Contacts of the helix formed by residues 1097 - 1116 (chain A) in PDB entry 1WUF
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 ASN1097 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1058A GLU* 4.7 4.8 + - - -
1059A GLU* 3.4 27.4 + - - +
1064A ALA* 5.8 0.7 - - - -
1067A ILE* 3.5 38.3 - - + +
1072A LEU* 6.4 0.4 - - + -
1094A ILE* 4.0 8.2 - - + +
1095A GLN 2.8 23.2 + - - -
1096A GLY* 1.3 70.1 - - - +
1098A GLU* 1.3 65.6 + - - +
1100A ALA* 3.4 3.5 + - + +
1101A LYS* 3.3 23.5 + - + +
2054B PRO* 3.9 11.5 - - - +
2058B GLU* 3.1 29.9 + - - +
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Residues in contact with GLU1098 (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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1059A GLU* 3.3 4.0 + - - +
1096A GLY* 3.2 26.5 + - - +
1097A ASN* 1.3 71.3 + - - +
1099A MET* 1.3 60.1 + - - +
1101A LYS* 3.3 8.1 + - + +
1102A ALA 2.9 24.3 + - - -
1243A ARG* 3.2 49.1 + - + +
1265A ALA 3.3 7.0 - - - +
1266A ARG* 3.5 23.3 - - - +
1267A VAL 4.1 4.3 - - - -
1268A GLY* 3.3 22.4 - - - +
2220B LYS* 4.5 5.0 + - - -
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Residues in contact with MET1099 (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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1048A LEU* 3.2 16.9 - - - +
1049A GLU 4.9 1.3 + - - +
1050A ALA* 4.0 33.9 - - + +
1051A PHE 5.3 0.7 - - - -
1056A TYR* 3.8 23.3 - - + -
1057A THR* 4.0 16.6 - - + +
1059A GLU* 3.0 25.7 + - - +
1098A GLU* 1.3 72.6 - - - +
1100A ALA* 1.3 63.5 + - - +
1102A ALA* 3.9 2.6 - - - +
1103A ALA* 3.4 13.5 + - - +
1265A ALA* 3.4 26.0 - - + +
1266A ARG* 4.0 16.6 - - + +
1292A MET* 3.7 30.5 - - + +
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Residues in contact with ALA1100 (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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1048A LEU* 4.0 9.6 - - - -
1059A GLU* 3.1 10.7 + - - +
1064A ALA* 3.8 24.0 - - + +
1067A ILE* 4.3 13.7 - - + -
1068A ILE* 3.9 4.5 - - + +
1072A LEU* 3.4 19.3 - - + +
1097A ASN* 3.6 9.4 - - + +
1098A GLU 3.2 0.4 - - - -
1099A MET* 1.3 76.2 - - - +
1101A LYS* 1.3 67.8 + - - +
1103A ALA* 3.2 12.5 + - - +
1104A VAL* 3.4 10.0 + - - +
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Residues in contact with LYS1101 (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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1072A LEU* 3.4 16.4 - - + -
1088A GLN* 5.2 1.5 + - - +
1091A PHE* 2.7 57.6 + - + -
1092A SER* 4.3 4.4 + - - +
1094A ILE* 2.9 34.7 + - - -
1096A GLY 3.7 13.8 + - - +
1097A ASN* 3.3 12.3 + - + +
1098A GLU* 3.5 13.8 - - + +
1100A ALA* 1.3 79.8 - - - +
1102A ALA* 1.3 52.3 + - - +
1104A VAL* 3.1 4.2 + - - +
1105A GLU* 2.7 36.3 + - - +
1268A GLY* 4.1 15.3 - - - +
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Residues in contact with ALA1102 (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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1047A GLU 5.1 1.1 - - - +
1098A GLU 2.9 17.7 + - - +
1099A MET 3.9 3.8 - - - +
1101A LYS* 1.3 76.5 - - - +
1103A ALA* 1.3 64.1 + - - +
1105A GLU* 4.5 0.4 - - - +
1106A LEU* 2.8 36.2 + - + +
1264A LEU 3.9 1.6 - - - +
1265A ALA* 3.6 26.5 - - + +
1268A GLY 3.8 8.9 + - - -
1269A GLY* 3.6 20.9 - - - +
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Residues in contact with ALA1103 (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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1034A ILE* 3.8 17.4 - - + +
1046A GLY* 3.3 24.9 - - - -
1047A GLU 3.6 14.5 + - - +
1048A LEU* 3.6 37.9 - - + +
1068A ILE* 4.0 4.3 - - + -
1099A MET 3.4 5.6 + - - +
1100A ALA 3.2 10.5 + - - +
1102A ALA* 1.3 80.0 - - - +
