Contacts of the helix formed by residues 82 - 111 (chain 1) in PDB entry 2X17
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 SER 82 (chain 1).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301 TYR* 3.3 7.7 + - - -
801 TRP* 3.3 1.3 - - - +
811 GLU* 1.3 80.2 - - - +
831 PRO* 1.4 69.4 - - - +
841 LEU* 3.7 12.0 + - - +
851 LYS* 2.9 26.5 + - - +
861 ALA* 2.9 27.0 + - - +
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Residues in contact with PRO 83 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301 TYR* 3.6 8.5 - - + +
311 PHE* 3.6 30.3 - - + -
341 LEU* 4.2 8.3 - - + -
361 LEU* 4.1 17.9 - - + -
391 PHE* 5.2 0.9 - - + -
821 SER* 1.4 88.3 - - - +
841 LEU* 1.3 58.9 + - - +
861 ALA* 3.4 3.3 + - + +
871 PHE* 3.1 22.2 + - - -
1411 LEU* 3.5 19.1 - - + +
1511 LEU* 4.3 26.0 - - + -
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Residues in contact with LEU 84 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821 SER* 3.7 10.3 + - - +
831 PRO* 1.3 81.2 - - - +
851 LYS* 1.3 60.7 + - + +
871 PHE* 3.4 2.8 + - - +
881 GLU* 2.9 48.9 + - - +
1381 LEU* 3.9 9.2 - - + +
1411 LEU* 3.8 25.9 - - + +
1421 LYS* 3.7 44.0 - - + +
1451 LYS* 5.4 11.9 - - + -
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Residues in contact with LYS 85 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801 TRP* 3.9 6.8 - - + -
811 GLU* 4.3 32.1 - - + +
821 SER* 2.9 25.8 + - - +
841 LEU* 1.3 81.1 - - + +
861 ALA* 1.3 60.2 + - - +
881 GLU* 3.5 26.8 + - + +
891 ALA* 3.0 28.6 + - - +
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Residues in contact with ALA 86 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271 MET* 3.4 17.0 - - + +
301 TYR* 3.9 16.6 - - + -
311 PHE* 3.9 22.9 - - + -
801 TRP* 3.8 22.3 - - + +
821 SER 2.9 11.5 + - - +
831 PRO 3.6 8.5 - - - +
851 LYS* 1.3 77.3 - - - +
871 PHE* 1.3 57.9 + - - +
891 ALA* 3.4 1.2 + - - +
901 ALA* 3.0 21.5 + - - +
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Residues in contact with PHE 87 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311 PHE* 3.7 14.8 - + - -
391 PHE* 3.5 30.5 - + - -
421 TRP* 4.4 13.5 - + - -
431 MET* 3.6 27.1 - - + -
831 PRO 3.1 21.3 + - - +
841 LEU 3.4 2.7 + - - +
861 ALA* 1.3 74.0 - - - +
881 GLU* 1.3 60.4 + - - +
891 ALA 3.2 1.1 - - - -
901 ALA* 3.6 4.4 - - - +
911 TYR* 3.0 29.3 + - - +
1341 VAL* 3.9 31.9 - - + +
1371 ILE* 3.7 39.0 - - + -
1381 LEU* 3.4 13.0 - - + +
1411 LEU* 3.7 16.6 - - + -
1581 LEU* 4.9 1.3 - - + -
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Residues in contact with GLU 88 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
841 LEU* 2.9 41.9 + - - +
851 LYS* 3.5 36.0 + - + +
861 ALA 3.4 0.2 - - - -
871 PHE* 1.3 77.3 - - - +
891 ALA* 1.3 60.9 + - - +
911 TYR* 3.8 2.6 + - - +
921 GLU* 3.4 21.8 + - - +
1381 LEU* 3.8 23.3 - - + -
1421 LYS* 4.2 14.2 - - - -
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Residues in contact with ALA 89 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231 LEU* 5.2 1.0 - - - +
