Contacts of the helix formed by residues 147 - 169 (chain C) in PDB entry 5GQQ
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 ALA 147 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54C ASN* 4.3 14.1 - - + +
56C THR* 5.0 1.3 - - + -
99C PHE* 3.8 3.1 - - - -
108C GLY 4.6 0.9 - - - +
109C MET* 3.7 26.5 - - + +
139C ASP* 5.3 0.2 + - - -
141C GLN* 4.4 18.5 - - + +
145C GLN 4.1 1.2 + - - -
146C ILE* 1.3 76.6 - - - +
148C PHE* 1.3 61.2 + - - +
149C ASP* 3.4 16.4 - - - +
150C ASP* 3.3 8.9 + - - +
151C PHE* 2.9 26.3 + - - +
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Residues in contact with PHE 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A PRO* 3.9 22.2 - - + -
53C SER 4.2 9.0 - - - -
54C ASN* 4.5 13.4 + - - +
60C PHE* 3.9 19.7 - + - -
92C ILE* 3.6 17.7 - - + -
95C TRP* 3.6 8.1 - + + -
96C GLN* 3.4 40.4 - - + -
99C PHE* 3.5 41.6 - + + -
108C GLY 4.9 0.8 + - - +
147C ALA* 1.3 73.5 - - - +
149C ASP* 1.3 63.3 + - - +
151C PHE* 3.2 4.0 + + - +
152C ILE* 3.2 47.4 + - + +
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Residues in contact with ASP 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ASN* 2.9 26.6 + - - +
60C PHE* 3.4 38.7 - - + -
61C ASN* 2.7 18.2 + - + +
64C THR* 3.1 19.5 + - - +
140C ARG* 2.7 30.0 + - - -
141C GLN* 5.3 0.3 + - - -
147C ALA* 3.6 12.1 - - - +
148C PHE* 1.3 77.3 - - - +
150C ASP* 1.3 70.5 + - - +
152C ILE* 3.4 4.6 + - - +
153C GLN 3.3 9.7 + - - -
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Residues in contact with ASP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C ASN* 2.9 14.2 + - - +
138C PHE* 3.1 30.7 - - + +
139C ASP* 3.9 1.4 - - - -
140C ARG* 2.8 52.1 + - - +
141C GLN* 4.6 4.5 + - - +
146C ILE* 3.8 16.3 - - + +
147C ALA* 3.3 10.6 + - - +
149C ASP* 1.3 86.3 + - - +
151C PHE* 1.3 59.8 + - - +
153C GLN* 3.4 6.8 + - - +
154C GLY* 2.9 27.5 + - - -
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Residues in contact with PHE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C TRP* 3.6 30.7 - + - -
98C VAL* 4.0 16.6 - - + -
99C PHE* 3.7 29.8 - + + -
102C TYR* 5.5 0.4 - + - -
110C ILE* 3.7 25.1 - - + -
115C LEU* 4.0 24.5 - - + -
118C ALA* 4.2 17.9 - - + -
119C LEU* 5.2 0.7 - - + -
122C PHE* 4.6 2.5 - + - -
138C PHE* 6.3 0.2 - - - -
146C ILE* 3.5 14.5 - - + +
147C ALA 2.9 18.8 + - - +
148C PHE* 3.2 6.7 + + - +
150C ASP* 1.3 76.5 - - - +
152C ILE* 1.3 63.4 + - + +
154C GLY* 4.0 0.8 - - - -
155C CYS* 3.1 49.0 + - - -
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Residues in contact with ILE 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C PHE* 4.4 13.0 - - + -
64C THR* 3.9 15.5 - - + -
68C ILE* 5.0 7.9 - - + -
91C TYR* 4.6 4.5 - - + +
92C ILE* 5.6 3.4 - - + -
95C TRP* 3.8 43.2 - - + +
148C PHE* 3.2 48.2 + - + +
149C ASP 3.7 5.6 - - - +
150C ASP 3.3 0.2 - - - -
151C PHE* 1.3 76.6 - - + +
153C GLN* 1.3 64.9 + - - +
155C CYS* 3.4 4.1 + - - +
156C ILE* 2.9 43.9 + - + +
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Residues in contact with GLN 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C ASN* 4.4 10.5 - - - +
63C VAL* 3.7 27.7 - - + +
64C THR* 3.4 35.6 + - - +
67C SER* 3.5 16.8 + - - -
138C PHE* 4.8 6.3 - - + -
149C ASP 3.3 4.9 + - - +
150C ASP* 3.4 7.6 + - - +
152C ILE* 1.3 76.4 - - - +
154C GLY* 1.3 65.6 + - - +
156C ILE* 3.2 10.9 + - - +
157C VAL* 3.0 54.3 + - + +
160C ARG* 5.9 0.6 - - - +
