Contacts of the helix formed by residues 158 - 181 (chain A) in PDB entry 5FSJ
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLN 158 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ILE* 2.9 19.1 + - + +
157A TYR* 1.3 75.9 - - - +
159A ASN* 1.3 92.6 + - - +
160A GLU 3.5 0.2 + - - -
161A SER* 3.2 10.4 + - - -
162A GLY* 3.0 12.3 + - - -
227A ASN* 3.3 28.9 - - + +
230A VAL* 3.9 1.3 - - - -
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Residues in contact with ASN 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A GLN* 1.3 96.7 + - - +
160A GLU* 1.3 61.1 + - + +
162A GLY 3.7 0.2 - - - -
163A ALA* 2.9 27.5 + - - +
223A GLY 5.0 1.0 - - - +
227A ASN 3.0 12.0 + - - +
228A GLY* 3.5 29.9 - - - +
230A VAL* 4.0 2.6 - - - +
233A ASN* 5.7 2.7 - - - +
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Residues in contact with GLU 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A ASN* 1.3 77.4 - - + +
161A SER* 1.3 67.6 + - - +
163A ALA* 3.1 2.6 + - - -
164A ILE* 2.9 26.1 + - - +
217A TYR* 2.6 38.9 + - - -
220A ARG* 4.5 5.6 + - - -
233A ASN* 5.9 5.2 - - - +
279A SER 4.2 1.6 - - - -
280A ASN* 3.3 20.7 - - + +
281A PHE* 2.9 48.4 + - + +
282A SER 4.6 0.3 + - - -
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Residues in contact with SER 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A LEU* 3.5 10.8 - - - +
156A ILE* 2.8 31.4 + - - +
158A GLN 3.2 7.1 + - - -
160A GLU* 1.3 78.1 - - - +
162A GLY* 1.3 57.5 + - - +
164A ILE* 3.3 5.5 + - - +
165A ASN* 2.9 26.0 + - - +
277A PRO 3.5 20.4 - - - -
278A THR* 4.3 5.0 - - - -
279A SER 3.2 23.3 + - - -
280A ASN* 4.8 0.2 - - - +
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Residues in contact with GLY 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ILE 2.9 17.5 + - - -
157A TYR* 3.9 6.8 - - - -
158A GLN 3.0 20.6 + - - -
159A ASN 3.7 1.6 - - - -
161A SER* 1.3 75.2 - - - +
163A ALA* 1.3 58.9 + - - +
165A ASN* 3.3 6.0 + - - +
166A GLU* 2.9 28.4 + - - +
230A VAL* 3.6 13.7 - - - +
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Residues in contact with ALA 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A ASN 2.9 12.7 + - - +
160A GLU* 3.1 7.2 + - - +
162A GLY* 1.3 74.3 - - - +
164A ILE* 1.3 59.9 + - - +
166A GLU 3.4 0.3 + - - -
167A ALA* 2.9 28.9 + - - +
229A GLY 5.2 0.2 - - - -
230A VAL* 3.5 15.5 - - - +
233A ASN* 3.8 10.5 - - + -
234A SER* 3.6 25.8 - - - +
237A ILE* 5.3 0.4 - - - -
281A PHE* 3.8 20.6 - - + -
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Residues in contact with ILE 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A LEU* 3.7 17.7 - - + -
160A GLU 2.9 15.7 + - - +
161A SER* 3.6 5.6 - - - +
163A ALA* 1.3 74.1 - - - +
165A ASN* 1.3 65.9 + - - +
167A ALA* 3.1 5.7 + - - +
168A ILE* 2.8 33.6 + - + +
237A ILE* 4.6 2.9 - - + -
275A LEU* 4.2 10.5 - - + -
279A SER* 3.5 31.9 - - - +
280A ASN 3.5 25.1 - - - +
281A PHE* 3.7 15.0 - - + -
284A LEU* 4.0 30.1 - - + -
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Residues in contact with ASN 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A HIS* 2.8 31.7 + - - -
149A THR* 3.6 23.0 + - - +
150A ASP* 4.2 9.9 + - - -
155A LEU* 3.0 34.9 + - + +
157A TYR* 3.9 16.1 - - + +
161A SER 2.9 14.5 + - - +
162A GLY* 3.3 13.7 + - - +
164A ILE* 1.3 77.2 - - - +
166A GLU* 1.3 63.0 + - - +
168A ILE* 3.4 5.4 + - - +
169A SER* 3.2 18.9 + - - -
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Residues in contact with GLU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A HIS* 3.0 15.2 - - - -
