Contacts of the helix formed by residues 82 - 111 (chain 3) 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 3).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303 TYR* 3.4 7.5 + - - -
803 TRP* 3.3 1.6 - - - +
813 GLU* 1.3 79.8 - - - +
833 PRO* 1.4 70.1 - - - +
843 LEU* 3.6 13.2 + - - +
853 LYS* 3.0 28.7 + - - +
863 ALA* 2.9 27.7 + - - +
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Residues in contact with PRO 83 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303 TYR* 3.7 8.3 - - + +
313 PHE* 3.8 22.7 - - + -
343 LEU* 4.1 13.0 - - + -
363 LEU* 4.1 21.3 - - + -
393 PHE* 5.2 0.7 - - + -
823 SER* 1.4 88.0 - - - +
843 LEU* 1.3 60.2 + - - +
863 ALA* 3.5 4.9 + - + +
873 PHE* 3.4 19.1 + - - -
1413 LEU* 3.4 29.5 - - + +
1513 LEU* 4.3 17.0 - - + -
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Residues in contact with LEU 84 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
823 SER* 3.0 12.0 + - - +
833 PRO* 1.3 79.3 - - - +
853 LYS* 1.3 68.9 + - + +
873 PHE* 3.4 4.7 + - - +
883 GLU* 3.2 45.8 + - - +
1383 LEU* 4.0 8.1 - - + +
1413 LEU* 3.8 23.2 - - + +
1423 LYS* 3.6 41.7 - - + +
1453 LYS* 5.7 10.3 - - + -
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Residues in contact with LYS 85 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
803 TRP* 3.8 7.0 - - + -
813 GLU* 4.4 26.9 - - + +
823 SER* 3.0 27.4 + - - +
843 LEU* 1.3 81.4 - - + +
863 ALA* 1.3 63.1 + - - +
883 GLU* 3.5 28.6 + - + +
893 ALA* 3.2 22.7 + - - +
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Residues in contact with ALA 86 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273 MET* 3.4 19.3 - - - +
303 TYR* 4.0 16.2 - - + -
313 PHE* 3.9 22.9 - - + -
803 TRP* 3.8 20.4 - - + +
823 SER 2.9 12.4 + - - +
833 PRO 3.6 9.9 - - - +
843 LEU 3.2 0.2 - - - -
853 LYS* 1.3 78.3 - - - +
873 PHE* 1.3 56.9 + - - +
893 ALA* 3.6 1.4 + - - +
903 ALA* 3.2 18.4 + - - +
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Residues in contact with PHE 87 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313 PHE* 3.8 23.3 - + - -
393 PHE* 3.8 19.7 - + - -
423 TRP* 4.4 13.7 - + + -
433 MET* 3.7 22.7 - - + -
833 PRO 3.4 11.2 + - - +
843 LEU 3.4 3.6 + - - +
853 LYS 3.3 0.2 - - - -
863 ALA* 1.3 77.2 - - - +
883 GLU* 1.3 61.1 + - - +
893 ALA 3.3 0.4 - - - -
903 ALA* 3.5 6.2 - - + +
913 TYR* 2.9 31.2 + - - +
1343 VAL* 3.8 33.5 - - + +
1373 ILE* 3.7 39.3 - - + -
1383 LEU* 3.4 14.2 - - + +
1413 LEU* 3.6 23.1 - - + -
1583 LEU* 5.0 1.8 - - + -
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Residues in contact with GLU 88 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
843 LEU* 3.2 40.1 + - - +
853 LYS* 3.5 41.2 + - + +
873 PHE* 1.3 77.4 - - - +
893 ALA* 1.3 55.6 + - - +
913 TYR* 3.7 2.3 + - - +
923 GLU* 3.1 29.3 + - - +
1383 LEU* 3.8 25.9 - - + +
1423 LYS* 4.8 7.3 - - - -
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Residues in contact with ALA 89 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233 LEU* 5.3 0.9 - - - +