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Residues in contact with GLY 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138C PHE* 3.5 42.8 - - - -
150C ASP 2.9 13.5 + - - -
151C PHE* 4.0 1.1 - - - -
153C GLN* 1.3 77.3 - - - +
155C CYS* 1.3 56.5 + - - +
157C VAL* 3.2 2.1 + - - +
158C LEU* 2.9 31.9 + - - +
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Residues in contact with CYS 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C TRP* 3.4 25.8 - - + -
115C LEU* 5.8 0.2 - - - -
119C LEU* 4.4 11.9 - - - -
122C PHE* 3.7 27.8 - - + -
124C TYR* 4.5 2.5 + - + -
151C PHE* 3.1 44.3 + - - +
152C ILE 3.9 0.7 - - - +
154C GLY* 1.3 73.5 - - - +
156C ILE* 1.3 62.7 + - - +
158C LEU* 3.4 8.6 + - - +
159C GLN* 3.0 26.0 + - - +
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Residues in contact with ILE 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C THR* 5.9 0.2 - - + -
67C SER* 4.7 12.1 - - - +
68C ILE* 5.6 1.8 - - + -
71C MET* 3.8 15.7 - - + -
91C TYR* 3.3 27.8 - - + +
95C TRP* 4.7 7.6 - - + -
152C ILE* 2.9 34.9 + - + +
153C GLN* 3.7 12.8 - - - +
155C CYS* 1.3 77.0 - - - +
157C VAL* 1.3 66.3 + - + +
159C GLN* 3.4 6.2 + - - +
160C ARG* 3.1 59.8 + - - +
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Residues in contact with VAL 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C PHE* 4.8 4.5 - - + -
153C GLN* 3.0 44.6 + - + +
154C GLY 3.8 3.1 - - - +
156C ILE* 1.3 79.5 - - + +
158C LEU* 1.3 61.4 + - - +
160C ARG* 3.3 6.4 + - - +
161C LEU* 2.9 36.7 + - + +
190C ILE* 4.4 16.6 - - + -
191C VAL* 5.8 4.7 - - + +
187D VAL 4.9 1.6 - - - +
188D PHE* 3.4 29.4 - - + -
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Residues in contact with LEU 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C LEU* 4.3 23.1 - - + -
124C TYR* 3.5 36.1 - - + +
126C LEU* 4.4 5.2 - - + -
130C PHE* 5.1 1.6 - - + -
134C LEU* 4.4 16.8 - - + -
154C GLY 2.9 17.5 + - - +
155C CYS* 3.7 7.6 - - - +
157C VAL* 1.3 76.1 - - - +
159C GLN* 1.3 54.5 + - - +
161C LEU* 4.0 2.5 - - - +
162C THR* 2.6 50.1 + - - +
180D TYR* 3.6 10.3 - - - +
184D LEU* 3.7 23.3 - - + -
188D PHE* 4.6 9.6 - - + -
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Residues in contact with GLN 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124C TYR* 3.3 16.4 + - - +
155C CYS 3.0 18.1 + - - +
156C ILE* 3.6 6.3 - - - +
157C VAL 3.2 0.2 - - - -
158C LEU* 1.3 74.1 - - - +
160C ARG* 1.3 73.4 + - - +
162C THR* 3.8 2.2 - - - -
163C ASP* 2.7 71.9 + - - +
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Residues in contact with ARG 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C SER* 4.8 12.7 + - - +
70C SER* 5.9 1.2 + - - -
71C MET* 3.7 30.5 - - - +
153C GLN* 5.9 1.0 - - - +
156C ILE* 3.1 38.0 + - - +
157C VAL* 3.9 3.8 - - - +
159C GLN* 1.3 86.1 + - - +
161C LEU* 1.3 66.4 + - - +
163C ASP* 3.4 5.1 + - - +
164C ILE* 3.1 31.6 + - + +
190C ILE* 4.0 34.5 - - + +
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Residues in contact with LEU 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157C VAL* 2.9 38.1 + - + +
158C LEU 4.0 0.9 - - - +
160C ARG* 1.3 77.1 - - - +
162C THR* 1.3 58.1 + - - +
164C ILE* 3.5 3.4 + - + -
165C PHE 2.9 17.3 + - - -
187C VAL* 4.2 23.1 - - + -
190C ILE* 4.4 16.8 - - + -
183D TYR* 2.9 41.2 + - + +
184D LEU* 3.8 25.8 - - + -
187D VAL* 3.8 28.3 - - + +
188D PHE* 4.0 9.4 - - + -
