Contacts of the helix formed by residues 986 - 1012 (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 LEU 986 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
982A ILE* 2.9 39.3 + - + +
985A ASP* 1.3 90.2 - - + +
987A LEU* 1.3 64.4 + - - +
988A PRO 3.5 0.4 - - - -
989A LEU* 3.6 16.8 + - + +
990A THR* 3.5 17.9 + - + +
1156A LEU* 4.7 13.2 - - + -
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Residues in contact with LEU 987 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852A TYR* 3.4 26.9 - - + +
982A ILE 3.3 6.2 + - - +
983A LEU* 3.5 27.4 - - + +
986A LEU* 1.3 78.4 - - - +
988A PRO* 1.4 63.9 - - + +
990A THR* 3.0 20.9 + - - +
991A ILE* 3.4 42.3 + - + +
1153A VAL* 5.3 3.6 - - + +
1156A LEU* 4.1 37.0 - - + +
1157A MET* 4.3 11.7 - - + +
1159A SER* 5.8 0.2 - - - +
1160A VAL* 4.3 18.2 - - + -
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Residues in contact with PRO 988 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852A TYR* 5.9 1.1 - - - +
938A VAL* 4.7 19.2 - - + +
941A LEU* 3.8 49.5 - - + +
942A ILE* 5.1 4.9 - - + -
983A LEU 3.5 15.3 - - - +
984A ASP* 3.4 22.7 - - - +
985A ASP 3.6 6.3 - - - +
986A LEU 3.5 3.4 - - - -
987A LEU* 1.4 94.3 - - + +
989A LEU* 1.3 61.4 + - + +
992A PHE* 3.5 18.5 + - - +
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Residues in contact with LEU 989 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A ALA* 4.9 13.9 - - + +
303A ARG* 3.5 52.9 - - + +
304A TYR* 5.2 2.0 - - + +
307A SER* 5.7 1.3 - - - +
938A VAL* 5.7 8.5 - - + -
985A ASP 4.1 17.5 - - - +
986A LEU* 3.6 10.0 + - + +
987A LEU 3.3 0.6 - - - -
988A PRO* 1.3 76.1 - - + +
990A THR* 1.3 58.9 + - + +
992A PHE* 3.1 14.5 + - + +
993A ASP* 2.8 33.7 + - - +
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Residues in contact with THR 990 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
986A LEU 3.5 12.9 + - - +
987A LEU* 3.0 21.3 + - - +
989A LEU* 1.3 78.8 - - + +
991A ILE* 1.3 51.8 + - - +
993A ASP* 3.7 10.1 - - + +
994A PHE* 2.8 34.1 + - - +
1149A SER* 4.9 5.5 - - - +
1152A ASP* 5.0 11.0 - - + -
1153A VAL* 3.7 22.1 - - + +
1156A LEU* 3.9 18.9 - - + +
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Residues in contact with ILE 991 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852A TYR* 4.4 7.9 - - + -
937A LEU* 4.7 1.1 - - + -
941A LEU* 3.9 33.0 - - + -
987A LEU* 3.4 40.1 + - + +
988A PRO 4.0 4.7 - - - +
989A LEU 3.2 0.6 - - - -
990A THR* 1.3 77.0 + - - +
992A PHE* 1.3 61.1 + - - +
994A PHE* 3.3 8.4 + - + +
995A ILE* 2.8 51.9 + - + +
1153A VAL* 4.7 15.9 - - + -
1157A MET* 4.8 6.7 - - + -
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Residues in contact with PHE 992 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A TYR* 3.4 47.3 - + - -
307A SER* 4.3 24.0 - - - -
308A SER* 5.0 7.2 - - - -
311A PHE* 5.1 7.0 - + - -
929A MET* 4.6 17.3 - - + -
934A GLY 4.7 3.1 - - - -
937A LEU* 4.1 27.1 - - + +
