SUPERFAMILY 1.75 HMM library and genome assignments server

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YVTN repeat-like/Quinoprotein amine dehydrogenase alignments

These alignments are sequences aligned to the 0047917 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        40        50        60        70        80        
                     |         |         |         |         |         |         |         |        
d1l0qa2 stfa----YIANSESDNISVIDVTSNKVTATIPVGSNPMGAVISPDGTKVYVANAHSNDVSIIDTATNNVIATVPAGSSPQGVAVSPDGKQV


        90       100       110       120       130       140       150       160       170       180
         |         |         |         |         |         |         |         |         |         |
d1l0qa2 YVTNMASSTLSVIDTTSNTVAGTVKTGKSPLGLALSPDGKKLYVTNNGDKTVSVINTVTKAVINTVSVGRSPKGIAVTPDGTKVYVANFDSM


               190       200       210       220       230       240       250       260       270  
                 |         |         |         |         |         |         |         |         |  
d1l0qa2 SISVIDTVTNSVIDTVKVEAAPSGIAVNPEGTKAYVTNVDKYFNTVSMIDTGTNKITARIPVGPDPAGIAVTPDGKKVYVALSFCNTVSVID


             280       290       300        
               |         |         |        
d1l0qa2 TATNTITATMAVGKNPYASGQF-------igsipvq


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: 0047917 (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



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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   Catenulispora acidiphila DSM 44928
NoYes   Pseudonocardia dioxanivorans CB1190
NoYes   Actinoplanes sp. N902-109
NoYes   Rhodococcus jostii RHA1
NoYes   Mycobacterium chubuense NBB4
NoYes   Mycobacterium smegmatis str. MC2 155
NoYes   Desulfosporosinus orientis DSM 765
NoYes   Kyrpidia tusciae DSM 2912
NoYes   Bacillus sp. 1NLA3E
NoYes   Nitrosococcus halophilus Nc4
NoYes   Methanocella arvoryzae MRE50
NoYes   Mycobacterium gilvum Spyr1
NoYes   Mycobacterium smegmatis str. MC2 155
NoYes   Mycobacterium kansasii ATCC 12478
NoYes   3_050719R (meta-genome)
NoYes   Hot spring microbial community from Yellowstone Hot Springs, sample YNP3 from Monarch Geyser, Norris Geyser Basin (meta-genome)
NoYes   NCBI 2017_08 genome
NoYes   STRING v9.0.5 (STRING)
NoYes   Uniprot 2018_03 genome
NoYes   TargetDB (Targets)
NoYes   ALL (only advised for small superfamilies)


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