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In your publication cite :
NPS@: Network Protein Sequence Analysis
TIBS 2000 March Vol. 25, No 3 [291]:147-150
Combet C., Blanchet C., Geourjon C. and Deléage G.

CLUSTALW multiple alignment

Abstract Thompson, J.D., Higgins, D.G. and Gibson, T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. (1994) Nucleic Acids Research, 22, 4673-4680 [HELP]
alignment with width :
residues.
Conservation level of % (works with "using conservation level of" option in list above, negative value will hide).

with percentage of secondary structure.

DSC (King and Sternberg, 1996) [HELP]
DPM (Deleage and Roux, 1987) [HELP]
GOR I (Garnier et al.,1978) Choose parameters [HELP]
GOR III (Gibrat et al.,1987) [HELP]
GOR IV (Garnier et al., 1996) [HELP]
HNN (Guermeur, 1997) [HELP]
SIMPA96 (Levin et al., 1996) [HELP]
PHD (Rost et al., 1994) [HELP]
PREDATOR (Argos et al., 1996) Choose parameters [HELP]
SOPM (Geourjon and Deleage, 1994) [Choose parameters] [HELP]

View CLUSTALW in: [AnTheProt (PC) , Download...] [HELP] 


                        10        20        30        40        50        60
                         |         |         |         |         |         |
mouse_kiss1     MISMASWQLLLLLCVATYGEP---LAKVK-PGSTGQQSGPQELVN---------------
opposum_kiss1   MRSSVYWQLLLLLSVSPFGETSDKFAPVENPGRTGTSSLSQEASSSDFSALGQPGRLLAH
human_kiss1     MNSLVSWQLLLFLCATHFGEPLEKVASVGNSRPTGQQLESLGLLA---------------
frog_kiss1      MSSLCLFLFLLGIHLGRSDHTAKNTDELYSQVPGKSQWLGSLLCP---------------
zfish_kiss1     ---MMLLTVILMLSVARVHTN-----------PSGHFQYYLEDET---------------
zfish_kiss2     ---MNTRALILFMSAMVSQST-----------AMRAILTDMDTPEP--------------
frog_kiss2      --MLLLLLLTLVISQHAVGGT-----------MFRGDEEGLELEE---------------
                        . * :                                               
Prim.cons.      M4S2VLWQLLL2LSVAR3GET33K4A4V4NPGPTGQQ222LELEE2DFSALGQPGRLLAH

                        70        80        90       100       110       120
                         |         |         |         |         |         |
mouse_kiss1     --AWEKESRYAESKPGSAGLRARR-SSPCPPVEGP-AGRQRPLCASRSRLIPAPRGAVLV
opposum_kiss1   LIPWEGRPQCLE-KPEQTGQTQRL-AMLCPSDEAS-DPLWPGLCPTRSRLITAPQGALLV
human_kiss1     --PGEQSLPCTERKPAATARLSRRGTSLSPPPESSGSPQQPGLSAPHSRQIPAPQGAVLV
frog_kiss1      --EKVPTTRRAEQMPVLSLLCRRK-KSLSTGHPWS--TDS--LLPSRS--ISAPEGEFLV
zfish_kiss1     --PEETSLRVLR------GTDTRP-TDGSPPSKLS-ALFSMGAGPQKNTWWWSPESPYTK
zfish_kiss2     --MPDPKPRFLS-------MERRQFEEPSASDDAS----LC-FFIQEK----DETSQISC
frog_kiss2      --IGGPETSYPEGDP---REKSESYELIPSADTLSWPGRSNICYFIRE---GRLESQLSC
                                      .      .    .           ..       .    
Prim.cons.      LIP2EP23R2LE4KP44TGL72RR32SLSPPDE2S2A2RSPGLCP2RSRLIPAPEGA2LV

                       130       140       150       160       170
                         |         |         |         |         |
mouse_kiss1     QREKDLSTYNWNSFGLRYGRRQAAR-----AARG-------------------------
opposum_kiss1   EREKDMSTYNWNSFGLRYGKRQTNRG----KARVPA-----------------------
human_kiss1     QREKDLPNYNWNSFGLRFGKREAAPGN---HGRSAGRG---------------------
frog_kiss1      QREKDLSTYNWNSFGLRYGKRGSGSE----NSKTKVW----------------------
zfish_kiss1     RRQ-NVAYYNLNSFGLRYGKREQDMLTRL-KQKSPVK----------------------
zfish_kiss2     KHRLARSKFNYNPFGLRFGKRNEATTSD--SDRLKHKHLLPMMLYLRKQLETS------
frog_kiss2      HLRFTRSKFNFNPFGLRFGKRARGDANGEGLAPLVPRRLLPFLLKLKDKRCSESVGESC
                . .   . :* *.****:*:*                                       
Prim.cons.      QREKDLSTYNWNSFGLRYGKR2AARGN32GKAR22V23LLP22L2L2222222SVGESC
Alignment data :
Alignment length : 179
Identity (*) : 9 is 5.03 %
Strongly similar (:) : 4 is 2.23 %
Weakly similar (.) : 11 is 6.15 %
Different : 155 is 86.59 %
Sequence 0001 : mouse_kiss1 ( 126 residues).
Sequence 0002 : opposum_kiss1 ( 149 residues).
Sequence 0003 : human_kiss1 ( 138 residues).
Sequence 0004 : frog_kiss1 ( 129 residues).
Sequence 0005 : zfish_kiss1 ( 116 residues).
Sequence 0006 : zfish_kiss2 ( 125 residues).
Sequence 0007 : frog_kiss2 ( 143 residues).
CLUSTALW options used :
endgaps=1
gapdist=8
gapext=0.2
gapopen=10.0
hgapresidues=GPSNDQERK
matrix=gonnet
maxdiv=30
outorder=aligned
pwgapext=0.1
pwgapopen=10.0
pwmatrix=gonnet
type=PROTEIN
Result files (text) :
CLUSTALW
Garnier parameters

Auto calculated
Decision constants HelixSheetTurnCoil
Return


PREDATOR parameters

Secondary structure data
Return


SOPM parameters

Number of conformational states
Similarity threshold : Window width :
Return

SOPMA parameters

Number of conformational states
Similarity threshold : Window width :
Return

User : public@132.77.90.223. Last modification time : Wed May 25 09:47:50 2022. Current time : Wed May 25 09:47:50 2022