Contacts of the helix formed by residues 1074 - 1103 (chain r) in PDB entry 6FF7
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 GLY1074 (chain r).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1033r GLU* 6.2 4.3 - - - -
1072r LEU* 3.6 9.2 - - - +
1073r GLU* 1.3 81.0 - - - +
1075r PHE* 1.3 64.5 + - - -
1076r ALA* 3.5 2.7 - - - -
1077r LEU* 3.8 11.4 + - - +
1078r MET* 3.4 15.8 + - - +
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Residues in contact with PHE1075 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1073r GLU 3.6 2.4 + - - -
1074r GLY* 1.3 70.3 - - - -
1076r ALA* 1.3 67.7 + - - +
1077r LEU 3.2 0.2 - - - -
1078r MET* 2.9 18.0 + - - +
1079r ALA* 3.0 15.5 + - - +
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Residues in contact with ALA1076 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1033r GLU* 6.0 5.2 - - + -
1074r GLY* 5.2 0.9 - - - -
1075r PHE* 1.3 78.4 - - - +
1077r LEU* 1.3 57.2 + - - +
1079r ALA* 3.5 4.8 + - - +
1080r ASP* 2.9 30.0 + - - +
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Residues in contact with LEU1077 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1033r GLU* 5.3 13.6 - - + +
1062r LEU* 5.9 0.2 - - - +
1072r LEU* 4.5 13.7 - - + -
1074r GLY* 3.8 14.4 + - - +
1075r PHE 3.2 0.4 - - - -
1076r ALA* 1.3 76.5 - - - +
1078r MET* 1.3 61.9 + - - +
1080r ASP* 3.5 6.8 - - - +
1081r MET* 2.8 31.7 + - - +
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Residues in contact with MET1078 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1072r LEU* 4.8 13.6 - - + +
1074r GLY 3.4 12.6 + - - +
1075r PHE* 2.9 12.1 + - - +
1077r LEU* 1.3 76.7 - - - +
1079r ALA* 1.3 64.7 + - - +
1081r MET* 3.0 8.9 + - - +
1082r VAL* 2.9 22.8 + - - +
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Residues in contact with ALA1079 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
834r TYR* 5.3 15.3 - - + +
836r PRO* 3.9 11.4 - - + +
1075r PHE 3.0 13.8 + - - +
1076r ALA* 3.9 5.2 - - - +
1078r MET* 1.3 74.8 - - - +
1080r ASP* 1.3 64.4 + - - +
1082r VAL* 3.3 9.6 + - - +
1083r TYR* 3.0 21.8 + - - +
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Residues in contact with ASP1080 (chain r).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
836r PRO* 4.0 14.3 - - + +
1062r LEU* 5.8 0.2 - - - -
1076r ALA 2.9 19.7 + - - +
1077r LEU* 3.5 8.7 - - - +
1078r MET 3.2 0.2 - - - -
1079r ALA* 1.3 75.4 - - - +
1081r MET* 1.3 63.4 + - - +
1083r TYR* 3.0 7.2 + - - +
1084r VAL* 2.9 22.6 + - - +
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Residues in contact with MET1081 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1062r LEU* 4.4 26.1 - - + +
1065r ALA* 6.3 1.1 - - + -
1066r PHE* 5.6 5.3 - - + +
1077r LEU 2.8 20.7 + - - +
1078r MET* 3.4 6.3 - - - +
1080r ASP* 1.3 72.1 - - - +
1082r VAL* 1.3 63.6 + - - +
1084r VAL* 3.1 7.9 + - - +
1085r THR* 2.9 27.8 + - - -
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Residues in contact with VAL1082 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1078r MET 2.9 12.7 + - - +
1079r ALA* 3.4 13.2 - - - +
1081r MET* 1.3 76.4 - - - +
1083r TYR* 1.3 63.5 + - - +
1085r THR* 3.3 4.0 + - - -
1086r GLN* 2.9 27.1 + - - +
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Residues in contact with TYR1083 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
836r PRO* 3.7 30.3 - - + +
837r GLU* 5.1 2.2 - - - +
1079r ALA 3.0 5.6 + - - +
1080r ASP 3.0 9.7 + - - +
1082r VAL* 1.3 76.7 - - - +
1084r VAL* 1.3 64.3 + - - +
1086r GLN* 3.9 3.7 - - - +
1087r SER* 3.0 26.2 + - - -
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Residues in contact with VAL1084 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1059r ILE* 5.0 13.9 - - + +
1062r LEU* 5.0 11.9 - - + -
1063r LEU* 5.4 6.5 - - + +
1080r ASP 2.9 12.2 + - - +
1081r MET* 3.5 11.0 - - - +
1083r TYR* 1.3 77.5 - - - +