273 MET* 4.3 6.3 - - + -
803 TRP* 3.5 30.3 - - + +
853 LYS 3.2 12.5 + - - +
863 ALA 3.7 3.1 - - - +
883 GLU* 1.3 76.1 - - - +
903 ALA* 1.3 58.5 + - - +
923 GLU* 3.6 12.2 - - - +
933 HIS* 2.9 29.6 + - - +
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Residues in contact with ALA 90 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243 TYR* 3.7 18.9 + - + +
273 MET* 3.8 21.0 - - + +
433 MET* 4.7 3.4 - - + -
863 ALA 3.2 16.4 + - - +
873 PHE* 3.3 16.4 + - + +
893 ALA* 1.3 78.6 - - - +
913 TYR* 1.3 55.1 + - - +
933 HIS* 3.5 3.6 + - - +
943 GLU* 3.0 31.4 + - - +
1343 VAL* 4.1 13.0 - - + -
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Residues in contact with TYR 91 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12 MET* 3.5 25.1 - - + +
652 ASN* 5.0 3.5 - - - +
873 PHE 2.9 17.7 + - - +
883 GLU 4.0 2.9 - - - +
903 ALA* 1.3 73.7 - - - +
923 GLU* 1.3 64.9 + - - +
943 GLU* 3.3 3.6 + - + +
953 LYS* 3.1 47.7 + - + +
1313 GLU* 3.6 49.6 + - + +
1343 VAL* 3.8 10.3 - - + +
1353 LYS* 3.6 35.3 - - + +
1383 LEU* 3.6 23.3 - - + -
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Residues in contact with GLU 92 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
883 GLU 3.1 19.9 + - - +
893 ALA* 3.6 11.6 - - - +
913 TYR* 1.3 78.7 - - - +
933 HIS* 1.3 56.0 + - - +
953 LYS* 3.5 16.8 + - - +
963 PHE* 3.2 25.1 + - - +
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Residues in contact with HIS 93 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163 ARG 5.2 0.4 - - - -
193 TYR* 3.7 31.2 - + - -
203 SER* 3.0 36.5 + - - -
233 LEU* 3.5 25.0 - - + +
243 TYR* 4.4 12.1 - + - +
893 ALA 2.9 17.9 + - - +
903 ALA* 3.7 6.1 - - - +
923 GLU* 1.3 74.0 - - - +
943 GLU* 1.3 61.7 + - - +
963 PHE* 3.2 30.7 + + - +
973 ILE* 2.9 35.5 + - + +
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Residues in contact with GLU 94 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203 SER* 5.5 0.3 + - - -
243 TYR* 2.5 25.9 + - - +
503 GLU* 3.9 3.3 - - - +
903 ALA 3.0 20.4 + - - +
913 TYR* 3.3 9.3 + - + +
933 HIS* 1.3 80.3 - - - +
953 LYS* 1.3 58.3 + - - +
973 ILE* 3.5 6.6 + - - +
983 SER* 3.0 31.8 + - - -
1273 GLN* 3.0 27.0 + - - +
1303 GLU* 3.0 39.4 - - - +
1313 GLU* 4.1 15.4 + - + -
1343 VAL* 4.1 17.7 - - + -
----------------------------------------------------------
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Residues in contact with LYS 95 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12 MET* 5.1 13.5 - - + +
913 TYR* 3.1 48.0 + - + +
923 GLU* 3.8 15.0 - - - +
933 HIS 3.3 0.2 - - - -
943 GLU* 1.3 73.7 - - - +
963 PHE* 1.3 61.4 + - - +
983 SER* 3.9 1.7 - - - -
993 LYS* 3.0 30.0 + - - +
1023 TYR* 5.7 0.2 - - - -
1313 GLU* 4.1 24.0 - - - +
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Residues in contact with PHE 96 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163 ARG* 4.5 24.7 - - + -