938A VAL* 4.9 7.4 - - + -
988A PRO 3.5 10.7 + - - +
989A LEU* 3.1 14.8 + - + +
991A ILE* 1.3 78.7 - - - +
993A ASP* 1.3 59.1 + - + +
995A ILE* 4.6 4.3 - - + -
996A GLN* 2.9 57.4 + - + +
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Residues in contact with ASP 993 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A PHE* 4.4 13.3 - - - -
352A ARG* 5.0 10.6 + - - -
989A LEU 2.8 18.4 + - - +
990A THR* 3.7 12.3 - - + +
992A PHE* 1.3 77.4 - - + +
994A PHE* 1.3 56.6 + - - +
996A GLN* 3.8 3.7 - - - +
997A LEU* 2.9 63.0 + - - +
1145A TRP* 4.9 1.0 - - - +
1149A SER* 4.0 12.1 - - - -
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Residues in contact with PHE 994 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
990A THR 2.8 23.0 + - - +
991A ILE* 3.5 8.5 - - + +
993A ASP* 1.3 73.5 - - - +
995A ILE* 1.3 65.6 + - + +
997A LEU* 3.7 2.1 - - - +
998A LEU* 2.8 59.6 + - + +
1146A ALA* 4.0 8.9 - - + +
1149A SER* 3.8 22.6 + - - +
1150A SER* 3.8 27.1 - - - -
1153A VAL* 4.3 13.5 - - + -
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Residues in contact with ILE 995 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
863A LEU* 6.4 1.8 - - + -
866A CYS* 4.9 9.4 - - - -
929A MET* 6.1 1.1 - - + -
937A LEU* 4.1 24.9 - - + -
991A ILE* 2.8 46.6 + - + +
992A PHE* 4.0 5.4 - - + +
994A PHE* 1.3 78.6 - - + +
996A GLN* 1.3 57.8 + - - +
998A LEU* 3.2 5.1 + - - +
999A LEU* 2.8 62.7 + - + +
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Residues in contact with GLN 996 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A PHE* 3.6 48.9 - - + -
924A ASP 4.6 0.8 + - - -
927A LEU 3.5 8.2 + - - -
928A ALA* 3.2 30.7 - - - +
929A MET* 3.4 29.7 + - - +
992A PHE* 2.9 35.1 + - + +
993A ASP* 3.8 3.4 - - - +
995A ILE* 1.3 77.2 - - - +
997A LEU* 1.3 57.1 + - - +
999A LEU* 4.0 6.6 - - - +
1000A ILE* 3.2 33.8 + - - +
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Residues in contact with LEU 997 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A PHE* 4.3 19.7 - - + -
352A ARG* 6.3 0.4 - - - +
993A ASP* 2.9 50.8 + - - +
994A PHE 4.0 2.0 - - - +
996A GLN* 1.3 73.4 - - - +
998A LEU* 1.3 60.8 + - - +
1000A ILE* 3.4 6.2 - - + +
1001A VAL* 3.2 28.2 - - - +
1142A THR* 4.1 16.4 - - + +
1145A TRP* 3.5 57.4 - - + +
1146A ALA* 3.8 19.7 - - + +
1149A SER* 4.5 1.6 - - - +
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Residues in contact with LEU 998 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
994A PHE* 2.8 46.1 + - + +
995A ILE* 3.6 6.5 - - - +
997A LEU* 1.3 72.5 - - - +
999A LEU* 1.3 62.5 + - + +
1001A VAL* 3.1 7.2 + - + +
1002A ILE* 2.8 65.1 + - + +
1146A ALA* 4.7 8.3 - - + +
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Residues in contact with LEU 999 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
866A CYS* 4.0 21.8 - - - -
867A LEU* 4.6 15.5 - - + -
870A PHE* 3.2 56.6 - - + -
927A LEU* 4.4 4.0 - - - +
929A MET* 4.7 12.1 - - + -
995A ILE* 2.8 44.4 + - + +
