Contacts of the helix formed by residues 1014 - 1047 (chain A) in PDB entry 5UAK
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 TYR1014 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1012A GLN* 3.3 3.2 - - + -
1013A PRO* 1.3 92.2 - - + +
1015A ILE* 1.3 64.1 + - + +
1016A PHE 3.2 0.2 - - - -
1017A VAL* 3.3 24.5 + - + +
1018A ALA* 3.5 9.0 + - - +
1117A ILE* 3.4 32.7 - - + +
1121A THR* 5.5 8.7 - - + -
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Residues in contact with ILE1015 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1005A ILE* 5.5 0.9 - - + +
1008A VAL* 3.6 30.3 - - + +
1009A ALA* 4.5 7.9 - - + +
1012A GLN* 3.6 43.7 - - + +
1013A PRO 3.2 0.8 - - - -
1014A TYR* 1.3 74.8 - - - +
1016A PHE* 1.3 54.0 + - - +
1018A ALA* 2.8 26.0 + - + -
1019A THR* 2.8 22.6 + - + +
1110A PHE* 3.7 29.8 - - + -
1114A VAL* 4.0 23.3 - - + -
1117A ILE* 4.4 11.9 - - + -
1132A ILE* 4.6 1.1 - - + -
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Residues in contact with PHE1016 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1009A ALA* 4.3 25.0 - - + +
1013A PRO* 3.2 19.8 + - + +
1015A ILE* 1.3 78.5 - - - +
1017A VAL* 1.3 59.0 + - + +
1019A THR* 2.7 24.2 + - + -
1020A VAL* 3.7 19.8 - - + +
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Residues in contact with VAL1017 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1013A PRO 5.0 2.2 - - - +
1014A TYR* 3.3 21.9 + - + +
1015A ILE 3.1 0.6 - - - -
1016A PHE* 1.3 80.1 - - + +
1018A ALA* 1.3 58.9 + - - +
1019A THR 3.4 0.2 + - - -
1020A VAL* 3.6 5.4 + - - +
1021A PRO* 3.2 24.6 - - - +
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Residues in contact with ALA1018 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1014A TYR 3.5 4.1 + - - +
1015A ILE* 2.8 19.5 + - + +
1017A VAL* 1.3 80.2 - - - +
1019A THR* 1.3 57.3 + - - -
1020A VAL 3.5 0.2 - - - -
1021A PRO* 3.8 8.2 - - - +
1022A VAL* 3.4 21.5 - - - +
1110A PHE* 3.8 14.4 - - + -
1113A ALA* 4.8 16.6 - - + -
1114A VAL* 5.7 0.9 - - + -
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Residues in contact with THR1019 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1005A ILE* 3.7 27.1 - - + +
1009A ALA* 5.2 3.1 - - + -
1015A ILE* 2.8 23.7 + - + +
1016A PHE* 2.7 33.8 + - + -
1018A ALA* 1.3 73.2 - - - +
1020A VAL* 1.3 56.2 + - - +
1022A VAL* 3.0 5.0 + - - +
1023A ILE* 2.8 51.1 + - + +
1110A PHE* 3.5 25.4 - - + -
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Residues in contact with VAL1020 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1016A PHE* 3.7 26.2 - - + +
1017A VAL* 3.6 4.6 + - - +
1019A THR* 1.3 77.8 - - - +
1021A PRO* 1.4 70.5 - - + +
1023A ILE* 4.1 8.3 - - + +
1024A VAL* 3.2 28.0 + - + +
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Residues in contact with PRO1021 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1017A VAL* 3.2 18.8 - - + +
1018A ALA* 3.8 7.0 - - - +
1019A THR 3.7 1.6 - - - -
1020A VAL* 1.4 95.0 - - + +
1022A VAL* 1.3 59.2 + - + +
1024A VAL* 3.4 10.7 - - + +
1025A ALA* 3.3 24.9 + - - +
1109A ILE* 6.5 0.4 - - + -
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Residues in contact with VAL1022 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1018A ALA 3.4 19.1 - - - +
1019A THR* 3.0 8.0 + - - +
1021A PRO* 1.3 79.0 - - + +
1023A ILE* 1.3 67.0 + - + +
1025A ALA* 3.3 7.4 + - - +
1026A PHE* 3.2 49.6 + - + -
1106A ILE* 3.8 18.3 - - + +
1107A PHE* 5.5 1.3 - - + -
1109A ILE* 4.0 20.6 - - + -
1110A PHE* 3.9 31.2 - - + -
