A protein interface
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A Protein Interface. Protein Folding. Protein. tRNA. Ribozome. mRNA. http://www.wehi.edu.au/education/wehi-tv/dna/Translation.mov. acetylcholine esterase. Binding Site (Negative). Acetylcholine (positive). http://www.scripps.edu/mb/goodsell/interface/interface_images.

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A Protein Interface

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A protein interface

A Protein Interface


Protein folding

Protein Folding

Protein

tRNA

Ribozome

mRNA

http://www.wehi.edu.au/education/wehi-tv/dna/Translation.mov


Acetylcholine esterase

acetylcholine esterase

Binding Site

(Negative)

Acetylcholine

(positive)

http://www.scripps.edu/mb/goodsell/interface/interface_images


Amino acid sequence of the enzyme acetylcholine esterase

Amino Acid Sequence ofthe enzyme:acetylcholine esterase

1 mfvnqrtrrp ymsvfvlvlg aavicpaygi idrlvvqtss gpirgrstmv qgrevhvfng

61 vpfakppvds lrfkkpvpae pwhgvldatr lppsciqery eyfpgfagee mwnpntnvse

121 dclylniwvp tktrlrhgrg lnfgsndyfq ddddfqrqhq skgglamlvw iygggfmsgt

181 stldiynaei laavgnviva smqyrvgafg flylapying yeedapgnmg mwdqalairw

241 lkenakafgg dpdlitlfge saggssvslh llspvtrgls krgilqsgtl napwshmtae

301 kalqiaegli ddcncnltml kespstvmqc mrnvdaktis vqqwnsysgi lgfpsaptid

361 gvfmtadpmt mlreanlegi dilvgsnrde gtyfllydfi dyfekdaats lprdkfleim

421 ntifnkasep ereaiifqyt gwesgndgyq nqhqvgravg dhfficptne falglterga

481 svhyyyfthr tstslwgewm gvlhgdevey ifgqpmnasl qyrqrerdls rrmvlsvsef

541 artgnpaleg ehwplytren piffifnaeg eddlrgekyg rgpmatscaf wndflprlra

601 wsvpskspcn lleqmsiasv sstmpivvmv vlvliplcaw wwaikknktp phpqviletr

661 afmh

GenBank Sequence


The amino acids

The Amino Acids

David L. Nelson and Michael M. Cox, Lehninger Principles of Biochemistry, 3rd edition, 2000, Worth Publishers, ISBN 1-57259-153-6


Proteins fold by twisting peptide backbone

Proteins Fold by Twisting Peptide Backbone

http://www.itb.uni-stuttgart.de/training/bioinformatics99


Protein secondary structure

Protein Secondary Structure


Tertiary structure 3 dimensional fold

Tertiary Structure (3-Dimensional Fold)

  • Motif

    • Simple combination of secondary structures

    • Appears in different proteins

  • Domain

    • More complex combination of secondary structures

    • Has a specific function


Predicting folding

Predicting Folding

  • Fold predictions are made by minimizing free energy

  • Hydrogen Bonds Decrease Free Energy

  • Some backbone angles are more stable than others


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