Contacts of the helix formed by residues 979 - 1007 (chain A) in PDB entry 1OW8
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 THR 979 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
975A LEU* 4.5 1.0 - - - +
976A PRO* 2.7 27.0 + - + +
978A SER* 1.3 79.9 - - - +
980A HIS* 1.3 71.0 + - - +
981A ARG 2.9 4.5 + - - -
982A GLU* 3.3 19.5 + - - +
983A ILE* 3.4 20.5 + - - +
1037A VAL* 5.6 2.7 - - - -
1041A ALA* 3.9 30.7 - - + +
1044A LYS* 4.2 25.4 - - + +
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Residues in contact with HIS 980 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
972A ILE* 3.2 39.9 + - + +
973A PRO* 4.7 5.6 - - + -
975A LEU* 2.5 27.8 + - + -
976A PRO 3.0 21.7 + - - -
977A ALA* 3.1 27.9 + - + +
979A THR* 1.3 80.3 + - - +
981A ARG* 1.3 58.2 + - - +
983A ILE* 3.9 8.7 - - + +
984A GLU* 2.8 37.7 + - - +
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Residues in contact with ARG 981 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
977A ALA 4.8 0.6 + - - -
978A SER 5.1 1.0 + - - -
979A THR 2.9 1.0 + - - -
980A HIS* 1.3 75.9 - - + +
982A GLU* 1.3 68.2 + - - +
983A ILE 3.0 1.6 - - - -
984A GLU* 3.5 18.2 - - + +
985A MET* 2.9 61.8 + - - +
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Residues in contact with GLU 982 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
978A SER 5.7 0.2 + - - -
979A THR* 3.3 14.4 + - - +
981A ARG* 1.3 76.5 - - - +
983A ILE* 1.3 57.4 + - - +
985A MET* 3.2 7.4 + - + +
986A ALA* 3.0 27.4 + - - +
1037A VAL* 4.0 32.9 - - + +
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Residues in contact with ILE 983 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
968A VAL* 3.8 27.6 - - + -
972A ILE* 4.0 15.5 - - + -
975A LEU* 4.0 19.5 - - + -
979A THR* 3.4 21.1 + - - +
980A HIS* 3.9 9.0 - - + +
981A ARG 3.0 0.2 - - - -
982A GLU* 1.3 74.2 - - - +
984A GLU* 1.3 67.0 + - - +
985A MET 3.0 1.6 - - - -
986A ALA* 3.3 8.6 + - - +
987A GLN* 2.9 28.0 + - - +
1034A LEU* 4.4 5.4 - - + -
1037A VAL* 3.4 25.8 - - + -
1038A ILE* 3.6 23.8 - - + -
1041A ALA* 4.7 1.8 - - + -
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Residues in contact with GLU 984 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
972A ILE* 4.3 16.0 - - - +
980A HIS* 2.8 30.8 + - - +
981A ARG* 3.0 22.5 + - + +
983A ILE* 1.3 80.2 - - - +
985A MET* 1.3 60.1 + - + +
987A GLN* 3.4 16.9 + - + +
988A LYS* 3.2 27.0 + - - +
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Residues in contact with MET 985 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
981A ARG* 2.9 48.6 + - - +
982A GLU* 3.5 9.6 - - - +
984A GLU* 1.3 76.9 - - - +
986A ALA* 1.3 66.8 + - - +
987A GLN 3.0 1.3 - - - -
988A LYS* 3.1 39.9 + - + +
989A LEU* 3.0 24.0 + - - +
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Residues in contact with ALA 986 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
982A GLU 3.0 13.0 + - - +
983A ILE* 3.6 4.3 - - - +
985A MET* 1.3 77.2 - - - +
987A GLN* 1.3 62.5 + - - +
989A LEU* 3.4 12.1 + - - +
990A LEU* 3.2 28.4 + - - +
1030A ASP* 5.3 2.7 - - - +
1033A ASN* 5.0 9.0 - - - +
1034A LEU* 3.5 36.1 - - + +
1037A VAL* 5.1 4.5 - - + -
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Residues in contact with GLN 987 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
965A LEU* 3.4 43.8 + - + +
968A VAL* 3.9 23.0 - - + +
969A ASP* 3.0 25.0 + - - +
972A ILE* 3.7 20.6 - - - +
983A ILE* 2.9 15.0 + - - +
984A GLU* 3.4 21.3 - - - +
985A MET 3.0 0.4 - - - -
986A ALA* 1.3 76.5 - - - +
988A LYS* 1.3 64.0 + - - +
989A LEU 3.3 0.3 + - - -
990A LEU* 3.3 7.6 + - - +
991A ASN* 3.3 23.7 + - - +
1034A LEU* 4.5 5.8 - - + -
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Residues in contact with LYS 988 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
984A GLU 3.2 13.0 + - - +
985A MET* 3.1 46.5 + - - +
987A GLN* 1.3 77.1 - - - +
989A LEU* 1.3 57.2 + - - +
