Contacts of the helix formed by residues 210 - 233 (chain B) in PDB entry 5HJS
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 ASP 210 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B LEU* 4.9 5.4 - - + +
121B ASP* 3.0 16.0 + - - +
208B VAL* 4.0 3.8 - - - -
209B GLN* 1.3 80.2 - - + +
211B GLN* 1.3 62.2 + - - +
212B LEU* 3.9 8.5 + - - +
213B GLN* 3.2 33.7 + - + +
214B VAL* 3.1 25.9 + - - +
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Residues in contact with GLN 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A ARG* 4.2 21.4 + - - +
203B ALA* 2.9 41.3 + - + +
204B ASP* 4.5 5.7 - - - +
205B ARG 5.5 1.2 + - - -
208B VAL* 3.9 27.1 + - + +
209B GLN 2.9 11.6 + - - +
210B ASP* 1.3 71.4 - - - +
212B LEU* 1.3 57.0 + - - +
214B VAL* 3.4 0.6 + - - -
215B GLU* 2.9 28.3 + - - +
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Residues in contact with LEU 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A GLU* 5.8 3.6 - - - +
210B ASP* 3.3 7.4 - - - +
211B GLN* 1.3 79.0 - - - +
213B GLN* 1.3 57.3 + - - +
215B GLU* 3.5 14.0 + - - +
216B ARG* 3.0 75.2 + - + +
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Residues in contact with GLN 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B GLY* 5.6 2.0 + - - -
116B GLN* 6.2 2.6 - - - +
117B LEU* 3.9 18.6 - - + -
210B ASP* 3.2 33.5 + - + +
212B LEU* 1.3 74.5 - - - +
214B VAL* 1.3 60.6 + - - +
216B ARG* 3.2 23.6 + - - +
217B LEU* 2.9 55.7 + - + +
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Residues in contact with VAL 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B LEU* 3.9 29.4 - - + -
121B ASP* 5.0 3.6 - - - +
125B LEU* 4.1 12.8 - - + -
201B PHE* 3.5 23.6 - - + +
202B SER 3.7 4.5 - - - +
203B ALA* 3.5 29.2 - - - +
208B VAL* 4.1 13.2 - - + -
210B ASP 3.1 18.2 + - - +
211B GLN 3.9 3.6 - - - +
213B GLN* 1.3 75.0 - - - +
215B GLU* 1.3 56.8 + - - +
217B LEU* 3.4 8.5 + - - +
218B GLN* 2.9 27.0 + - - +
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Residues in contact with GLU 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A GLU* 5.5 2.3 - - - +
242A ARG* 4.3 15.6 + - - -
246A LYS* 4.7 12.6 + - - -
201B PHE 5.0 0.2 - - - -
203B ALA* 4.0 15.3 - - + +
211B GLN 2.9 19.0 + - - +
212B LEU* 3.8 13.7 - - - +
214B VAL* 1.3 75.6 - - - +
216B ARG* 1.3 63.8 + - + +
218B GLN* 3.3 10.8 + - - +
219B HIS* 3.0 52.9 + - + +
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Residues in contact with ARG 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212B LEU* 3.0 56.8 + - + +
213B GLN* 3.2 25.0 + - - +
215B GLU* 1.3 77.1 - - + +
217B LEU* 1.4 62.3 + - - +
219B HIS* 3.5 9.2 + - - +
220B THR* 3.4 24.6 + - - +
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Residues in contact with LEU 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B PRO 4.0 7.6 - - - +
113B GLY* 3.7 35.0 - - - +
117B LEU* 4.3 13.5 - - + -
201B PHE* 3.5 36.1 - - + -
213B GLN* 2.9 42.8 + - - +
214B VAL 3.7 4.0 - - - +
216B ARG* 1.4 73.3 - - - +
218B GLN* 1.4 65.7 + - - +
220B THR* 2.7 31.9 + - + +
221B TYR* 3.0 12.3 - - + -
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Residues in contact with GLN 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245A MET* 3.2 36.9 - - - +
198B ILE* 3.0 36.5 + - + +
201B PHE* 3.1 29.3 + - - +
