Contacts of the helix formed by residues 1190 - 1209 (chain A) in PDB entry 2CKJ
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 ALA1190 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A HIS* 3.4 42.2 - - + +
195A LEU* 3.5 25.0 - - + +
577A PRO* 3.9 7.9 - - + +
1188A ASN* 3.1 10.0 + - - +
1189A PRO* 1.4 78.2 - - - +
1191A ILE* 1.3 64.9 + - + +
1192A ASP 3.2 5.9 - - - +
1193A ILE* 4.1 2.1 - - - +
1194A GLY* 3.5 13.3 + - - -
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Residues in contact with ILE1191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A HIS* 5.7 1.8 - - - +
112A GLN* 5.2 4.4 - - + +
578A LEU 4.2 8.3 - - - +
579A PRO* 5.6 0.7 - - + -
580A HIS* 4.8 11.0 - - + +
1041A GLN* 3.7 27.8 - - - +
1042A GLY* 4.4 9.9 - - - +
1045A THR* 4.3 22.4 - - + +
1046A LYS* 3.8 16.6 - - + +
1188A ASN* 3.3 34.6 + - + +
1190A ALA* 1.3 74.3 - - + +
1192A ASP* 1.3 60.1 + - - +
1194A GLY* 3.7 2.4 + - - -
1195A GLN* 3.0 29.0 + - - +
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Residues in contact with ASP1192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1046A LYS* 3.2 23.7 + - - -
1183A VAL* 4.7 12.5 - - + +
1186A SER* 2.2 42.3 + - - +
1187A LEU 3.7 2.6 + - - -
1188A ASN 2.8 21.7 + - - +
1189A PRO* 2.6 14.2 - - + +
1190A ALA 3.2 0.3 - - - +
1191A ILE* 1.3 72.7 - - - +
1193A ILE* 1.3 72.9 + - + +
1194A GLY 3.1 0.5 + - - -
1195A GLN* 3.9 6.7 - - - -
1244A LEU* 4.9 1.8 - - + -
1258A LYS 5.3 2.5 - - - +
1260A VAL* 3.6 25.5 - - + +
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Residues in contact with ILE1193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ARG* 4.3 20.6 - - - +
195A LEU* 4.8 14.1 - - + -
559A GLN* 4.6 14.4 - - + -
560A LEU 5.0 7.0 - - - +
561A PHE* 5.1 7.9 - - + -
1189A PRO 2.9 15.9 - - - +
1190A ALA 4.1 2.7 - - - +
1192A ASP* 1.3 79.9 - - - +
1194A GLY* 1.3 61.0 + - - +
1195A GLN* 2.9 1.2 - - - +
1196A VAL* 3.1 29.6 - - - +
1197A GLU* 2.5 40.5 + - - +
1242A VAL* 4.2 22.9 - - + -
1244A LEU* 4.2 26.4 - - + +
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Residues in contact with GLY1194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A HIS* 6.2 1.3 - - - -
112A GLN* 3.2 28.2 + - - +
150A CYS 4.5 0.2 - - - +
151A THR 5.1 2.4 - - - +
154A ARG* 6.0 0.4 - - - -
155A PRO* 6.5 0.7 - - - -
1190A ALA 3.5 10.2 + - - -
1191A ILE* 3.8 5.2 - - - -
1192A ASP 3.1 3.4 + - - -
1193A ILE* 1.3 82.9 - - - +
1195A GLN* 1.3 63.2 + - - +
1197A GLU* 4.3 7.5 - - - +
1198A GLY* 3.1 17.5 + - - -
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Residues in contact with GLN1195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLN* 4.4 12.3 + - - +
150A CYS 5.6 0.8 + - - -
913A ARG* 3.8 20.6 + - - +
1041A GLN* 3.6 36.0 + - - +
1046A LYS* 5.6 2.0 - - - +
1191A ILE* 3.0 22.3 + - - +
1192A ASP* 3.9 0.2 - - - -
1193A ILE 2.9 6.0 - - - +
1194A GLY* 1.3 80.6 + - - +
1196A VAL* 1.4 64.8 + - - +
1198A GLY* 3.9 0.2 - - - -
1199A ALA* 3.3 21.5 + - - +
1260A VAL* 3.2 44.6 - - + +
1261A GLY* 4.2 7.7 - - - +
1264A PRO* 4.9 0.2 - - - +
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Residues in contact with VAL1196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1179A ILE* 4.1 22.0 - - + -
1181A MET* 4.0 30.7 - - + -
1193A ILE* 2.8 29.9 + - - +
1195A GLN* 1.4 75.7 - - - +
1197A GLU* 1.3 67.8 + - - +
1199A ALA* 3.3 2.8 + - - +
1200A PHE* 3.1 20.1 + - - +
1242A VAL* 3.9 28.0 - - + -
1244A LEU* 5.0 7.4 - - + -