991A ASN* 3.0 12.0 + - + +
992A SER* 2.9 29.6 + - - -
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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
----------------------------------------------------------
985A MET 3.0 12.6 + - - +
986A ALA* 3.4 14.8 - - - +
988A LYS* 1.3 75.1 - - - +
990A LEU* 1.3 66.2 + - - +
992A SER* 3.0 13.7 + - - +
993A ASP* 2.9 36.9 + - - +
1030A ASP* 3.0 36.3 - - + +
1033A ASN* 6.1 1.6 - - + +
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Residues in contact with LEU 990 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931A LEU* 4.8 0.2 - - + -
961A LEU* 3.7 25.1 - - + +
964A LEU* 4.3 4.3 - - + -
965A LEU* 4.1 12.1 - - + -
986A ALA 3.2 11.1 + - - +
987A GLN 3.5 7.0 - - - +
989A LEU* 1.3 79.2 - - - +
991A ASN* 1.3 61.5 + - - +
993A ASP* 3.1 2.7 + - - -
994A LEU 3.1 18.0 + - - -
1027A LEU* 3.6 32.9 - - + +
1030A ASP* 3.7 9.4 - - + +
1031A ALA* 3.3 39.7 - - + +
1034A LEU* 3.5 33.9 - - + -
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Residues in contact with ASN 991 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
961A LEU* 4.3 8.1 - - - +
965A LEU* 3.5 30.4 - - - +
987A GLN* 3.3 11.9 + - - +
988A LYS* 3.0 13.6 + - - +
990A LEU* 1.3 79.0 - - - +
992A SER* 1.3 59.5 + - - +
994A LEU* 3.4 6.6 + - - +
995A GLY* 2.9 24.3 + - - -
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Residues in contact with SER 992 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
988A LYS 2.9 11.8 + - - -
989A LEU* 3.2 18.8 - - - +
991A ASN* 1.3 78.7 - - - +
993A ASP* 1.3 56.7 + - - -
995A GLY* 2.9 4.6 + - - -
996A GLU* 2.9 39.2 + - - +
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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
----------------------------------------------------------
989A LEU* 2.9 33.9 + - - +
990A LEU 3.1 0.6 + - - +
992A SER* 1.3 73.0 + - - +
994A LEU* 1.3 62.6 + - - +
995A GLY 2.9 2.0 - - - -
996A GLU* 3.3 14.9 + - - +
997A LEU* 2.9 28.1 + - - +
1023A ALA* 4.5 7.1 - - - +
1026A ALA* 3.0 26.0 - - - +
1027A LEU* 3.5 28.2 - - + +
1030A ASP* 2.8 23.8 - - - +
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Residues in contact with LEU 994 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
954A VAL* 4.6 5.2 - - + +
957A VAL* 4.3 9.4 - - + -
958A GLY* 3.7 31.6 - - - +
961A LEU* 3.8 21.8 - - + -
962A ARG* 5.2 6.5 - - + +
990A LEU 3.1 15.0 + - - +
991A ASN* 3.8 7.2 - - - +
993A ASP* 1.3 77.3 - - - +
995A GLY* 1.3 63.6 + - - +
997A LEU* 4.3 20.2 - - + -
998A ILE* 3.0 47.9 + - + +
1027A LEU* 4.4 6.5 - - + -
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Residues in contact with GLY 995 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
991A ASN 2.9 14.6 + - - -
992A SER* 2.9 8.2 + - - -
994A LEU* 1.3 79.7 - - - +
996A GLU* 1.3 62.2 + - - -
997A LEU 3.0 0.5 + - - -
998A ILE* 3.1 6.3 + - - +
999A ASN* 3.0 27.2 + - - +
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Residues in contact with GLU 996 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
992A SER* 2.9 27.3 + - - +
993A ASP* 3.3 15.9 + - - +
995A GLY* 1.3 70.6 - - - +
997A LEU* 1.3 59.9 + - - +
998A ILE 3.3 0.2 - - - -
999A ASN* 3.4 15.0 - - - +
1000A LYS* 3.0 39.2 + - + +
1023A ALA* 4.2 11.0 - - + +
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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
----------------------------------------------------------
938A MET* 3.9 25.6 - - + -
954A VAL* 4.3 25.1 - - + -
957A VAL* 4.2 19.7 - - + -
993A ASP 2.9 16.3 + - - +
994A LEU* 3.8 10.1 - - + +
995A GLY 3.1 0.4 - - - -
996A GLU* 1.3 75.2 - - - +
998A ILE* 1.3 67.8 + - - +
1000A LYS* 3.2 1.9 + - - -
1001A MET* 2.9 20.6 + - - +
1020A MET* 3.7 39.7 - - + +
1023A ALA* 3.6 12.8 - - + -
1024A ALA* 4.4 9.9 - - - +
1027A LEU* 4.5 3.6 - - + -
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Residues in contact with ILE 998 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