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Residues in contact with ILE1023 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1005A ILE* 4.7 17.0 - - + -
1019A THR* 2.8 43.0 + - - +
1020A VAL* 4.2 7.4 - - + +
1022A VAL* 1.3 75.5 - - + +
1024A VAL* 1.3 62.4 + - - +
1026A PHE* 3.4 21.5 + - + +
1027A ILE* 3.4 27.8 + - + +
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Residues in contact with VAL1024 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1020A VAL* 3.2 23.9 + - + +
1021A PRO* 3.4 14.4 - - + +
1023A ILE* 1.3 78.2 - - - +
1025A ALA* 1.3 55.9 + - - +
1027A ILE* 3.4 9.2 + - + +
1028A MET* 2.8 49.1 + - + +
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Residues in contact with ALA1025 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1021A PRO 3.3 17.2 + - - +
1022A VAL* 3.3 8.0 + - - +
1023A ILE 3.3 0.6 - - - -
1024A VAL* 1.3 81.2 - - + +
1026A PHE* 1.3 59.5 + - - +
1028A MET* 4.3 14.9 - - + +
1029A LEU* 2.8 35.6 + - - +
1102A ARG* 6.0 3.1 - - - +
1106A ILE* 4.4 20.2 - - + -
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Residues in contact with PHE1026 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1022A VAL* 3.2 43.1 + - + -
1023A ILE* 3.6 13.9 - - + +
1024A VAL 3.4 0.2 - - - -
1025A ALA* 1.3 75.9 - - - +
1027A ILE* 1.3 58.9 + - + +
1029A LEU* 4.2 2.5 - - - +
1030A ARG* 2.9 35.0 + - - +
1099A PHE* 5.7 0.2 - - - -
1103A ILE* 3.9 34.3 - - + -
1106A ILE* 3.6 27.6 - - + -
1107A PHE* 4.9 4.3 - + - -
1143A LEU* 3.8 35.9 - - + -
1147A VAL* 4.7 15.0 - - + -
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Residues in contact with ILE1027 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1023A ILE* 3.4 29.0 + - + +
1024A VAL* 3.9 9.2 - - + +
1025A ALA 3.4 0.2 - - - -
1026A PHE* 1.3 77.0 - - + +
1028A MET* 1.3 64.2 + - - +
1030A ARG* 4.3 6.4 + - - +
1031A ALA* 3.2 27.1 + - + +
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Residues in contact with MET1028 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1024A VAL* 2.8 33.1 + - + +
1025A ALA* 3.9 15.0 - - + +
1027A ILE* 1.3 75.8 - - - +
1029A LEU* 1.3 58.4 + - + +
1031A ALA* 3.9 3.0 - - - +
1032A TYR* 2.9 31.6 + - + +
1102A ARG* 5.3 10.8 - - - +
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Residues in contact with LEU1029 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A LEU* 6.1 0.7 - - + -
1025A ALA 2.8 23.6 + - - +
1026A PHE* 4.2 1.3 - - - +
1028A MET* 1.3 73.7 - - + +
1030A ARG* 1.3 58.9 + - - +
1032A TYR* 3.5 20.6 - - + +
1033A PHE* 2.8 31.0 + - + +
1098A TRP* 5.3 7.0 - - + +
1099A PHE* 3.4 42.6 - - + +
1102A ARG* 3.6 57.7 - - + +
1103A ILE* 5.3 1.8 - - + +
1106A ILE* 4.4 11.4 - - + -
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Residues in contact with ARG1030 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
846A TRP* 6.0 3.8 - - - -
1026A PHE 2.9 20.1 + - - +
1027A ILE* 4.3 5.8 - - - +
1029A LEU* 1.3 75.6 - - - +
1031A ALA* 1.3 60.2 + - - +
1033A PHE* 3.2 2.0 + - + +
1034A LEU* 2.8 64.3 + - + +
1099A PHE* 3.9 23.3 - - + -
1147A VAL* 3.9 19.7 - - + +
1150A SER* 3.6 42.4 + - - -
1151A ILE* 4.5 8.1 - - + +
1154A ASP* 5.2 3.8 - - - +
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Residues in contact with ALA1031 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A TYR* 4.8 2.7 - - - -
1027A ILE* 3.2 20.0 + - + +
1028A MET* 4.0 4.0 - - - +
1030A ARG* 1.3 80.1 - - - +
1032A TYR* 1.3 61.6 + - - +
1034A LEU* 3.8 13.3 + - - +
1035A GLN* 3.6 24.4 + - - +