996A GLN* 4.0 7.4 - - - +
998A LEU* 1.3 78.2 - - + +
1000A ILE* 1.3 54.1 + - - +
1002A ILE* 3.8 7.0 - - + -
1003A GLY* 2.8 29.1 + - - -
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Residues in contact with ILE1000 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A PHE* 5.5 2.5 - - + -
923A ALA* 4.1 19.7 - - + +
924A ASP* 3.6 42.2 - - + +
927A LEU* 3.8 18.8 + - + +
996A GLN* 3.2 17.9 + - + +
997A LEU* 3.4 22.7 - - + +
999A LEU* 1.3 77.6 - - - +
1001A VAL* 1.3 65.3 - - + +
1004A ALA* 3.0 32.5 + - + +
1139A ILE* 5.4 2.2 - - + -
1142A THR* 4.3 25.4 - - + +
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Residues in contact with VAL1001 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
997A LEU 3.2 17.0 - - - +
998A LEU* 3.1 10.6 + - + +
1000A ILE* 1.3 75.4 - - + +
1002A ILE* 1.3 61.4 + - - +
1004A ALA* 3.2 1.4 + - - +
1005A ILE* 2.8 41.5 + - + +
1139A ILE* 4.2 17.8 - - + +
1142A THR* 3.6 24.0 - - - +
1143A LEU* 4.2 36.1 - - + +
1146A ALA* 4.8 3.4 - - + -
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Residues in contact with ILE1002 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
870A PHE* 3.9 14.4 - - + -
998A LEU* 2.8 46.1 + - + +
999A LEU* 3.6 12.1 - - + +
1001A VAL* 1.3 74.5 - - - +
1003A GLY* 1.3 63.0 + - - +
1005A ILE* 3.5 11.1 - - + +
1006A ALA* 3.3 23.6 + - - +
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Residues in contact with GLY1003 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
870A PHE* 3.6 15.3 - - - -
874A VAL* 4.3 4.4 - - - +
927A LEU* 3.5 15.0 - - - -
999A LEU 2.8 20.1 + - - -
1002A ILE* 1.3 76.2 - - - +
1004A ALA* 1.3 62.1 + - - +
1006A ALA* 3.4 5.2 + - - +
1007A VAL* 3.1 28.9 + - - +
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Residues in contact with ALA1004 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
923A ALA* 4.7 6.7 - - + -
927A LEU* 3.5 7.0 - - + +
1000A ILE* 3.0 21.9 + - + +
1001A VAL 3.8 2.5 - - - +
1003A GLY* 1.3 73.5 - - - +
1005A ILE* 1.3 64.1 + - - +
1007A VAL* 3.3 10.8 - - - +
1008A VAL* 3.1 30.3 + - - +
1135A LEU* 4.2 17.3 - - + +
1139A ILE* 3.9 19.5 - - + -
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Residues in contact with ILE1005 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1001A VAL* 2.8 32.9 + - + +
1002A ILE* 3.5 19.5 - - + +
1004A ALA* 1.3 72.5 - - - +
1006A ALA* 1.3 63.6 - - - +
1008A VAL* 4.0 6.8 + - + +
1009A ALA* 3.2 22.0 + - - +
1015A ILE* 5.5 0.6 - - + +
1019A THR* 3.7 32.4 - - + +
1022A VAL* 6.3 3.1 - - + -
1023A ILE* 4.7 16.8 - - + -
1110A PHE* 4.2 20.2 - - + -
1139A ILE* 4.8 5.1 - - + +
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Residues in contact with ALA1006 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
874A VAL* 5.2 4.9 - - + -
1002A ILE* 3.3 16.7 + - + +
1003A GLY* 3.5 6.7 - - - +
1004A ALA 3.2 0.4 - - - -
1005A ILE* 1.3 80.9 - - + +
1007A VAL* 1.3 56.5 + - + +
1009A ALA* 2.8 27.0 + - - +
