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Introduction To Xenobots

1. The document describes steps to generate a multiple sequence alignment of proteins using ClustalW, which includes picking protein sequences from a database, copying them in FASTA format, uploading the files to ClustalW, downloading the alignment results and phylogenetic tree, and copying the results to a word file. 2. The document provides an example multiple sequence alignment of 4 keratin protein sequences from different organisms. 3. The document provides another example multiple sequence alignment of 3 myoglobin protein sequences from different animal species.

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RONAK LASHKARI
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78 views7 pages

Introduction To Xenobots

1. The document describes steps to generate a multiple sequence alignment of proteins using ClustalW, which includes picking protein sequences from a database, copying them in FASTA format, uploading the files to ClustalW, downloading the alignment results and phylogenetic tree, and copying the results to a word file. 2. The document provides an example multiple sequence alignment of 4 keratin protein sequences from different organisms. 3. The document provides another example multiple sequence alignment of 3 myoglobin protein sequences from different animal species.

Uploaded by

RONAK LASHKARI
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
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NAME:- PARMAR JANHVI RANJITBHAI

IAR NO:- 12690


SUBJECT:- BIOINFORMATICS ASSIGNMENT
MSC BIOTECHNOLOGY

Steps to generate multiple sequence alignment of protein


using ciustal W
1. pick different protein sequence from protein database
2. copy protein sequence in fasta format
3. paste all sequence in notepad
4. upload all file in culstel W
5. do multiple sequence aligment
6. download result of multiple sequence aligment
7. generate phylogenetic tree
8. download phylogenetic tree
9. copy all result in word file
1.keratin [Pseudomonas mendocina]
GenBank: ARS51075.1
Identical Proteins FASTA Graphics
LOCUS ARS51075 200 aa linear
DEFINITION keratin [Pseudomonas mendocina].
ACCESSION ARS51075
VERSION ARS51075.1

CLUSTAL 2.1 multiple sequence alignment

ARS51075.1 ------------MPAPLLTRCTLLLGLLLP--------LSGAAAELYRYVDDKGVTVLSR
KKJ97415.1 ---------------------MLLLGVICP--------VLASAAELYRYVDDRGVVVLDR
KMN03504.1 ------------MVGQDVMRCLMALGLVLQGLSFGAQAAPGGAVELYRYVNDKGVVVLDR
KPL63462.1 MPFWRAQKQCPSGALQRLVRGSGALMLWLSVASTIVQAADVPEVRLYRYIDSRGVTVIDR
* : ..****::.:**.*:.*

ARS51075.1 QGVPPEFIGKGYEVLNDQGRVLRVIPPAPTPEEFARMQADKARASNDAQLLRLYTNLDDV
KKJ97415.1 HGVPPQHISRGYQVLNEQGRVVREVPPAPTAEEFARLQAQKARAASDAQLLRLYASVEDV
KMN03504.1 QGVPPQYIGKGYQVLNDQGRVIRTVPPAPTAEELRQRKAAQAQASSDAQLLRLYSSLEDV
KPL63462.1 LGVPAEYVAKGYEVLNARGRVVQVIPPAPTAEQIRQTEAAKLQAEANAKLLSLYGSVEEV
***.:.:.:**:*** :***:: :*****.*:: : :* : :* :*:** ** .:::*

ARS51075.1 DRARERKLAELDGVTSVARGNLQSVRTQQANLQSQAAEHERAGRQVPEHLLAQINNLKEE
KKJ97415.1 ERAETRKLSELDSVMGLARGNLQSIRNQHASLRKQAANHERAGRKVPGNLLAQIENLEKE
KMN03504.1 DRARERRLAELDGLSSVARGNLQSLKLQQANLQGQAANQERAGRPVAQALVDQLDDLKQE
KPL63462.1 DRVKTRKLAELDTLIDVAQGNIQGLANQQRSLQGQAADQERAGRPVPQAIIEQLDDLRSQ
:*.. *:*:*** : .:*:**:*.: *: .*: ***::***** *. :: *:::*..:

ARS51075.1 QQRLMRDIARYREARTQAEADFAADRARLAELFGEPQAKP
KKJ97415.1 EQSLQRDLKRFEKARADAEVSFASDRQRIAELLGQKQ---
KMN03504.1 EKRLQGEIGRFQKAREDAERTYAADRARLSQLLGVSP---
KPL63462.1 QQKLQADIAGYQAARTRAEADFAADRVRVQQLTR------
:: * :: :. ** ** :*:** *: :*