202B SER* 3.8 13.5 + - - +
203B ALA 5.5 0.9 + - - -
214B VAL 2.9 9.4 + - - +
215B GLU* 3.3 13.4 + - - +
217B LEU* 1.4 75.9 - - - +
219B HIS* 1.3 69.8 + - + +
221B TYR* 3.0 10.1 + - - +
222B VAL* 2.9 30.4 + - + +
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Residues in contact with HIS 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A LEU* 3.6 36.5 - - + +
242A ARG* 3.4 42.8 - - + +
245A MET* 6.3 1.8 - - + +
215B GLU* 3.0 44.6 + - + +
216B ARG* 3.7 10.1 - - - +
217B LEU 3.3 0.2 - - - -
218B GLN* 1.3 87.8 + - - +
220B THR* 1.4 57.9 + - + +
222B VAL* 3.7 7.8 - - + +
223B GLU* 2.9 36.0 + - - +
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Residues in contact with THR 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46B GLN* 5.0 2.1 + - - +
49B MET* 4.7 3.6 - - - +
216B ARG 3.4 16.1 + - - +
217B LEU* 2.7 26.1 + - + +
219B HIS* 1.4 76.5 - - - +
221B TYR* 1.3 69.5 + - - +
223B GLU* 3.6 9.2 + - - +
224B ALA* 3.1 27.9 + - - +
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Residues in contact with TYR 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49B MET* 3.8 33.9 - - + -
53B LEU* 4.2 5.4 - - + -
111B LEU* 3.7 3.7 - - + +
112B PRO* 2.7 47.2 + - + +
194B LEU* 4.2 11.2 - - + +
197B ALA* 3.6 23.3 - - + -
198B ILE* 3.6 21.1 - - + +
201B PHE* 3.3 35.6 - + - -
217B LEU* 3.0 26.5 - - + -
218B GLN* 3.0 6.9 + - - +
220B THR* 1.3 83.0 + - - +
222B VAL* 1.3 58.7 + - - +
224B ALA* 3.4 2.8 + - - +
225B LEU* 2.9 30.0 + - - +
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Residues in contact with VAL 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A LEU* 4.1 6.5 - - + -
241A PRO* 3.6 34.5 - - + -
245A MET* 4.9 7.9 - - + -
198B ILE* 4.0 31.4 - - + -
218B GLN* 2.9 25.7 + - + +
219B HIS* 3.3 15.7 + - + +
221B TYR* 1.3 76.4 - - - +
223B GLU* 1.4 57.4 + - - +
225B LEU* 3.3 1.8 + - - +
226B HIS* 2.9 24.4 + - - +
240B PHE* 3.5 19.4 - - + -
244B LEU* 4.5 7.2 - - + -
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Residues in contact with GLU 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237A ARG* 5.0 12.0 - - - +
238A LEU* 3.8 31.7 + - + +
46B GLN* 3.9 13.5 + - - +
219B HIS 2.9 20.6 + - - +
220B THR* 3.8 10.1 - - - +
222B VAL* 1.4 71.4 - - - +
224B ALA* 1.4 60.5 + - - +
226B HIS* 3.3 8.5 + - - +
227B ALA* 3.0 28.9 + - - +
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Residues in contact with ALA 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42B LEU* 4.0 0.2 - - - +
46B GLN* 3.7 23.5 - - + +
49B MET* 3.6 27.8 - - + -
50B ILE* 3.9 13.5 - - + +
194B LEU* 4.3 5.2 - - + -
220B THR 3.1 15.4 + - - +
221B TYR 3.8 3.4 - - - +
223B GLU* 1.4 74.8 - - - +
225B LEU* 1.4 60.5 + - - +
227B ALA* 3.5 2.0 + - - +
228B TYR* 2.8 31.2 + - - +
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Residues in contact with LEU 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191B GLU* 4.1 15.5 - - + +
194B LEU* 3.7 32.9 - - + +
195B LEU* 4.3 12.8 - - + -
198B ILE* 3.9 20.2 - - + -
221B TYR 2.9 17.9 + - - +
222B VAL 3.6 5.2 - - - +
224B ALA* 1.4 75.2 - - - +
226B HIS* 1.3 56.9 + - - +
228B TYR* 3.2 0.8 + - + +
229B VAL* 2.8 57.6 + - + +
240B PHE* 4.2 14.6 - - + -
243B MET* 4.0 20.0 - - + -
244B LEU* 4.2 12.1 - - + -