193 TYR* 6.0 0.9 - + - -
923 GLU 3.2 14.4 + - - +
933 HIS* 3.4 37.0 - + - +
953 LYS* 1.3 74.7 - - - +
973 ILE* 1.3 72.8 + - + +
993 LYS* 3.5 10.6 + - + +
1003 SER* 3.2 24.0 + - - -
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Residues in contact with ILE 97 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133 GLN* 4.0 14.4 - - - +
163 ARG* 4.0 26.7 - - + +
173 GLU* 4.3 11.2 - - - +
203 SER* 3.4 25.8 - - - +
503 GLU* 5.7 1.1 - - - +
933 HIS* 2.9 35.4 + - + +
943 GLU* 3.8 10.5 - - - +
953 LYS 3.4 0.2 - - - -
963 PHE* 1.3 81.4 - - + +
983 SER* 1.3 63.7 + - - +
1003 SER* 2.7 18.8 + - - +
1013 ILE* 3.0 12.8 + - + +
1273 GLN* 3.6 28.3 - - + +
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Residues in contact with SER 98 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
943 GLU 3.0 13.8 + - - -
953 LYS* 3.9 4.5 - - - -
963 PHE 3.4 0.2 - - - -
973 ILE* 1.3 75.8 - - - +
993 LYS* 1.3 56.5 + - - +
1013 ILE* 3.2 9.9 + - - +
1023 TYR* 2.9 52.2 + - - -
1273 GLN* 3.1 27.8 + - - +
1313 GLU* 2.7 28.2 + - - -
----------------------------------------------------------
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Residues in contact with LYS 99 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
953 LYS 3.0 19.0 + - - +
963 PHE* 3.7 12.6 - - + +
973 ILE 3.3 0.2 - - - -
983 SER* 1.3 77.0 - - - +
1003 SER* 1.3 56.0 + - - +
1023 TYR* 3.2 17.4 + - + +
1033 GLU* 3.0 52.0 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133 GLN* 3.0 24.8 + - - -
163 ARG* 3.9 24.0 + - - -
963 PHE* 3.2 14.9 + - - -
973 ILE* 2.7 23.9 + - - -
993 LYS* 1.3 76.6 - - - +
1013 ILE* 1.3 57.8 + - - +
1033 GLU* 3.9 12.7 - - - +
1043 LEU* 3.2 31.9 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133 GLN* 3.8 31.9 - - + +
173 GLU* 4.5 3.4 - - - +
573 PHE* 4.1 14.1 - - + -
973 ILE* 3.0 25.3 + - + +
983 SER* 3.2 11.9 + - - +
1003 SER* 1.3 76.7 - - - +
1023 TYR* 1.3 60.6 + - + +
1043 LEU* 3.4 5.1 + - + +
1053 ALA* 3.0 26.7 + - - +
1203 LEU* 4.3 12.3 - - + +
1233 PHE* 4.1 27.6 - - + +
1243 ILE* 3.8 30.5 - - + +
1273 GLN* 4.6 7.2 - - + +
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Residues in contact with TYR 102 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
642 ARG* 3.6 16.3 + - - -
1122 LYS 5.8 1.3 - - - -
1132 ASP* 5.3 0.8 + - - -
1142 TYR* 3.6 49.3 - + + -
1152 SER* 2.8 26.6 + - - -
953 LYS 5.7 0.2 - - - -
983 SER* 2.9 38.7 + - - -
993 LYS* 3.2 18.8 + - + +
1013 ILE* 1.3 80.6 - - + +
1033 GLU* 1.3 58.4 + - + +
1053 ALA* 3.2 6.4 + - - +
1063 ALA* 2.9 28.6 + - - +
1243 ILE* 4.5 12.6 - - + -
1273 GLN* 6.5 0.2 - - + -
1313 GLU* 4.6 1.2 + - - -
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Residues in contact with GLU 103 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
993 LYS* 3.0 42.0 + - + +
1003 SER* 4.1 10.7 - - - +
1023 TYR* 1.3 73.6 - - + +
1043 LEU* 1.3 60.0 + - - +
1063 ALA* 3.7 7.6 - - - +