1260A VAL* 4.6 12.3 - - + +
1264A PRO* 4.4 14.7 - - + +
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Residues in contact with GLU1197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A THR 4.4 10.5 - - - +
152A GLY* 4.7 1.1 - - - +
154A ARG* 2.7 58.0 + - - +
155A PRO* 4.0 9.0 - - - +
559A GLN* 4.3 6.6 - - - +
1193A ILE* 2.5 24.3 + - - +
1194A GLY* 4.3 5.8 - - - +
1196A VAL* 1.3 76.4 - - - +
1198A GLY* 1.3 64.1 + - - +
1200A PHE* 3.6 2.7 - - - +
1201A VAL* 3.0 27.7 + - - +
1240A PHE* 3.4 38.5 - - + +
1242A VAL* 4.2 12.5 - - + +
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Residues in contact with GLY1198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A ARG 5.0 3.5 - - - +
150A CYS 3.6 27.1 - - - -
151A THR 4.4 7.5 + - - -
152A GLY 4.4 1.6 - - - -
913A ARG* 3.8 9.8 + - - -
1194A GLY 3.1 12.2 + - - -
1195A GLN 3.9 0.9 - - - -
1196A VAL 3.2 0.2 + - - -
1197A GLU* 1.3 81.2 - - - +
1199A ALA* 1.3 61.5 + - - +
1201A VAL* 3.4 4.9 + - - +
1202A GLN* 3.0 19.1 + - - +
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Residues in contact with ALA1199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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913A ARG* 3.2 36.8 - - - +
1195A GLN 3.3 12.4 + - - +
1196A VAL 3.8 3.1 - - - +
1198A GLY* 1.3 73.9 - - - +
1200A PHE* 1.4 53.9 + - - +
1202A GLN* 2.6 24.0 + - - +
1203A GLY 2.9 10.9 + - - -
1261A GLY 4.1 3.1 - - - +
1264A PRO* 3.9 19.7 - - + -
1265A LEU* 3.6 20.4 - - + +
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Residues in contact with PHE1200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1159A ALA* 5.0 1.3 - - + -
1161A SER* 4.7 1.8 - - - -
1177A THR* 3.7 29.6 - - + -
1179A ILE* 4.0 23.6 - - + -
1196A VAL* 3.1 13.9 + - + +
1197A GLU* 3.6 10.1 - - - +
1199A ALA* 1.4 72.4 - - - +
1201A VAL* 1.3 69.8 + - + +
1203A GLY 3.3 2.0 + - - +
1204A LEU* 3.1 29.2 + - + +
1237A PRO* 4.6 7.0 - - + -
1240A PHE* 3.7 22.7 - + - -
1264A PRO* 4.5 9.1 + - + +
1265A LEU* 4.3 1.9 - - - +
1267A LEU* 3.7 14.6 - - + -
1268A ALA* 3.2 42.1 - - + +
1270A SER* 4.5 1.3 - - - -
1271A ILE* 4.2 18.8 - - + -
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Residues in contact with VAL1201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A ARG 6.0 1.6 - - - +
152A GLY* 4.1 18.2 - - - +
153A TYR* 5.5 3.6 - - + -
1197A GLU 3.0 16.0 + - - +
1198A GLY 3.7 5.2 - - - +
1200A PHE* 1.3 83.5 - - + +
1202A GLN* 1.3 64.2 + - + +
1204A LEU* 2.9 30.1 - - + +
1205A GLY 3.2 4.2 + - - -
1231A PRO* 3.8 26.5 - - + +
1236A ILE* 3.5 32.8 - - + -
1237A PRO* 5.1 0.4 - - + -
1240A PHE* 4.4 10.5 - - + -
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Residues in contact with GLN1202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A ARG* 3.7 46.5 - - + +
740A GLN* 4.0 8.1 + - - +
742A HIS 4.4 0.6 + - - -
799A PHE* 3.1 33.3 - - - -
840A ARG* 5.9 0.2 + - - -
912A PHE* 4.2 16.8 - - + -
913A ARG* 2.7 41.9 + - - -
1198A GLY 3.0 10.1 + - - +
1199A ALA 2.6 17.1 + - - +
1201A VAL* 1.3 74.0 - - + +
1203A GLY* 1.3 61.0 + - - +
1205A GLY* 3.3 2.8 + - - +
1206A LEU* 3.2 21.0 + - - +
1231A PRO* 5.8 0.2 - - - -
1265A LEU* 4.0 10.5 - - + +
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Residues in contact with GLY1203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1199A ALA 2.9 10.5 + - - -
1200A PHE 3.3 0.8 + - - -
1201A VAL 3.1 0.4 - - - -
1202A GLN* 1.3 76.0 - - - +
1204A LEU* 1.3 64.8 + - - +
1206A LEU* 3.1 4.7 + - - -