Pseudomonas mendocina: ARS51075.1

Stutzerimonas stutzeri KKJ97415.1

Pseudomonas viridiflava KPL63462.1

Pseudomonas aeruginosa KMN03504.1


Pseudomonas mendocina

Stutzerimonas stutzeri

Pseudomonas
aeruginosa

Pseudomonas viridiflava

2.insulin – elephant
DEFINITION insulin - elephant.
ACCESSION INEL
VERSION INEL

CLUSTAL 2.1 multiple sequence alignment

pir||INEL ----------------------------------------------FVNQHLCGSHLVEA
pir||INMKSQ ----------------------------------------------FVNQHLCGPHLVEA
XP_011213888.1 MMFPKHTVNFPNLLCLSLVVISFVFCVELSPHCTEALPLLPGGSNDVEFKRYCSTNLSDA
GFR87518.1 --MQTPWTCFVKCCVVLATTALLILSLQTKGSEAGLMHICDFNQRRPHPNGICGRRLPLV
: *. .* .

pir||INEL LYLVCG--------------------------------------ERGFFYTPKTG-----
pir||INMKSQ LYLVCG--------------------------------------ERGFFYAPKTG-----
XP_011213888.1 IRLICGGRYYSLS-----------RKFPDSVGMGHVSSLKRLAGEEGEYRQPFQG-----
GFR87518.1 LAGLCHRFTMLMRNSGSAKTTRKRSAAASASDMELSNDLLQDKEDQMQLLAPIIKDMTPG
: :* :. *

pir||INEL ----------------------------------IVEQCCTGVCSLYQLENYCN-----
pir||INMKSQ ----------------------------------VVDQCCTSICSLYQLQNYCN-----
XP_011213888.1 ----------------------------------AIHECCRRPCGYPELKSYCEPDY--
GFR87518.1 DEAATGPTKDQLESIFLDKKSALGYLAKRDDSGDIVCECCYHQCSVLELLQYCELPANL
: :** *. :* .**:

Bactrocera dorsalis : XP_011213888.1


Elysia marginata : GFR87518.1
common squirrel monkey : INMKSQ

Bactrocera dorsalis

Elysia marginata

common squirrel monkey

elephant
3.Myoglobin [Camelus dromedarius]
LOCUS KAB1270346
DEFINITION Myoglobin [Camelus dromedarius].
ACCESSION KAB1270346
VERSION KAB1270346.1

CLUSTAL 2.1 multiple sequence alignment

KAB1270346.1 MGLSDGEWQLVLNVWGKVEADVAGHGQEVLIRSHVWGECPVLPALLSGVRALSESHQKRL
ALJ77201.1 ------------------------------------------------------------
ALJ77193.1 ------------------------------------------------------------
ALJ77194.1 ------------------------------------------------------------

KAB1270346.1 RKDSRDDDGDDGDGDNDNDDGDGDDDDGDDDGDNDNDDDDGDGDDDGDGDDDRDDSDGGG
ALJ77201.1 ------------------------------------------------------------
ALJ77193.1 ------------------------------------------------------------
ALJ77194.1 ------------------------------------------------------------

KAB1270346.1 GDHADDDNGNDDGDDDGHPETLEKFDKFKHLKTADEMKASEDLKKHGNTVLTALGGILKK
ALJ77201.1 ------------------------------------------------------------
ALJ77193.1 ------------------------------------------------------------
ALJ77194.1 ------------------------------------------------------------

KAB1270346.1 KGHHEAELKPLAQSHATKHKIPVKYLEFISDAIIHVLQSKHPGDFGADAQAAMNKALELF
ALJ77201.1 ----------------------VKYLEFIS------------------------------
ALJ77193.1 ----------------------VKYLEFIS------------------------------
ALJ77194.1 ----------------------VKYLEFIS------------------------------
********

KAB1270346.1 RNDMAAKYKELGFQG
ALJ77201.1 ---------------
ALJ77193.1 ---------------
ALJ77194.1 ---------------

Melozone leucotis nigrior: ALJ77201.1


Melozone kieneri : ALJ77194.1
Melozone fusca : ALJ77193.
Melozone kieneri

Camelus dromedarius

Melozone fusca

Melozone leucotis nigrior

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