271 MET* 4.2 6.5 - - + +
801 TRP* 3.4 31.4 - - + +
851 LYS 3.0 13.2 + - - +
861 ALA 3.5 3.1 - - - +
881 GLU* 1.3 76.7 - - - +
901 ALA* 1.3 62.1 + - - +
921 GLU* 3.6 9.1 + - - +
931 HIS* 3.2 21.5 + - - +
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Residues in contact with ALA 90 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241 TYR* 3.6 18.8 + - + -
271 MET* 3.8 20.2 - - + +
431 MET* 4.5 7.2 - - + -
861 ALA 3.0 16.2 + - - +
871 PHE* 3.7 10.5 - - + +
881 GLU 3.4 0.2 - - - -
891 ALA* 1.3 77.9 - - - +
911 TYR* 1.3 56.7 + - - +
931 HIS* 3.3 6.2 + - - +
941 GLU* 3.0 30.3 + - - +
1341 VAL* 4.1 12.3 - - + -
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Residues in contact with TYR 91 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
871 PHE 3.0 18.2 + - - +
881 GLU 4.1 3.4 - - - +
901 ALA* 1.3 74.6 - - - +
921 GLU* 1.3 59.9 + - - +
941 GLU* 3.4 3.3 + - + +
951 LYS* 3.1 54.7 + - + +
1311 GLU* 3.5 48.2 + - + +
1341 VAL* 3.8 10.7 - - + +
1351 LYS* 3.6 36.9 - - + +
1381 LEU* 3.6 20.4 - - + -
16 MET* 3.3 25.5 + - + +
656 ASN* 4.7 5.0 - - - +
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Residues in contact with GLU 92 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
881 GLU 3.4 16.1 + - - +
891 ALA* 3.9 8.6 - - - +
901 ALA 3.3 0.6 - - - -
911 TYR* 1.3 78.2 - - - +
931 HIS* 1.3 60.2 + - - +
951 LYS* 3.4 17.6 + - + +
961 PHE* 2.9 27.3 + - - +
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Residues in contact with HIS 93 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161 ARG 5.0 0.4 - - - -
191 TYR* 3.7 31.5 - + - -
201 SER* 2.8 35.9 + - - -
231 LEU* 3.5 23.5 - - + +
241 TYR* 3.8 15.7 - + - -
891 ALA 3.2 12.8 + - - +
901 ALA* 3.5 9.6 - - - +
911 TYR 3.3 0.2 - - - -
921 GLU* 1.3 79.2 - - - +
941 GLU* 1.3 58.7 + - - +
961 PHE* 3.2 29.0 + + - +
971 ILE* 2.8 37.1 + - + +
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Residues in contact with GLU 94 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201 SER* 5.6 0.3 + - - -
241 TYR* 2.5 33.5 + - - +
501 GLU* 4.0 3.5 - - - +
901 ALA 3.0 11.2 + - - +
911 TYR* 3.6 10.8 - - + +
921 GLU 3.3 0.2 - - - -
931 HIS* 1.3 80.9 - - - +
951 LYS* 1.3 52.2 + - - +
971 ILE* 4.5 4.4 - - - +
981 SER* 2.7 37.2 + - - -
1271 GLN* 2.8 31.2 + - - +
1301 GLU* 3.0 37.8 - - - +
1311 GLU* 4.1 17.0 - - + -
1341 VAL* 4.0 19.3 - - + -
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Residues in contact with LYS 95 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
911 TYR* 3.1 47.5 + - + +
921 GLU* 3.7 17.9 - - + +
931 HIS 3.3 0.2 - - - -
941 GLU* 1.3 74.1 - - - +
961 PHE* 1.3 59.4 + - - +
981 SER* 3.9 6.8 - - - -
991 LYS* 3.1 30.7 + - - +
1311 GLU* 3.7 22.0 - - - +
16 MET* 4.3 25.2 - - + +
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Residues in contact with PHE 96 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161 ARG* 4.3 26.2 - - + -
191 TYR* 5.9 2.2 - + - -