146A HIS* 3.0 7.4 + - - -
157A TYR* 2.8 20.4 + - + +
162A GLY 2.9 14.1 + - - +
163A ALA 3.7 1.3 - - - +
164A ILE 3.2 0.2 - - - -
165A ASN* 1.3 78.1 + - - +
167A ALA* 1.3 62.2 + - - +
169A SER* 3.1 5.0 + - - -
170A ASP* 2.9 25.3 + - - +
203A ARG* 3.8 4.9 + - - -
230A VAL* 3.3 32.3 - - + +
231A HIS* 3.1 26.8 - - + -
234A SER* 3.8 7.0 - - - +
1007A ZN 2.0 38.1 - - - -
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Residues in contact with ALA 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A ALA 2.9 17.8 + - - +
164A ILE 3.7 3.8 - - - +
166A GLU* 1.3 76.5 - - - +
168A ILE* 1.3 53.5 + - - +
170A ASP* 3.1 1.0 + - - -
171A ILE* 2.7 42.3 + - + +
234A SER* 3.9 8.2 - - - +
237A ILE* 3.6 35.2 - - + -
238A ASN* 3.4 22.0 - - - +
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Residues in contact with ILE 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A THR* 3.8 11.6 - - + +
149A THR* 3.6 22.4 - - - +
155A LEU* 4.6 1.8 - - + -
164A ILE* 2.8 36.7 + - + +
165A ASN* 3.6 5.6 - - - +
167A ALA* 1.3 71.8 - - + +
169A SER* 1.3 58.0 + - - +
171A ILE* 3.4 3.8 + - + -
172A PHE* 2.9 49.6 + - + +
237A ILE* 6.4 0.7 - - + -
267A PHE* 3.9 33.9 - - + +
270A ALA* 6.4 0.2 - - + -
271A LEU* 3.9 26.9 - - + -
275A LEU* 4.8 8.5 - - + -
284A LEU* 5.5 0.4 - - + -
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Residues in contact with SER 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ALA 4.7 0.2 - - - +
142A HIS* 2.8 59.3 + - - -
145A THR* 3.7 9.6 - - - +
146A HIS* 3.4 29.4 + - - -
149A THR* 5.2 0.5 + - - -
165A ASN 3.2 5.8 + - - -
166A GLU 3.1 4.9 + - - -
168A ILE* 1.3 81.3 - - - +
170A ASP* 1.3 56.2 + - - +
173A GLY* 2.9 22.5 + - - -
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Residues in contact with ASP 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A HIS* 2.8 27.6 + - - -
166A GLU* 2.9 16.6 + - - +
167A ALA 3.1 1.5 + - - +
169A SER* 1.3 72.7 - - - +
171A ILE* 1.3 66.5 + - - +
173A GLY* 3.9 1.0 - - - +
174A THR* 3.0 29.3 + - - -
188A ILE* 3.9 21.4 - - + +
203A ARG* 2.8 36.4 + - - -
205A MET* 3.7 3.5 - - - +
234A SER* 4.4 3.8 + - - -
238A ASN* 3.0 34.9 + - - +
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Residues in contact with ILE 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A ALA* 2.7 38.0 + - + +
168A ILE* 3.7 7.0 - - + +
170A ASP* 1.3 72.4 - - - +
172A PHE* 1.3 72.0 + - + +
174A THR* 3.2 4.9 + - - -
175A LEU* 2.9 47.6 + - + +
186A TRP* 5.9 0.6 - - - -
205A MET* 3.6 24.5 - - + -
237A ILE* 4.5 2.7 - - + -
238A ASN* 4.1 2.2 - - - +
241A ALA* 3.6 21.3 - - + -
263A LEU* 4.3 17.3 - - + -
267A PHE* 3.8 30.1 - - + -
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Residues in contact with PHE 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A TYR* 3.5 33.4 - + + -
84A TYR* 3.3 26.2 - + + +
88A HIS* 3.9 12.3 - + - -
145A THR* 3.6 9.4 - - + +
168A ILE* 2.9 45.4 + - + +
171A ILE* 1.3 76.3 - - + +
173A GLY* 1.3 66.8 + - - +
175A LEU* 4.0 13.0 - - + +
176A VAL* 2.9 31.2 + - - +
264A GLY* 3.9 7.9 - - - -
267A PHE* 4.0 18.4 - - + -
268A TYR* 3.6 35.0 - + + -
271A LEU* 4.6 7.4 - - + -
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Residues in contact with GLY 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ASP* 3.6 24.7 - - - -
141A ALA* 3.7 19.6 - - - +
142A HIS* 3.9 1.0 - - - +
169A SER 2.9 20.9 + - - -
170A ASP* 3.9 1.3 - - - -
171A ILE 3.3 0.2 - - - -
172A PHE* 1.3 77.2 - - - +
