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第七章 蛋白质性质和结构分析 (I) PowerPoint PPT Presentation


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生物信息学. 第七章 蛋白质性质和结构分析 (I). Molecular weight: 109801.8 Theoretical pI: 6.12. Membrane protein.

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第七章 蛋白质性质和结构分析 (I)

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I

(I)


I

Molecular weight: 109801.8 Theoretical pI: 6.12

Membrane protein

MAGIFYFILFSFLFGICDAVTGSRVYPANEVTLLDSRSVQGELGWIASPLEGGWEEVSIMDEKNTPIRTYQVCNVMEASQNNWLRTDWITREGAQRVYIEIKFTLRDCNSLPGVMGTCKETFNLYYYESDNDKERFIRESQFGKTDTIAADESFTQVDIGDRIMKLNTEIRDVGPLSKKGFYLAFQDVGACIALVSVRVFYKKCPLTVRNLAQFPDTITGADTSSLVEVRGSCVNNSEEKDVPKMYCGADGEWLVPIGNCLCNAGHEEQNGECQACKIGYYKALSTDASCAKCPPHSYSVWEGATSCTCDRGFFRADNDAASMPCTRPPSAPLNLISNVNETSVNLEWSSPQNTGGRQDISYNVVCKKCGAGDPSKCRPCGSGVHYTPQQNGLKTTRVSITDLLAHTNYTFEIWAVNGVSKYNPSPDQSVSVTVTTNQAAPSSIALVQAKEVTRYSVALAWLEPDRPNGVILEYEVKYYEKDQNERSYRIVRTAARNTDIKGLNPLTSYVFHVRARTAAGYGDFSEPLEVTTNTVPSRIIGDGANSTVLLVSVSGSVVLVVILIAAFVISRRRSKYSKAKQEADEEKHLNQGVRTYVDPFTYEDPNQAVREFAKEIDASCIKIEKVIGVGEFGEVCSGRLKVPGKREICVAIKTLKAGYTDKQRRDFLSEASIMGQFDHPNIIHLEGVVTKCKPVMIITEYMENGSLDAFLRKNDGRFTVIQLVGMLRGIGSGMKYLSDMSYVHRDLAARNILVNSNLVCKVSDFGMSRVLEDDPEAAYTTRGGKIPIRWTAPEAIAYRKFTSASDVWSYGIVMWEVMSYGERPYWDMSNQDVIKAIEEGYRLPPPMDCPIALHQLMLDCWQKERSDRPKFGQIVNMLDKLIRNPNSLKRTGSESSRPNTALLDPSSPEFSAVVSVGDWLQAIKMDRYKDNFTAAGYTTLEAVVHMSQDDLARIGITAITHQNKILSSVQAMRTQMQQMHGRMVPV


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  • domain

  • -helix-sheet


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  • Swiss Institute of Bioinformatics (SIB)

  • 2D PAGE

ExPASy (Expert Protein Analysis System)

http://www.expasy.org

Nucleic Acids Research 2003, 31:3784-8


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  • Technical University of Denmark (1993)

  • Protein sorting

  • Post-translational modifications of proteins

  • Immunological features

  • Protein function and structure

CBS (Center for Biological Sequence Analysis)

http://www.cbs.dtu.dk/services/


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ANTHEPROT

http://antheprot-pbil.ibcp.fr/

DNAMAN

http://www.lynnon.com/


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  • pI

  • molecular weight, Mw

  • hydrophobicity


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1. pIMw

ExPASy , Resources A..Z

ProtParam

ProtParam

pIMw


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2.

ExPASy Resources A..Z

ProtScale

ProtScale


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  • -helix

  • -sheet

  • turn

loop

  • random coil


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Chou-Fasman method


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ANTHEPROTSOPMA

http://npsa-pbil.ibcp.fr/cgi-bin/npsa_automat.pl?page=/NPSA/npsa_sopma.html

SOPMA(FASTA)


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1.

PDB

BLAST

2. molecular modeling


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  • integral (transmembrane)

  • membrane-anchored

  • peripheral


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  • GPI


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1.

SOSUISOSUI

(http://bp.nuap.nagoya-u.ac.jp/sosui/)

SOSUISubmit a protein sequence

12


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  • DAS

    (http://www.sbc.su.se/~miklos/DAS/maindas.html

  • TMpred(http://www.ch.embnet.org/software/TMPRED_form.html

  • HMMTOP:

    (http://www.enzim.hu/hmmtop/html/submit.html)

  • TopPred:

    (http://mobyle.pasteur.fr/cgi-bin/portal.py?#forms::toppred)

  • TMHMM:

    (http://www.cbs.dtu.dk/services/TMHMM/)


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2. GPI

GPI Lipid Anchor Projectbig-PI Predictor

big-PI predictor

  • For Plant Proteins

    http://mendel.imp.ac.at/gpi/plant_server.html

  • For Fungal Proteins

    http://mendel.imp.ac.at/gpi/fungi_server.html


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(II)


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  • 2035


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1.

CBS Prediction ServersProtein sortingSignalP

(http://www.cbs.dtu.dk/services/SignalP/)

SignalP

LipoP

http://www.cbs.dtu.dk/services/LipoP/

ChloroP

http://www.cbs.dtu.dk/services/ChloroP/


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2.

  • O

  • N


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  • 1O

CBS Prediction ServersPost-translational modifications of proteinsNetOGlyc O

NetOGlyc


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  • 2N

CBS Prediction ServersPost-translational modifications of proteinsNetNGlyc N

NetNGlyc


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Gene Ontology


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PSORT (http://psort.hgc.jp/)

WoLF PSORT


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PSORT


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ExPASy Resources A..Z

PeptideCutter

PeptideCutter


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MloZ83834

NanogAY230262

Nanog

Nanog


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6. AF422804

GPIanchor

7. 250


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ProtScale


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