1207A PHE* 2.8 33.2 + - - +
1265A LEU* 3.7 21.8 - - - +
1268A ALA* 3.4 20.0 - - - -
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Residues in contact with LEU1204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1172A HIS* 5.7 0.2 - - - +
1174A ASN* 4.0 21.3 - - - +
1200A PHE* 3.1 23.8 + - + +
1201A VAL* 2.9 27.6 + - + +
1203A GLY* 1.3 74.8 - - - +
1205A GLY* 1.3 58.5 + - - +
1207A PHE* 5.5 0.2 - - - -
1208A THR* 2.5 48.0 + - + +
1209A LEU* 4.9 10.3 - - + -
1231A PRO* 5.0 8.3 - - + -
1235A SER* 4.8 7.4 - - - +
1236A ILE* 5.8 0.4 - - - -
1237A PRO* 4.8 9.6 - - + -
1268A ALA* 3.3 5.3 - - + +
1271A ILE* 3.7 30.1 - - + -
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Residues in contact with GLY1205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1201A VAL 3.2 7.1 + - - -
1202A GLN* 3.7 2.9 - - - -
1203A GLY 3.2 0.8 - - - -
1204A LEU* 1.3 78.6 - - - +
1206A LEU* 1.4 55.9 + - - +
1209A LEU* 2.9 34.6 + - - -
1210A GLU* 3.1 37.3 + - - -
1231A PRO* 4.5 9.8 - - - +
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Residues in contact with LEU1206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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737A ILE* 5.1 3.6 - - + -
738A GLY 3.8 22.4 - - - +
739A GLY 4.2 2.0 - - - +
740A GLN* 3.6 39.0 - - + +
840A ARG* 3.9 34.1 - - - +
918A PRO* 5.1 4.0 - - + -
919A GLN* 6.1 3.8 - - + -
1202A GLN 3.2 11.3 + - - +
1203A GLY 3.1 4.3 + - - +
1205A GLY* 1.4 71.8 - - - +
1207A PHE* 1.3 87.3 + - + +
1210A GLU* 5.0 3.8 - - - +
1265A LEU* 4.7 9.6 - - + -
1299A SER* 3.2 14.5 + - - +
1300A PRO* 3.7 9.0 - - + +
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Residues in contact with PHE1207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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737A ILE* 5.1 6.7 - - + -
918A PRO* 4.3 16.4 - - + -
919A GLN* 6.4 0.7 - - + -
922A LEU* 4.6 17.7 - - + -
1203A GLY* 2.8 21.4 + - - +
1204A LEU* 5.5 0.4 - - - -
1206A LEU* 1.3 109.6 - - + +
1208A THR* 1.3 64.9 + - + +
1265A LEU* 4.8 2.9 - - + -
1266A PHE* 3.7 30.3 - + - -
1268A ALA* 3.9 7.2 - - + -
1269A ALA* 3.3 39.3 - - + -
1272A PHE* 4.2 20.8 - + + +
1299A SER* 4.1 14.5 + - - -
1300A PRO* 3.2 4.3 - - - +
1301A ALA* 2.7 30.4 + - - +
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Residues in contact with THR1208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1172A HIS* 4.8 11.5 - - - -
1204A LEU* 2.5 36.1 + - + +
1205A GLY 3.4 0.2 + - - -
1206A LEU 3.6 0.2 - - - -
1207A PHE* 1.3 90.9 - - + +
1209A LEU* 1.3 75.5 + - - +
1271A ILE* 4.5 14.1 - - + -
1272A PHE* 5.0 5.4 - - - +
1275A ILE* 4.0 24.9 - - + -
1300A PRO* 4.1 2.2 - - - +
1301A ALA* 3.3 30.7 - - + +
1302A THR* 3.9 7.0 - - - -
1303A PRO* 4.6 1.7 - - - +
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Residues in contact with LEU1209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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425A SER* 4.0 33.2 - - - +
1172A HIS* 5.8 6.3 - - + -
1204A LEU* 4.9 6.3 - - + -
1205A GLY* 2.9 20.4 + - - +
1208A THR* 1.3 96.1 - - - +
1210A GLU* 1.3 60.1 + - + +
1211A GLU* 4.0 1.7 + - - +
1229A LYS* 3.8 26.0 + - + +
1230A ILE 5.3 0.2 - - - -
1231A PRO* 4.2 21.3 - - + -
1235A SER* 3.9 23.1 - - - +
1300A PRO* 4.5 1.4 - - - +
1302A THR* 4.4 12.9 - - + +
1303A PRO* 5.2 5.8 - - + -
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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