1085r THR* 1.3 58.3 + - - +
1087r SER* 3.5 4.3 + - - -
1088r ALA* 2.9 28.7 + - - +
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Residues in contact with THR1085 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1063r LEU* 5.9 5.4 - - - +
1066r PHE* 4.4 21.5 - - - -
1081r MET 2.9 16.1 + - - -
1082r VAL* 4.0 3.8 - - - -
1084r VAL* 1.3 74.4 - - - +
1086r GLN* 1.3 66.6 + - - +
1088r ALA* 3.2 20.6 + - - +
1089r GLY 3.7 3.5 + - - -
1118r ILE* 5.7 2.4 - - - +
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Residues in contact with GLN1086 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1082r VAL 2.9 17.9 + - - +
1083r TYR* 4.0 3.6 - - - +
1085r THR* 1.3 79.1 - - - +
1087r SER* 1.3 62.5 + - - +
1088r ALA 3.3 0.7 + - - -
1089r GLY* 3.6 7.8 + - - -
1090r ARG* 4.7 2.1 + - - +
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Residues in contact with SER1087 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1023r GLU* 5.4 13.0 - - - -
1083r TYR 3.0 16.9 + - - -
1084r VAL* 4.0 3.8 - - - -
1086r GLN* 1.3 77.1 - - - +
1088r ALA* 1.3 62.9 + - - +
1089r GLY 3.2 1.1 + - - -
1090r ARG* 3.4 8.8 + - - +
1091r LEU* 3.0 23.7 + - - +
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Residues in contact with ALA1088 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1063r LEU* 6.0 6.1 - - + -
1084r VAL 2.9 19.8 + - - +
1085r THR* 3.3 15.9 - - - +
1086r GLN 3.1 0.8 - - - -
1087r SER* 1.3 74.4 - - - +
1089r GLY* 1.3 59.0 + - - +
1091r LEU* 4.2 7.2 - - - -
1092r MET* 2.9 34.1 + - + +
1118r ILE* 5.4 11.1 - - + +
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Residues in contact with GLY1089 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1085r THR 3.7 3.6 + - - -
1086r GLN 3.6 7.8 + - - -
1087r SER 3.2 1.4 + - - -
1088r ALA* 1.3 77.8 - - - +
1090r ARG* 1.3 63.3 + - - +
1092r MET* 4.1 1.9 - - - +
1093r ARG* 3.0 27.3 + - - +
1115r CYS* 5.8 3.3 - - - +
1118r ILE* 5.4 8.5 - - - +
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Residues in contact with ARG1090 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
991r TYR* 3.4 32.7 - - + +
993r ILE* 5.8 2.2 - - + -
1086r GLN 4.7 1.6 + - - +
1087r SER* 3.4 8.5 + - - +
1089r GLY* 1.3 74.2 - - - +
1091r LEU* 1.3 64.4 + - - +
1093r ARG* 3.3 6.1 + - - +
1094r ALA* 2.9 25.5 + - - +
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Residues in contact with LEU1091 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
993r ILE* 5.6 6.3 - - - -
1018r PHE* 5.9 5.6 - - + +
1021r SER* 5.4 13.2 - - - -
1087r SER* 3.0 19.7 + - - +
1088r ALA* 3.8 8.1 - - - +
1090r ARG* 1.3 76.4 - - - +
1092r MET* 1.3 64.5 + - - +
1094r ALA* 3.1 7.3 + - - +
1095r ILE* 3.0 21.4 + - - +
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Residues in contact with MET1092 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1018r PHE* 6.4 2.5 - - + -
1088r ALA* 2.9 22.0 + - + +
1089r GLY* 4.1 2.0 - - - +
1091r LEU* 1.3 73.6 - - - +
1093r ARG* 1.3 57.8 - - - +
1095r ILE* 3.2 10.7 - - - +
1096r PHE* 2.9 27.0 + - - +
1111r THR* 4.6 8.5 - - - +
1114r LEU* 5.3 6.5 - - + -
1115r CYS* 4.7 21.8 - - - +
1118r ILE* 6.0 2.9 - - + -
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Residues in contact with ARG1093 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
991r TYR* 5.5 2.9 - - + -
1089r GLY 3.0 20.1 + - - +
1090r ARG* 3.5 6.5 - - - +
1092r MET* 1.3 76.9 - - - +
1094r ALA* 1.3 60.0 + - - +
1096r PHE* 3.2 8.4 + - - +
1097r GLU* 2.9 29.3 + - - +
1115r CYS* 5.3 8.2 - - + +
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Residues in contact with ALA1094 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
987r ILE* 4.5 17.1 - - + +
988r ALA* 5.8 0.7 - - - -
991r TYR* 4.0 19.2 - - + +
993r ILE* 5.1 9.0 - - + -
1090r ARG 2.9 16.9 + - - +
1091r LEU* 3.1 6.3 + - - +
1093r ARG* 1.3 72.3 - - - +
1095r ILE* 1.3 66.6 + - - +