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Residues in contact with TYR1032 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A ARG* 4.4 14.4 + - - +
24A LEU* 3.7 43.0 - - + +
25A ARG* 3.7 13.5 + - - +
28A TYR* 3.9 46.8 - + + +
1028A MET* 2.9 20.9 + - + +
1029A LEU* 3.5 25.8 - - + +
1030A ARG 3.3 0.2 - - - -
1031A ALA* 1.3 78.7 - - - +
1033A PHE* 1.3 58.3 + - - +
1035A GLN* 4.2 10.4 + - - +
1036A THR* 4.6 4.3 + - - +
1098A TRP* 5.7 2.2 - - - -
1102A ARG* 5.5 4.7 - - - -
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Residues in contact with PHE1033 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A LEU* 4.9 13.9 - - + -
1029A LEU* 2.8 23.2 + - + +
1030A ARG* 3.5 5.6 - - + +
1032A TYR* 1.3 75.9 - - - +
1034A LEU* 1.3 66.2 + - + +
1036A THR* 2.9 27.1 + - - -
1037A SER* 3.1 31.9 + - - -
1092A TYR* 6.1 2.0 - + - -
1095A THR* 3.4 32.8 - - - -
1096A LEU* 4.0 20.9 - - + -
1098A TRP* 5.8 1.8 - + - -
1099A PHE* 3.4 53.4 - + + -
1151A ILE* 4.3 17.7 - - + -
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Residues in contact with LEU1034 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
844A THR* 6.1 2.7 - - + -
1030A ARG* 2.8 54.4 + - + +
1031A ALA* 3.8 9.1 + - - +
1032A TYR 3.6 0.4 - - - -
1033A PHE* 1.3 74.9 - - + +
1035A GLN* 1.3 64.7 + - - +
1037A SER* 3.0 20.3 + - - -
1038A GLN* 3.1 31.1 + - + +
1151A ILE* 4.1 34.5 - - + -
1154A ASP* 4.4 22.2 - - - +
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Residues in contact with GLN1035 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A GLY 4.9 2.7 - - - +
28A TYR* 3.9 38.3 - - + +
1031A ALA 3.6 16.7 + - - +
1032A TYR 4.2 7.2 - - - +
1033A PHE 3.3 1.0 - - - -
1034A LEU* 1.3 77.5 - - - +
1036A THR* 1.3 60.4 + - + +
1038A GLN* 5.1 1.1 - - - +
1039A GLN* 3.4 26.8 + - - +
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Residues in contact with THR1036 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ILE* 3.7 25.1 - - + +
24A LEU* 3.8 34.6 - - + +
27A GLY* 4.0 15.3 - - - -
28A TYR 4.6 0.2 - - - +
32A LEU* 4.8 8.3 - - + +
1032A TYR 4.6 1.7 + - - +
1033A PHE* 2.9 20.5 + - - -
1035A GLN* 1.3 76.9 - - + +
1037A SER* 1.3 55.4 + - - -
1039A GLN* 2.9 10.2 + - - +
1040A LEU* 2.6 38.8 + - - +
1095A THR* 5.1 6.5 - - - +
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Residues in contact with SER1037 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1033A PHE* 3.1 45.2 + - - -
1034A LEU* 3.0 16.2 + - - -
1036A THR* 1.3 78.7 + - - +
1038A GLN* 1.3 55.4 + - - +
1040A LEU* 3.4 5.6 + - - +
1041A LYS* 2.8 37.1 + - - +
1092A TYR* 3.8 22.0 - - - -
1095A THR* 4.9 4.4 + - - -
1151A ILE* 6.1 3.4 - - - -
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Residues in contact with GLN1038 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1034A LEU* 3.1 30.9 + - + +
1035A GLN 5.1 1.3 - - - +
1037A SER* 1.3 80.1 - - - +
1039A GLN* 1.3 58.8 + - - +
1041A LYS* 3.8 13.5 - - - +
1042A GLN* 2.9 28.5 + - - +
1151A ILE* 4.6 6.9 + - - +
1154A ASP* 4.3 13.8 + - - +
1155A SER* 3.9 30.8 - - - +
1158A ARG* 3.6 33.9 + - - +
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Residues in contact with GLN1039 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A GLY* 3.9 16.4 + - - -
30A GLN 4.6 0.4 + - - -
31A ARG* 3.3 19.6 + - - +
32A LEU* 3.2 54.6 + - + +
1035A GLN* 3.4 17.1 + - - +
1036A THR 2.9 8.1 + - - +
1038A GLN* 1.3 77.1 - - - +
1040A LEU* 1.3 61.5 + - - +
1042A GLN* 3.5 19.4 - - - +
1043A LEU* 3.4 24.5 - - + +
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Residues in contact with LEU1040 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ILE* 6.0 0.2 - - + -