1010A VAL* 2.8 24.7 + - + +
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Residues in contact with VAL1007 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
874A VAL* 3.5 32.8 - - + +
877A SER* 4.7 9.4 - - - -
878A LEU* 3.9 20.0 - - + -
881A LEU* 5.8 5.6 - - + -
920A VAL* 6.4 2.0 - - + -
927A LEU* 5.5 4.7 - - + -
1003A GLY 3.1 8.5 + - - +
1004A ALA* 3.3 17.0 - - - +
1006A ALA* 1.3 78.7 - - + +
1008A VAL* 1.3 60.5 + - - +
1010A VAL* 3.6 10.7 + - - +
1011A LEU* 3.2 28.3 - - + +
1131A ILE* 6.5 0.4 - - + -
1132A ILE* 5.0 0.5 - - - +
1135A LEU* 3.9 20.4 - - + -
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Residues in contact with VAL1008 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1004A ALA* 3.1 19.0 + - + +
1005A ILE* 4.0 7.6 - - + +
1007A VAL* 1.3 76.6 - - - +
1009A ALA* 1.3 61.7 + - - +
1010A VAL 3.4 0.2 + - - -
1011A LEU* 3.5 4.2 + - - +
1012A GLN 3.4 19.4 + - - +
1015A ILE* 3.6 30.9 - - + +
1110A PHE* 5.8 3.4 - - + -
1114A VAL* 4.9 4.9 - - + -
1131A ILE* 6.4 0.2 - - + -
1132A ILE* 3.8 35.6 - - + +
1135A LEU* 4.0 28.3 - - + -
1136A ALA* 5.1 5.6 - - + +
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Residues in contact with ALA1009 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1005A ILE 3.2 17.3 + - - +
1006A ALA* 2.8 14.4 + - - +
1008A VAL* 1.3 73.2 - - - +
1010A VAL* 1.3 60.8 + - - +
1012A GLN 3.0 22.5 - - - +
1013A PRO* 3.6 8.7 - - - +
1015A ILE* 4.5 9.4 - - + -
1016A PHE* 4.3 36.6 - - + +
1019A THR* 5.2 3.6 - - + -
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Residues in contact with VAL1010 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
878A LEU* 3.8 39.5 - - + -
1006A ALA* 2.8 27.8 + - + +
1007A VAL* 3.9 10.5 - - + +
1008A VAL 3.3 0.4 - - - -
1009A ALA* 1.3 74.4 - - + +
1011A LEU* 1.3 67.8 + - + +
1013A PRO* 4.5 5.5 - - - +
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Residues in contact with LEU1011 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
878A LEU* 5.3 5.4 - - + -
881A LEU* 4.2 35.9 - - + +
1007A VAL* 3.2 22.7 - - - +
1008A VAL 3.5 6.3 + - - +
1009A ALA 3.4 0.2 - - - -
1010A VAL* 1.3 92.0 - - + +
1012A GLN* 1.3 60.4 + - - +
1013A PRO* 3.5 9.2 - - - +
1128A ARG* 3.9 53.1 + - + +
1131A ILE* 5.2 4.9 - - + -
1132A ILE* 3.8 25.4 - - + -
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Residues in contact with GLN1012 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008A VAL 3.4 3.8 + - - +
1009A ALA* 3.0 14.4 - - - +
1011A LEU* 1.3 82.1 - - + +
1013A PRO* 1.3 68.2 - - + +
1014A TYR* 3.3 4.7 + - + +
1015A ILE* 3.5 39.8 + - + +
1117A ILE* 4.2 6.4 - - + +
1118A SER* 3.5 44.1 + - - +
1121A THR* 4.0 11.9 + - - -
1123A GLY* 5.7 5.5 - - - -
1128A ARG* 5.0 19.5 + - + +
1129A VAL* 6.1 2.2 - - - +
1132A ILE* 4.7 12.6 - - + +
----------------------------------------------------------
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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