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Residues in contact with HIS 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226A HIS* 4.4 24.0 - - - -
237A ARG* 4.8 32.1 + - + +
240A PHE* 5.7 1.1 - + - -
241A PRO* 5.5 0.4 - - - +
222B VAL 2.9 12.9 + - - +
223B GLU* 3.3 11.8 + - - +
225B LEU* 1.3 76.9 - - - +
227B ALA* 1.3 61.2 + - - +
229B VAL* 3.4 1.6 + - - +
230B SER* 2.9 39.1 + - - -
240B PHE* 3.6 50.1 - + + +
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Residues in contact with ALA 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41B GLN* 4.2 8.9 - - - +
42B LEU* 3.8 33.5 + - + +
46B GLN* 3.9 12.8 - - - +
223B GLU 3.0 16.4 + - - +
224B ALA 3.9 0.2 - - - +
226B HIS* 1.3 76.0 - - - +
228B TYR* 1.3 62.9 + - - +
230B SER* 3.4 18.6 + - - -
231B ILE* 3.6 13.9 + - - +
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Residues in contact with TYR 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42B LEU* 3.8 18.5 - - + +
47B LEU* 6.5 0.2 - - + -
50B ILE* 3.8 27.6 - - + -
188B ASN* 2.7 34.5 + - - -
190B ALA* 3.4 22.5 - - + +
191B GLU* 3.6 32.1 - - + -
194B LEU* 4.4 4.0 - - + -
224B ALA 2.8 20.7 + - - +
225B LEU* 3.7 5.8 - - - +
227B ALA* 1.3 75.6 - - - +
229B VAL* 1.3 64.8 + - + +
231B ILE* 3.1 19.2 + - + +
232B HIS* 3.1 18.3 + - + +
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Residues in contact with VAL 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191B GLU* 3.8 7.2 - - + +
225B LEU* 2.8 37.7 + - + +
226B HIS 3.9 3.1 - - - +
228B TYR* 1.3 73.7 - - - +
230B SER* 1.3 54.5 + - - +
232B HIS* 4.4 4.0 - - - +
233B HIS* 2.8 37.5 + - + +
236B ASP 5.2 2.0 - - - +
239B MET* 3.9 16.2 - - + -
240B PHE* 3.7 33.0 - - + +
243B MET* 3.7 32.8 - - + -
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Residues in contact with SER 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226B HIS* 2.9 28.7 + - - -
227B ALA* 3.5 13.6 - - - -
228B TYR 3.2 0.2 - - - -
229B VAL* 1.3 73.9 - - - +
231B ILE* 1.3 58.9 + - - +
233B HIS 4.4 4.7 - - - -
234B PRO* 3.4 25.9 - - - +
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Residues in contact with ILE 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41B GLN* 4.1 15.3 - - - +
42B LEU* 3.7 42.0 - - + +
227B ALA 3.8 8.5 - - - +
228B TYR* 3.1 11.0 + - + +
230B SER* 1.3 79.3 - - - +
232B HIS* 1.3 63.0 + - - +
234B PRO* 3.3 14.2 - - - +
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Residues in contact with HIS 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B GLN 4.5 8.5 - - - -
188B ASN* 3.6 25.3 + - + +
191B GLU* 2.7 41.8 + - - +
228B TYR* 3.1 22.4 + - + +
229B VAL 3.3 1.1 + - - +
231B ILE* 1.3 79.0 - - - +
233B HIS* 1.3 82.6 + + + +
234B PRO* 3.5 5.4 - - - +
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Residues in contact with HIS 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B LEU 5.3 2.0 - - - -
186B GLN* 5.0 4.1 + - + -
191B GLU* 4.0 7.9 + - - -
229B VAL* 2.8 25.3 + - + +
230B SER* 4.3 3.1 - - - +
232B HIS* 1.3 112.7 + + + +
234B PRO* 1.4 64.5 - - - +
235B HIS 3.2 4.4 + - - -
236B ASP* 3.4 24.0 + - + +
239B MET* 3.7 52.5 - - + +
243B MET* 4.4 1.9 - - + +
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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
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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