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Residues in contact with THR 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124C TYR* 3.6 9.9 - - + -
158C LEU* 2.6 27.8 + - - +
159C GLN* 3.8 4.3 - - - -
161C LEU* 1.3 75.2 - - - +
163C ASP* 1.3 67.0 + - - +
165C PHE* 3.3 2.1 + - - +
166C ARG* 3.0 59.3 + - + +
180D TYR* 2.4 48.4 + - + +
184D LEU* 4.6 0.3 - - - +
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Residues in contact with ASP 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159C GLN* 2.7 49.1 + - - +
160C ARG* 3.7 6.7 - - - +
161C LEU 3.4 0.2 - - - -
162C THR* 1.3 79.9 - - - +
164C ILE* 1.3 63.3 + - + +
166C ARG* 3.3 25.0 + - - +
167C ARG* 3.4 29.3 + - - +
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Residues in contact with ILE 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160C ARG 3.1 18.9 + - - +
161C LEU* 3.7 7.4 - - + +
163C ASP* 1.3 77.4 - - + +
165C PHE* 1.3 62.7 + - - +
167C ARG* 3.1 35.1 + - - +
168C TYR* 3.4 19.6 + - + -
186C MET* 3.4 50.9 - - + +
188C PHE 5.7 0.4 - - - +
190C ILE* 3.6 31.4 - - + -
183D TYR* 3.8 6.1 - - - +
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Residues in contact with PHE 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C LEU 2.9 18.1 + - - +
162C THR* 3.6 7.4 - - - +
164C ILE* 1.3 77.2 - - - +
166C ARG* 1.3 64.3 + - + +
167C ARG 3.2 0.2 + - - -
168C TYR* 3.3 7.0 + - - +
169C ASP* 3.0 41.4 + - - +
174C GLY* 3.8 16.2 - - - -
175C TRP 4.0 0.4 - - - -
176C ILE* 3.6 39.6 - - + +
186C MET* 5.3 1.8 - - - -
179D SER 4.1 3.1 - - - -
180D TYR* 3.6 50.3 - + + -
183D TYR* 3.3 36.3 - + + -
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Residues in contact with ARG 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123C GLY 5.2 8.1 + - - -
124C TYR* 5.3 7.3 - - - -
162C THR* 3.0 44.2 + - + +
163C ASP* 3.7 15.3 + - - +
164C ILE 3.3 0.2 - - - -
165C PHE* 1.3 82.3 - - + +
167C ARG* 1.3 61.7 + - + +
169C ASP* 3.3 20.6 - - - +
172C GLN* 3.9 21.0 + - + +
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Residues in contact with ARG 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C ASP* 3.7 20.5 + - - +
164C ILE* 3.1 34.1 + - - +
166C ARG* 1.3 77.3 - - + +
168C TYR* 1.3 72.0 + - + +
169C ASP 3.1 6.8 + - - -
170C THR* 3.9 12.8 + - - +
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Residues in contact with TYR 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C ILE* 3.6 18.2 - - + +
165C PHE 3.3 7.0 + - - +
167C ARG* 1.3 84.9 - - + +
169C ASP* 1.3 57.7 + - - +
170C THR* 3.2 13.6 + - - +
176C ILE* 3.8 21.4 - - + +
177C GLN 5.5 1.0 + - - -
178C VAL* 3.8 22.9 - - + -
182C GLN* 3.8 27.4 + - + +
185C SER* 3.5 21.8 + - - -
186C MET* 3.9 32.5 - - + +
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Residues in contact with ASP 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C PHE* 3.0 23.8 + - + +
166C ARG* 3.3 16.0 - - - +
167C ARG 3.1 2.4 - - - -
168C TYR* 1.3 73.6 - - - +
170C THR* 1.3 53.9 + - - +
171C ASP* 2.8 18.6 + - - +
172C GLN* 3.3 16.0 + - - +
173C ASP* 2.7 18.5 + - - +
174C GLY* 2.7 28.8 + - - -
175C TRP 2.9 10.1 - - - +
176C ILE* 3.8 8.0 - - + +
203C CA 2.6 30.6 - - - -
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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) + - + + + + + -
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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