1104A VAL* 1.3 60.8 + - - +
1106A LEU* 5.1 0.4 - - - -
1107A ALA* 3.6 4.9 + - - +
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Residues in contact with VAL1104 (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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1034A ILE* 4.2 10.5 - - + -
1036A LEU* 3.5 6.9 - - + +
1068A ILE* 3.8 33.0 - - + -
1072A LEU* 4.1 7.4 - - + -
1073A LEU* 4.1 12.8 - - + -
1076A LEU* 4.0 26.2 - - + -
1091A PHE* 4.1 19.7 - - + -
1100A ALA 3.8 10.3 - - - +
1101A LYS 3.1 6.3 + - - +
1103A ALA* 1.3 76.6 - - - +
1105A GLU* 1.3 64.7 + - - +
1107A ALA* 3.2 17.5 + - - +
1108A VAL* 3.2 9.9 + - + +
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Residues in contact with GLU1105 (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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1084A PRO 4.6 0.2 - - - +
1087A ILE* 3.3 38.5 - - + +
1088A GLN* 4.7 7.1 - - - +
1091A PHE* 4.8 0.9 - - + -
1101A LYS 2.7 23.3 + - - +
1102A ALA 4.2 0.9 - - - +
1104A VAL* 1.3 71.7 - - - +
1106A LEU* 1.3 67.1 + - - +
1108A VAL* 3.0 13.4 + - - +
1109A TRP* 3.0 29.8 + - + +
1268A GLY 4.3 6.5 - - - +
1269A GLY* 3.2 8.7 - - - -
1270A MET* 2.8 25.3 + - - +
1271A SER* 3.1 37.1 + - - -
1272A SER 4.6 0.3 + - - -
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Residues in contact with LEU1106 (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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1045A TYR 4.2 0.7 - - - -
1046A GLY* 4.6 3.4 - - - -
1047A GLU 5.5 6.5 - - - +
1049A GLU* 5.7 3.4 - - - +
1102A ALA* 2.8 34.0 + - + +
1103A ALA* 4.5 3.4 - - - +
1105A GLU* 1.3 75.0 - - - +
1107A ALA* 1.3 61.4 + - - +
1109A TRP* 3.4 4.4 + - + +
1110A ASP 3.2 12.0 + - - -
1264A LEU* 3.8 35.2 - - + -
1265A ALA* 5.4 0.7 - - - +
1269A GLY* 4.4 2.5 - - - -
1270A MET* 3.8 34.3 - - + +
1298A GLY* 6.5 1.1 - - - -
1301A HIS* 2.9 55.3 + - + +
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Residues in contact with ALA1107 (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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1034A ILE* 3.9 9.9 - - + +
1036A LEU* 3.4 19.1 - - + -
1044A GLY* 3.5 15.5 - - - +
1045A TYR 3.7 14.4 - - - -
1046A GLY* 3.6 17.2 - - - +
1103A ALA 3.6 8.2 + - - +
1104A VAL 3.2 11.8 + - - +
1105A GLU 3.0 0.6 - - - -
1106A LEU* 1.3 80.3 - - - +
1108A VAL* 1.3 63.2 + - - +
1110A ASP* 3.3 2.1 + - - +
1111A ALA* 3.0 18.7 + - - +
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Residues in contact with VAL1108 (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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1003A PHE* 4.0 25.1 - - + -
1036A LEU* 3.7 14.1 - - + -
1076A LEU* 4.7 5.2 - - + -
1081A ILE* 4.4 1.8 - - + -
1084A PRO* 4.3 6.3 - - + +
1087A ILE* 3.7 38.6 - - + -
1104A VAL* 3.4 15.9 - - + +
1105A GLU* 3.0 8.8 + - - +
1107A ALA* 1.3 76.3 - - - +
1109A TRP* 1.3 61.4 + - - +
1111A ALA* 3.3 2.3 + - - +
1112A PHE* 3.1 43.6 + - + -
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Residues in contact with TRP1109 (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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1084A PRO* 3.6 40.3 + - + +
1085A GLU* 3.8 20.0 - - - -
1105A GLU* 3.0 54.3 + - + -
1106A LEU* 3.7 10.3 - - + +
1107A ALA 3.2 0.2 - - - -
1108A VAL* 1.3 75.0 - - - +
1110A ASP* 1.3 66.5 + - - +
1112A PHE* 2.8 14.0 + - - +
1113A ALA* 2.9 14.0 + - - +
1120A LEU* 4.1 19.8 - - + +
1123A MET* 4.5 15.7 - - + +
1124A ILE* 3.5 27.1 - - + -
1270A MET* 3.6 28.4 - - + +
1271A SER* 3.6 22.9 + - - -
1274A LEU* 4.1 13.0 - - + -
1301A HIS* 5.1 1.3 - - + +
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Residues in contact with ASP1110 (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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1043A HIS 3.5 1.0 - - - +