954A VAL* 4.1 20.2 - - + -
994A LEU* 3.0 40.7 + - + +
995A GLY* 3.6 5.2 - - - +
997A LEU* 1.3 76.9 - - - +
999A ASN* 1.3 67.7 + - - +
1001A MET* 3.1 18.2 + - + +
1002A LYS* 3.1 47.1 + - + +
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Residues in contact with ASN 999 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
995A GLY 3.0 16.5 + - - +
996A GLU* 3.4 20.8 - - - +
998A ILE* 1.3 80.7 - - - +
1000A LYS* 1.3 68.3 + - + +
1002A LYS* 3.1 18.5 + - - +
1003A LEU* 3.2 20.7 + - + +
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Residues in contact with LYS1000 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
996A GLU* 3.0 24.5 - - - +
997A LEU* 3.2 4.5 + - - +
999A ASN* 1.3 75.5 - - + +
1001A MET* 1.3 66.1 + - - +
1002A LYS 3.0 1.3 - - - -
1003A LEU* 3.3 19.3 + - + +
1004A ALA* 3.0 23.9 + - - +
1016A TYR* 4.5 6.4 - - + +
1019A GLN* 3.0 51.9 + - + +
1020A MET* 4.0 24.3 - - + +
1023A ALA* 5.2 1.3 - - + -
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Residues in contact with MET1001 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950A TYR* 4.0 20.5 - - + -
951A VAL* 3.4 42.0 - - + -
954A VAL* 3.9 18.2 - - + -
997A LEU 2.9 13.0 + - - +
998A ILE* 3.1 34.5 + - + +
1000A LYS* 1.3 79.8 - - - +
1002A LYS* 1.3 74.1 + - + +
1004A ALA* 3.6 3.0 + - - +
1005A GLN* 3.2 25.6 + - - +
1020A MET* 3.8 22.5 - - + +
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Residues in contact with LYS1002 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
998A ILE* 3.1 37.0 + - + +
999A ASN* 3.6 11.4 - - - +
1000A LYS 3.0 0.8 - - - -
1001A MET* 1.3 85.7 - - + +
1003A LEU* 1.3 70.2 + - - +
1005A GLN* 3.1 18.6 + - - +
1006A GLN* 3.0 23.5 + - - +
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Residues in contact with LEU1003 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
999A ASN* 3.2 14.9 + - + +
1000A LYS* 3.6 21.5 - - + +
1002A LYS* 1.3 78.5 - - - +
1004A ALA* 1.3 63.7 + - - +
1006A GLN* 2.9 34.0 + - - +
1007A TYR* 3.1 30.6 + - + +
1016A TYR* 3.8 38.8 - - + +
1019A GLN* 5.2 0.2 - - - +
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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
----------------------------------------------------------
950A TYR* 3.1 25.6 + - + +
1000A LYS 3.0 15.5 + - - +
1001A MET 3.7 8.7 - - - +
1002A LYS 3.4 0.2 - - - -
1003A LEU* 1.3 72.1 - - - +
1005A GLN* 1.3 60.0 + - - +
1007A TYR* 3.5 4.9 + - - +
1008A VAL* 3.2 19.8 + - - -
1013A GLN* 4.8 9.0 - - + +
1016A TYR* 3.8 21.0 - - + +
1017A LYS* 4.5 7.6 - - + +
1020A MET* 4.4 11.0 - - - -
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Residues in contact with GLN1005 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
947A PRO* 3.9 27.5 - - + +
950A TYR* 3.3 9.7 + - + +
951A VAL* 4.0 23.5 - - + +
1001A MET* 3.2 21.0 + - - +
1002A LYS* 3.1 22.1 + - - +
1003A LEU 3.0 1.6 + - - -
1004A ALA* 1.3 73.3 - - - +
1006A GLN* 1.3 66.2 + - - +
1007A TYR 3.3 0.3 + - - -
1008A VAL* 3.3 20.3 + - - +
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Residues in contact with GLN1006 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1002A LYS* 3.0 9.6 + - - +
1003A LEU* 2.9 31.4 + - - +
1005A GLN* 1.3 76.5 - - - +
1007A TYR* 1.3 89.2 + - + +
1008A VAL* 3.7 2.3 + - - +
1010A THR* 5.2 1.0 - - - +
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Residues in contact with TYR1007 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1003A LEU* 3.1 34.8 + - + +
1004A ALA 3.6 5.6 - - - +
1005A GLN 3.2 0.2 - - - -
1006A GLN* 1.3 102.2 + - + +
1008A VAL* 1.3 64.0 + - - +
1009A MET 3.5 0.2 + - - -
1010A THR* 3.1 39.3 + - + +
1012A LEU* 4.5 18.8 - - + -
1013A GLN* 3.5 11.7 - - - +
1016A TYR* 3.2 42.9 + + + -
----------------------------------------------------------
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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