1073 LEU* 3.0 28.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 104 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63 MET* 4.3 11.6 - - - +
93 ALA* 3.8 36.8 - - + +
103 LEU* 4.1 17.5 - - + +
133 GLN* 3.6 38.4 - - + +
163 ARG* 5.1 2.2 - - - +
573 PHE* 4.4 2.9 - - + -
1003 SER 3.2 20.4 + - - +
1013 ILE* 3.6 7.4 - - + +
1023 TYR 3.3 0.2 - - - -
1033 GLU* 1.3 74.9 - - - +
1053 ALA* 1.3 59.2 + - - +
1073 LEU* 3.5 6.6 + - + +
1083 ALA* 3.1 22.3 + - - +
1203 LEU* 3.5 30.7 - - + +
----------------------------------------------------------
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Residues in contact with ALA 105 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1142 TYR* 4.1 14.6 - - + -
1013 ILE 3.0 13.9 + - - +
1023 TYR* 3.4 9.9 - - - +
1043 LEU* 1.3 73.4 - - - +
1063 ALA* 1.3 60.8 + - - +
1083 ALA* 3.4 3.4 + - - +
1093 GLU* 3.1 35.2 + - - +
1173 ARG* 3.8 26.1 - - - +
1203 LEU* 3.7 11.8 - - + +
1243 ILE* 4.5 8.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 106 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1142 TYR* 3.6 18.6 + - + +
1023 TYR 2.9 16.8 + - - +
1033 GLU* 3.7 9.9 - - + +
1043 LEU 3.3 0.2 - - - -
1053 ALA* 1.3 75.9 - - - +
1073 LEU* 1.3 57.5 + - - +
1093 GLU* 3.5 5.2 + - - +
1103 GLU* 3.1 29.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53 ARG* 4.2 29.4 - - + +
63 MET* 3.7 19.7 - - + +
93 ALA* 3.9 27.4 - - + -
1033 GLU 3.0 16.9 + - - +
1043 LEU* 3.8 7.4 - - + +
1053 ALA 3.3 0.2 - - - -
1063 ALA* 1.3 75.0 - - - +
1083 ALA* 1.3 59.1 + - - +
1103 GLU* 3.5 18.2 + - - +
1113 GLU* 3.0 44.6 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63 MET* 3.6 16.3 - - + +
1043 LEU 3.1 17.7 + - - +
1053 ALA* 3.7 6.1 - - - +
1063 ALA 3.3 0.2 - - - -
1073 LEU* 1.3 77.3 - - - +
1093 GLU* 1.3 56.7 + - - +
1113 GLU 3.7 0.3 + - - -
1123 LYS* 3.2 4.7 + - - -
1133 ASP* 2.7 49.0 + - - +
1163 THR* 4.2 7.0 - - + -
1173 ARG* 3.9 20.9 - - + +
1203 LEU* 4.6 0.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU 109 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1142 TYR* 2.9 32.9 + - - -
1053 ALA 3.1 18.3 + - - +
1063 ALA* 3.9 5.3 - - - +
1083 ALA* 1.3 74.9 - - - +
1103 GLU* 1.3 64.5 + - - +
1123 LYS* 3.4 16.4 + - - +
1173 ARG* 3.1 34.5 + - + +
----------------------------------------------------------
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Residues in contact with GLU 110 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1063 ALA 3.1 17.1 + - - +
1073 LEU* 3.8 21.9 - - - +
1083 ALA 3.4 0.2 - - - -
1093 GLU* 1.3 79.2 - - - +
1113 GLU* 1.3 61.9 + - + +
1123 LYS* 3.2 6.1 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33 SER* 2.8 31.1 + - - -
53 ARG* 3.7 26.7 - - - +
63 MET* 3.5 20.4 + - - +
1073 LEU* 3.0 27.8 + - + +
1083 ALA 4.3 2.5 - - - +
1103 GLU* 1.3 78.2 - - + +
1123 LYS* 1.3 68.9 - - - +
1133 ASP* 3.4 9.7 + - + +
----------------------------------------------------------
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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