1044A GLY* 3.3 6.8 - - - -
1045A TYR* 2.9 28.3 + - - +
1106A LEU 3.2 10.6 + - - +
1107A ALA 3.5 7.6 - - - +
1109A TRP* 1.3 77.6 - - - +
1111A ALA* 1.3 57.3 + - - +
1113A ALA* 3.9 5.4 - - - +
1114A LYS* 2.9 52.2 + - - +
1120A LEU* 4.5 4.5 - - - +
1301A HIS* 4.0 11.2 + - - +
1347A GLY* 3.2 3.0 - - - -
1348A ILE* 2.7 40.2 + - + +
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Residues in contact with ALA1111 (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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1001A MET* 3.6 15.5 - - - +
1003A PHE* 4.0 24.9 - - + -
1036A LEU 5.2 0.2 - - - +
1038A ASN* 5.9 0.2 - - + -
1042A ILE* 3.9 11.9 - - + +
1044A GLY* 4.0 17.4 - - - +
1107A ALA 3.0 12.8 + - - +
1108A VAL 3.4 10.5 - - - +
1109A TRP 3.1 0.2 - - - -
1110A ASP* 1.3 78.4 - - - +
1112A PHE* 1.3 57.0 + - - +
1114A LYS* 3.5 8.5 - - - +
1115A MET* 3.2 19.6 + - - +
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Residues in contact with PHE1112 (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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1000A HIS 4.5 10.1 - - - -
1001A MET* 3.4 36.1 - - + -
1081A ILE* 3.5 31.2 - - + -
1082A ARG 3.3 28.3 - - - -
1083A LYS 4.2 1.3 - - - -
1084A PRO* 4.0 23.8 - - + -
1108A VAL* 3.1 38.4 + - + -
1109A TRP 2.8 8.8 + - - +
1111A ALA* 1.3 76.1 - - - +
1113A ALA* 1.3 66.9 + - - +
1114A LYS 3.0 1.3 - - - -
1115A MET* 2.8 21.1 + - - +
1116A GLU* 2.9 25.1 + - - +
1123A MET* 4.1 12.1 - - + -
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Residues in contact with ALA1113 (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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1109A TRP 2.9 12.3 + - - +
1110A ASP 4.0 0.7 - - - +
1112A PHE* 1.3 76.4 - - - +
1114A LYS* 1.3 61.1 + - - +
1116A GLU* 3.3 5.5 + - - +
1118A ARG* 3.0 36.0 + - - +
1119A SER 3.9 1.8 - - - +
1120A LEU* 3.8 29.2 - - + -
1123A MET* 3.6 27.9 - - - -
1347A GLY* 3.9 9.0 - - - -
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Residues in contact with LYS1114 (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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1042A ILE* 3.6 21.0 - - + +
1043A HIS* 3.0 31.2 - - - +
1045A TYR* 4.6 10.8 - - - -
1110A ASP* 2.9 47.8 + - - +
1111A ALA 3.5 6.1 - - - +
1112A PHE 3.0 0.2 - - - -
1113A ALA* 1.3 76.9 - - - +
1115A MET* 1.3 62.4 + - - +
1117A LYS* 3.0 12.8 + - - +
1346A GLU* 3.1 32.3 + - + +
1347A GLY* 3.9 18.5 - - - +
1348A ILE* 4.1 7.9 - - - +
1350A VAL 5.2 4.4 + - - -
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Residues in contact with MET1115 (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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1000A HIS 3.9 32.1 - - - +
1001A MET* 3.8 19.3 - - + -
1038A ASN* 3.7 24.9 - - - +
1040A GLU* 4.0 17.5 - - - +
1042A ILE* 3.8 15.0 - - + +
1111A ALA 3.2 10.1 + - - +
1112A PHE* 2.8 17.4 + - - +
1114A LYS* 1.3 82.3 - - - +
1116A GLU* 1.3 63.2 + - + +
1117A LYS* 3.4 14.7 + - - +
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Residues in contact with GLU1116 (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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1112A PHE* 2.9 22.7 + - + +
1113A ALA 3.9 3.6 - - - +
1114A LYS 3.2 0.4 - - - -
1115A MET* 1.3 81.2 - - + +
1117A LYS* 1.3 76.7 + - - +
1118A ARG* 2.5 60.4 + - + +
1123A MET* 2.9 20.7 - - + +
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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
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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