921 GLU* 2.9 15.5 + - - +
931 HIS* 3.2 33.4 + + - +
951 LYS* 1.3 75.6 - - - +
971 ILE* 1.3 76.6 + - + +
991 LYS* 3.4 6.5 + - + +
1001 SER* 3.1 24.7 + - - -
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Residues in contact with ILE 97 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131 GLN* 3.9 5.6 - - - +
161 ARG* 4.0 26.0 - - + +
171 GLU* 3.7 23.8 - - - +
201 SER* 3.4 26.0 - - - +
501 GLU* 5.5 1.6 - - - +
931 HIS* 2.8 36.6 + - + +
941 GLU* 4.0 9.0 - - - +
961 PHE* 1.3 81.0 - - + +
981 SER* 1.3 64.9 + - - +
1001 SER* 2.7 18.8 + - - +
1011 ILE* 3.0 14.7 + - + +
1271 GLN* 3.8 23.3 - - - +
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Residues in contact with SER 98 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941 GLU 2.7 21.7 + - - -
951 LYS* 3.9 5.6 - - - -
961 PHE 3.4 0.2 - - - -
971 ILE* 1.3 76.4 - - - +
991 LYS* 1.3 57.3 + - - +
1011 ILE* 3.2 9.4 + - - +
1021 TYR* 2.9 48.1 + - - -
1271 GLN* 3.1 26.0 + - - +
1311 GLU* 2.7 24.0 + - - -
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Residues in contact with LYS 99 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
951 LYS 3.1 19.5 + - - +
961 PHE* 3.8 6.5 - - + +
971 ILE 3.2 0.4 - - - -
981 SER* 1.3 73.9 - - - +
1001 SER* 1.3 61.5 + - - +
1021 TYR* 3.3 20.0 + - + +
1031 GLU* 3.2 34.6 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131 GLN* 3.0 23.2 + - - +
161 ARG* 3.8 25.2 + - - -
961 PHE* 3.1 19.2 + - - -
971 ILE* 2.7 24.9 + - - -
991 LYS* 1.3 73.9 - - - +
1011 ILE* 1.3 61.6 + - - +
1021 TYR 3.3 0.2 - - - -
1031 GLU* 3.7 7.8 + - - +
1041 LEU* 3.3 26.3 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131 GLN* 3.8 19.1 - - + +
171 GLU* 4.4 3.6 - - - +
571 PHE* 3.8 28.5 - - + -
971 ILE* 3.0 24.9 + - + +
981 SER* 3.2 12.1 + - - +
1001 SER* 1.3 75.9 - - - +
1021 TYR* 1.3 65.2 + - + +
1041 LEU* 3.4 5.6 + - + +
1051 ALA* 3.1 20.8 + - - +
1201 LEU* 4.1 13.2 - - + +
1231 PHE* 4.0 27.6 - - + -
1241 ILE* 3.9 28.9 - - + +
1271 GLN* 4.7 5.6 - - + -
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Residues in contact with TYR 102 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
951 LYS 5.9 0.2 - - - -
981 SER* 2.9 39.2 + - - -
991 LYS* 3.3 25.3 + - + +
1011 ILE* 1.3 82.6 - - + +
1031 GLU* 1.3 58.5 + - + +
1051 ALA* 3.2 5.7 + - - +
1061 ALA* 2.8 28.2 + - - +
1241 ILE* 4.5 10.3 - - + -
1311 GLU* 4.7 1.2 + - - -
646 ARG* 3.4 16.9 + - - -
1126 LYS* 5.5 4.9 - - + -
1136 ASP* 5.8 1.1 - - - -
1146 TYR* 3.6 46.2 - + + -
1156 SER* 2.6 30.7 + - - -
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Residues in contact with GLU 103 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
991 LYS* 3.2 21.5 + - + +
1001 SER* 3.7 8.1 + - - +
1011 ILE 3.3 0.2 - - - -
1021 TYR* 1.3 75.0 - - + +
1041 LEU* 1.3 60.3 + - - +
1061 ALA* 3.7 8.5 - - + +
1071 LEU* 2.9 29.1 + - - +
1126 LYS* 6.4 2.0 - - - +
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Residues in contact with LEU 104 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61 MET* 4.1 12.2 - - - +