32A LEU* 5.0 12.1 - - + +
37A ILE* 4.1 11.7 - - + -
1036A THR* 2.6 21.4 + - - +
1037A SER* 3.7 6.7 - - - +
1039A GLN* 1.3 70.9 - - - +
1041A LYS* 1.3 59.5 + - - +
1042A GLN 3.1 1.6 - - - -
1043A LEU* 2.9 23.8 + - + +
1044A GLU* 3.1 13.1 + - + +
1088A ASN* 3.8 26.2 + - - +
1091A LEU* 3.8 29.6 - - + +
1092A TYR* 3.6 44.2 - - + +
1095A THR* 4.3 9.9 - - + +
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Residues in contact with LYS1041 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1037A SER 2.8 22.2 + - - +
1038A GLN* 3.9 16.6 - - - +
1040A LEU* 1.3 69.7 - - - +
1042A GLN* 1.3 63.6 + - - +
1044A GLU* 3.4 26.5 + - + +
1045A SER* 3.3 21.5 + - - -
1092A TYR* 4.1 22.3 + - + +
1155A SER* 4.8 16.9 + - - -
1158A ARG* 6.0 4.5 - - - +
----------------------------------------------------------
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Residues in contact with GLN1042 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ARG* 4.5 16.6 - - - +
1038A GLN 2.9 17.7 + - - +
1039A GLN* 3.5 19.1 - - - +
1041A LYS* 1.3 76.3 - - - +
1043A LEU* 1.3 69.7 + - + +
1045A SER* 3.4 7.1 + - - -
1046A GLU* 3.2 40.9 + - + +
1158A ARG* 5.5 10.0 - - - +
----------------------------------------------------------
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Residues in contact with LEU1043 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 5.8 9.2 - - + +
33A GLU* 4.4 3.8 - - - +
34A LEU* 3.9 37.1 - - + +
37A ILE* 3.6 19.5 - - + -
1039A GLN* 3.4 20.2 - - + +
1040A LEU* 2.9 8.9 + - + +
1042A GLN* 1.3 88.1 - - + +
1044A GLU* 1.3 56.4 + - - +
1046A GLU* 4.5 13.0 - - + +
1047A GLY* 2.8 31.4 + - - -
1088A ASN* 3.2 29.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU1044 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1040A LEU 3.1 8.6 + - - +
1041A LYS* 3.5 32.1 - - + +
1042A GLN 3.3 0.4 - - - -
1043A LEU* 1.3 77.4 - - - +
1045A SER* 1.3 60.0 + - - +
1047A GLY 3.9 1.4 - - - -
1048A ARG* 3.3 24.0 + - - +
1085A HIS* 3.9 11.0 + - - -
1088A ASN* 3.0 23.0 - - - +
1089A TRP* 3.2 54.7 - - + -
1092A TYR* 3.2 39.0 - - - +
----------------------------------------------------------
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Residues in contact with SER1045 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1041A LYS 3.3 9.9 + - - -
1042A GLN* 3.7 9.4 - - - -
1043A LEU 3.4 0.2 - - - -
1044A GLU* 1.3 77.8 - - - +
1046A GLU* 1.3 64.6 + - - +
1048A ARG* 3.4 29.6 + - - +
1049A SER* 4.4 2.1 + - - -
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Residues in contact with GLU1046 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1042A GLN* 3.2 34.0 + - + +
1043A LEU* 4.1 14.0 - - - +
1045A SER* 1.3 72.7 - - - +
1047A GLY* 1.3 57.3 + - - +
1048A ARG 3.1 8.6 + - - -
1049A SER* 3.1 27.0 + - - -
1050A PRO* 3.5 2.8 - - - +
----------------------------------------------------------
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Residues in contact with GLY1047 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 6.3 2.7 - - - -
1043A LEU 2.8 23.3 + - - -
1046A GLU* 1.3 70.0 - - - +
1048A ARG* 1.3 61.7 + - - +
1049A SER 3.4 0.4 - - - -
1050A PRO* 3.5 16.8 - - - +
1051A ILE* 4.6 4.0 - - - +
1081A ALA 5.0 1.2 - - - +
1084A LEU* 6.1 1.3 - - - -
1085A HIS* 3.4 30.9 + - - +
1088A ASN* 6.5 0.4 - - - -
----------------------------------------------------------
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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