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Structure ID
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Cn3D

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<A HREF="http://biochem.wustl.edu/~protease/pdb/xmc_4cha.pdb"></A>
4CHA view in Chime 2.03 (MDL)
Top menu Script Manual1 Manual2 Tutorial FAQ PDB
Display
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CPK , stick , ball&stick
Cartoon , ribbon , backbone
all protein in cartoon, other in CPK
SS bonds on, SS bonds off
H bonds on, H bonds off
Color
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all protein in gray, other in orange
water in cyan
hydrophobe(A,I,L,M,V)
aromatic(F,Y,W)
neutral(C,G,N,P,Q,S,T)
acidic (D,E)
basic (K,R)
histidine
AILMV,FYW,CGNPQST,DE,KR,H
Surface
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surface on surface off
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default charge(red -0.5, white 0, blue +0.5)
Gasteiger, Kollman , Charmm
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Hydrophobicity, Gaillard's scale by default
Audry, Fauchere, Hartshorn
User's script
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Amino-acid selection

A

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D

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F

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H

I

K

L

M

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P

Q

R

S

T

V

W

Y
Color









Amino acid subsets grouped by qualitative properties (cf function menu)
46: polar CDEHKNQRST
47: polar extended CDEHKNQRSTY
48: hydrophobic ALVIMFWY
49: hydrophobic extended ACFGHIKLMRTVWY
50: cis-conformation P (potential, not calc.)
51: side chain: H-donnor CHKNQRSTWY
52: side chain: H-acceptor CDEHNQSTY
53: phenol-alcohol-thiol CSTY
54: phenol-alcohol STY
55: alcohol ST
56: methyl terminal AILMTV
57: thiol-thioether CM
 58: aromatic strict FWY
59: aromatic extended FHRWY
60: charged KREDH
61: positive KRH
62: negative ED
--: huge W
--: very big FWY
--: big FRWY
--: medium EHIKLMQ
63: small ACDGNPSTV
64: very small ACSGP
65: tiny AG
66: turn-like ACDEGHKNQRST
Amino-acid display
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Thierry Rose, PhD and Enrico Di Cera, MD
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Saint Louis, MO, U.S.A.
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