91 ALA* 3.8 32.5 - - + +
101 LEU* 3.9 22.0 - - + -
131 GLN* 3.7 37.5 - - + +
161 ARG* 5.4 1.1 - - - +
571 PHE* 4.2 4.5 - - + -
1001 SER 3.3 14.8 + - - +
1011 ILE* 3.5 10.3 - - + +
1021 TYR 3.3 0.6 - - - -
1031 GLU* 1.3 77.7 - - - +
1051 ALA* 1.3 57.3 + - - +
1071 LEU* 3.7 5.3 - - + +
1081 ALA* 3.0 28.9 + - - +
1201 LEU* 3.6 26.6 - - + +
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Residues in contact with ALA 105 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1011 ILE 3.1 13.7 + - - +
1021 TYR* 3.4 11.0 - - - +
1041 LEU* 1.3 76.2 - - - +
1061 ALA* 1.3 59.0 + - - +
1081 ALA* 3.6 0.4 + - - -
1091 GLU* 3.1 33.1 + - - +
1171 ARG* 3.6 29.1 - - - +
1201 LEU* 3.7 12.1 - - + +
1241 ILE* 4.4 9.9 - - + -
1146 TYR* 4.3 12.3 - - + -
----------------------------------------------------------
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Residues in contact with ALA 106 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1021 TYR 2.8 16.5 + - - +
1031 GLU* 3.7 10.8 - - + +
1051 ALA* 1.3 74.8 - - - +
1071 LEU* 1.3 63.1 + - - +
1091 GLU* 3.6 5.0 + - - +
1101 GLU* 3.3 22.3 + - - +
1126 LYS* 4.5 15.5 - - - +
1146 TYR* 3.5 19.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51 ARG* 3.8 40.4 - - + +
61 MET* 3.8 20.2 - - + -
91 ALA* 3.9 27.6 - - + -
1031 GLU 2.9 17.9 + - - +
1041 LEU* 3.7 6.1 - - + +
1061 ALA* 1.3 75.9 - - - +
1081 ALA* 1.3 59.3 + - - +
1101 GLU* 3.4 14.4 + - - +
1111 GLU* 3.1 37.5 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61 MET* 3.6 17.6 - - + +
1041 LEU 3.0 17.6 + - - +
1051 ALA* 3.9 4.9 - - - +
1061 ALA 3.4 0.2 - - - -
1071 LEU* 1.3 76.9 - - - +
1091 GLU* 1.3 61.1 + - - +
1111 GLU 3.6 0.2 + - - -
1121 LYS 3.2 2.4 + - - -
1131 ASP* 2.8 47.9 + - - +
1161 THR* 4.2 6.5 - - + -
1171 ARG* 3.8 21.5 - - + +
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Residues in contact with GLU 109 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1051 ALA 3.1 19.7 + - - +
1061 ALA* 3.9 5.4 - - - +
1071 LEU 3.3 0.2 - - - -
1081 ALA* 1.3 75.8 - - - +
1101 GLU* 1.3 62.2 + - - +
1121 LYS* 3.5 14.7 + - - +
1171 ARG* 3.2 33.8 + - + +
1146 TYR* 3.3 29.1 + - - -
----------------------------------------------------------
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Residues in contact with GLU 110 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1061 ALA 3.3 15.4 + - - +
1071 LEU* 3.8 15.1 - - - +
1081 ALA 3.3 0.4 - - - -
1091 GLU* 1.3 77.1 - - - +
1111 GLU* 1.3 61.2 + - + +
1121 LYS* 3.0 17.7 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31 SER* 2.8 31.7 + - - -
51 ARG* 3.6 29.3 - - - +
61 MET* 3.6 23.0 + - - +
1071 LEU* 3.1 24.8 + - + +
1081 ALA 3.6 3.6 + - - +
1101 GLU* 1.3 75.1 - - + +
1121 LYS* 1.3 69.4 + - - +
1131 ASP* 3.4 10.9 + - + +
----------------------------------------------------------
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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