1097r GLU* 3.5 6.8 + - - +
1098r ILE* 3.0 24.8 + - - +
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Residues in contact with ILE1095 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1001r TYR* 6.0 8.3 - - + -
1091r LEU 3.0 13.1 + - - +
1092r MET* 3.2 13.7 - - - +
1094r ALA* 1.3 78.0 - - - +
1096r PHE* 1.3 63.3 + - - +
1098r ILE* 3.4 5.0 - - - +
1099r VAL* 2.9 28.1 + - + +
1111r THR* 4.8 7.6 - - - -
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Residues in contact with PHE1096 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1092r MET 2.9 15.6 + - - +
1093r ARG* 3.5 11.7 - - - +
1095r ILE* 1.3 72.3 - - - +
1097r GLU* 1.3 64.9 + - - +
1099r VAL* 3.2 2.3 + - - +
1100r LEU* 2.9 28.3 + - - +
1108r THR* 4.9 5.2 - - - +
1111r THR* 4.0 30.2 - - - +
1112r LEU* 4.4 8.5 - - + +
1115r CYS* 5.8 2.0 - - + -
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Residues in contact with GLU1097 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
987r ILE* 4.9 12.3 - - + -
1093r ARG 2.9 16.2 + - - +
1094r ALA* 3.7 8.1 - - - +
1096r PHE* 1.3 75.3 - - - +
1098r ILE* 1.3 57.4 + - - +
1100r LEU* 3.7 4.9 - - - +
1101r ASN* 3.0 30.5 + - - +
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Residues in contact with ILE1098 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
984r LEU* 6.6 0.4 - - - -
987r ILE* 5.3 7.3 - - + +
1001r TYR* 6.2 4.3 - - + -
1094r ALA 3.0 14.6 + - - +
1095r ILE* 3.4 10.3 - - - +
1097r GLU* 1.3 75.3 - - - +
1099r VAL* 1.3 60.7 + - + +
1101r ASN* 3.1 9.2 + - - +
1102r ARG* 3.0 26.4 + - - +
----------------------------------------------------------
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Residues in contact with VAL1099 (chain r).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1005r LEU* 5.9 7.0 - - + -
1095r ILE* 2.9 15.7 + - + +
1096r PHE* 4.0 4.3 - - - +
1098r ILE* 1.3 79.9 - - + +
1100r LEU* 1.3 56.2 + - - +
1102r ARG* 3.6 8.6 - - - +
1103r GLY 3.3 4.0 + - - -
1104r TRP* 3.3 31.5 + - + +
1107r LEU* 4.9 18.6 - - + +
1108r THR* 4.6 8.5 - - - +
1111r THR* 5.6 1.8 - - - -
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Residues in contact with LEU1100 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1096r PHE 2.9 18.6 + - - +
1097r GLU* 3.7 5.4 - - - +
1099r VAL* 1.3 76.8 - - - +
1101r ASN* 1.3 65.0 + - - +
1102r ARG 3.1 1.3 - - - -
1103r GLY* 3.0 15.3 + - - +
1104r TRP 5.1 0.2 - - - +
1108r THR* 4.2 18.3 - - - -
1233r ILE* 5.7 0.9 - - - +
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Residues in contact with ASN1101 (chain r).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
983r GLU* 5.5 11.4 - - + -
1097r GLU 3.0 18.9 + - - +
1098r ILE* 3.5 7.0 - - - +
1100r LEU* 1.3 76.4 - - - +
1102r ARG* 1.3 61.4 + - - +
1103r GLY* 3.5 0.3 + - - -
----------------------------------------------------------
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Residues in contact with ARG1102 (chain r).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1098r ILE 3.0 12.4 + - - +
1099r VAL* 3.6 13.2 - - - +
1100r LEU 3.1 0.4 - - - -
1101r ASN* 1.3 79.7 - - - +
1103r GLY* 1.3 58.5 + - - +
1104r TRP* 3.6 6.7 - - + +
----------------------------------------------------------
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Residues in contact with GLY1103 (chain r).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1099r VAL 3.3 1.2 + - - -
1100r LEU* 3.0 17.4 + - - -
1101r ASN 4.4 0.4 - - - -
1102r ARG* 1.3 80.2 - - - +
1104r TRP* 1.3 59.3 + - - +
1105r ALA 3.3 1.9 + - - -
1232r VAL* 3.8 4.0 - - - +
1233r ILE* 2.9 45.7 + - - +
----------------------------------------------------------
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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
------------------------------------------------------------
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