |           
d1j7na1 KILSRDI.......LSKINQPYQKFLDVLNTIKNASDSDGQDLLFTNQLKEHPTDFSVEFLEQNSNEVQEVFAKAFAYYIEPQHRDVLQL..
d1j7na2 HAVDDYAgylldknQSDLVTNSKKFIDIFKEEGSN------------------------LTSYGRTNEAEFFAEAFRLMHSTDHAERLKVqk


        0       220       230            
        |         |         |            
d1j7na1 YAPEAFNYMDKFNEQEINLSLEELKDQR.....
d1j7na2 NAPKTFQFIND-----------------qikfi


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: 0047529 (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   Bacillus cereus 03BB102
NoYes   Bacillus anthracis str. A0248
NoYes   Bacillus cereus biovar anthracis str. CI
NoYes   Bacillus anthracis str. H9401
NoYes   Bacillus anthracis str. CDC 684
NoYes   Bacillus anthracis str. 'Ames Ancestor'
NoYes   Bacillus anthracis str. A2012
NoYes   NCBI 2017_08 genome
NoYes   STRING v9.0.5 (STRING)
NoYes   Uniprot 2018_03 genome
NoYes   NCBI plasmid sequences (Plasmids)
NoYes   PDB chains (SCOP 1.75) (PDB)
NoYes   Protein Data Bank (all PDB sequenc)
NoYes   SCOP2 SCOPe CATH ECOD (all domain sequ)
NoYes   ALL (only advised for small superfamilies)


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