174A THR* 1.3 56.0 + - - +
176A VAL* 3.5 2.4 + - - +
177A GLU* 3.0 26.9 + - - +
188A ILE* 5.9 0.2 - - - -
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Residues in contact with THR 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ASP* 4.5 1.7 - - - +
170A ASP 3.0 18.0 + - - -
171A ILE 3.5 4.0 - - - +
173A GLY* 1.3 73.7 - - - +
175A LEU* 1.3 61.1 + - + +
177A GLU* 3.1 8.6 + - - +
178A PHE* 2.9 36.7 + - + -
185A ASP 3.4 24.8 + - - +
186A TRP* 3.8 30.6 - - + -
187A GLU 4.3 2.9 + - - -
188A ILE* 3.4 13.3 - - - +
205A MET* 3.4 14.3 - - - -
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Residues in contact with LEU 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A TYR* 3.7 25.0 - - + +
171A ILE* 2.9 31.7 + - + +
172A PHE* 3.3 14.6 + - + +
174A THR* 1.3 77.3 - - + +
176A VAL* 1.3 57.2 + - - +
178A PHE* 3.3 5.4 + - + +
179A TYR* 2.9 27.7 + - - +
186A TRP* 4.7 5.8 - - + -
260A ARG* 3.8 43.1 - - + +
263A LEU* 4.5 10.5 - - + -
264A GLY* 3.6 33.4 - - - +
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Residues in contact with VAL 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A VAL* 4.1 12.8 - - + +
80A THR* 3.8 26.9 - - + +
83A TYR* 3.6 32.5 - - + -
84A TYR* 5.0 2.9 - - + -
137A ILE* 4.0 18.4 - - + -
141A ALA* 3.6 21.3 - - + -
172A PHE 2.9 22.7 + - - +
175A LEU* 1.3 73.2 - - - +
177A GLU* 1.3 65.0 + - - +
179A TYR* 3.1 7.2 + - + +
180A ALA* 2.9 22.7 + - - +
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Residues in contact with GLU 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ILE* 3.8 24.7 - - + +
138A ASP* 3.0 21.2 + - + +
173A GLY 3.0 14.2 + - - +
174A THR* 3.1 10.7 + - - +
176A VAL* 1.3 77.9 - - - +
178A PHE* 1.3 56.2 + - - +
180A ALA* 3.4 3.1 + - - +
181A ASN* 3.0 23.2 + - - -
182A LYS 4.2 8.7 + - - +
184A PRO* 3.4 12.5 - - + +
185A ASP 3.0 19.8 + - - +
190A GLU* 3.3 2.3 - - - +
191A ASP* 5.1 2.3 - - - +
1004A CA 2.6 26.3 - - - -
1009A CA 2.5 26.8 - - - -
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Residues in contact with PHE 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A THR* 2.9 32.2 + - + -
175A LEU* 3.7 8.1 - - + +
176A VAL 3.2 0.2 - - - -
177A GLU* 1.3 73.9 - - - +
179A TYR* 1.3 66.8 + - - +
181A ASN* 3.1 22.4 + - - +
184A PRO* 3.5 27.1 - - + -
185A ASP* 3.4 33.4 - - - -
186A TRP* 3.6 32.5 - + - -
260A ARG* 3.3 52.5 - - - +
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Residues in contact with TYR 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A VAL* 4.1 19.5 - - + -
82A ASP* 3.8 7.2 + - + +
83A TYR* 3.8 47.1 - + + -
86A ASN* 2.9 32.1 + - + +
87A VAL* 4.0 19.5 - - + -
175A LEU 2.9 15.6 + - - +
176A VAL 3.1 7.6 + - - +
178A PHE* 1.3 77.8 - - - +
180A ALA* 1.3 63.2 + - - +
181A ASN* 4.1 3.5 - - - +
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Residues in contact with ALA 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A TYR* 6.1 0.4 - - + -
79A VAL* 4.1 11.7 - - + -
137A ILE* 3.5 32.5 - - + -
176A VAL 2.9 7.6 + - - +
177A GLU 3.9 3.6 - - - +
179A TYR* 1.3 79.9 - - - +
181A ASN* 1.3 68.0 + - - +
182A LYS* 3.3 11.2 + - + +
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Residues in contact with ASN 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A GLU 3.0 10.8 + - - -
178A PHE* 3.1 17.1 + - - +
179A TYR 4.1 3.8 - - - +
180A ALA* 1.3 79.6 - - - +
182A LYS* 1.3 58.4 + - - +
183A ASN 4.4 0.2 + - - -
184A PRO* 3.7 21.4 - - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il