Contacts of the helix formed by residues 120 - 144 (chain 6) 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 LEU 120 (chain 6).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106 LEU* 5.2 0.2 - - + -
576 PHE* 4.2 21.5 - - + -
1016 ILE* 4.3 15.4 - - + +
1046 LEU* 3.5 59.7 - - + +
1056 ALA* 3.8 8.5 - - + +
1086 ALA* 4.6 2.0 - - + -
1166 THR* 2.9 34.3 + - + +
1176 ARG* 4.1 9.9 - - - +
1186 ALA 3.4 0.4 - - - -
1196 PHE* 1.3 81.9 - - + +
1216 GLU* 1.3 62.7 + - - +
1226 TRP 3.2 0.7 - - - -
1236 PHE* 3.1 18.8 + - + +
1246 ILE* 3.1 21.2 + - + +
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Residues in contact with GLU 121 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1211 GLU* 4.1 16.8 - - - +
1175 ARG* 4.8 0.9 + - - +
1185 ALA* 3.4 34.2 - - - +
1215 GLU* 4.1 18.8 - - + +
1176 ARG* 3.0 37.6 + - - +
1186 ALA 3.3 16.2 - - - +
1196 PHE 3.1 1.0 - - - -
1206 LEU* 1.3 77.7 - - - +
1226 TRP* 1.3 61.8 + - - +
1246 ILE* 3.5 9.6 + - - +
1256 ASN* 3.1 36.3 + - - +
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Residues in contact with TRP 122 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536 HIS* 3.8 9.9 - + - -
566 ARG* 3.3 55.9 - - - +
1186 ALA 4.4 1.6 + - - +
1196 PHE* 3.5 13.5 + - + +
1206 LEU 3.2 0.2 - - - -
1216 GLU* 1.3 80.4 - - - +
1236 PHE* 1.3 89.8 + + + +
1256 ASN* 3.6 6.2 + - - +
1266 GLU* 3.0 49.1 + - + +
170O MET* 3.5 30.3 - - + -
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Residues in contact with PHE 123 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176 GLU* 4.4 8.1 - - - -
536 HIS* 3.6 32.5 - - + -
566 ARG* 3.7 18.2 - - + -
576 PHE* 3.4 35.4 - + - -
1016 ILE* 4.1 22.0 - - + -
1196 PHE* 3.5 42.2 - + - -
1206 LEU* 3.1 12.0 + - - +
1226 TRP* 1.3 98.5 - + + +
1246 ILE* 1.3 58.6 + - - +
1266 GLU* 3.7 11.4 - - - +
1276 GLN* 2.9 36.1 + - + +
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Residues in contact with ILE 124 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1145 TYR* 3.4 42.0 - - + +
1155 SER* 3.7 13.9 + - - +
1185 ALA* 3.8 8.5 - - + -
1016 ILE* 3.9 18.6 - - + -
1026 TYR* 4.5 6.7 - - + -
1056 ALA* 4.5 9.4 - - + -
1176 ARG* 3.6 36.6 - - - +
1206 LEU* 3.1 14.9 + - + +
1216 GLU* 3.9 12.3 - - - +
1226 TRP 3.4 0.2 - - - -
1236 PHE* 1.3 77.3 - - - +
1256 ASN* 1.3 60.8 + - - +
1276 GLN* 3.6 4.2 + - - +
1286 VAL* 3.3 22.1 + - - +
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Residues in contact with ASN 125 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1155 SER 5.0 1.6 - - - +
1185 ALA* 3.5 33.8 + - - +
1195 PHE* 4.1 4.7 + - - +
1216 GLU* 3.1 33.7 + - - +
1226 TRP* 3.9 5.6 - - - +
1236 PHE 3.3 0.2 - - - -
1246 ILE* 1.3 74.5 - - - +
1266 GLU* 1.3 63.8 + - - +
1286 VAL* 3.5 21.0 + - - +
1296 GLU* 3.7 11.1 + - - +
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Residues in contact with GLU 126 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536 HIS* 3.1 16.6 + - - -
1226 TRP* 3.0 39.8 + - + +
1236 PHE* 3.7 14.7 - - - +
1246 ILE 3.3 0.2 - - - -
1256 ASN* 1.3 77.1 - - - +
1276 GLN* 1.3 81.4 + - - +
1296 GLU* 3.1 25.9 + - + +
1306 GLU* 3.0 48.7 + - - +
11726 AG 3.6 15.0 - - - -
170O MET* 4.2 7.6 - - + -
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Residues in contact with GLN 127 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645 ARG* 5.3 0.7 - - - -
176 GLU* 4.8 4.8 + - - -
506 GLU* 5.2 2.0 + - - -
536 HIS* 4.9 3.0 + - - -
946 GLU* 3.0 32.5 + - - +
976 ILE* 3.7 27.5 - - + +
986 SER* 3.1 31.9 + - - +
1016 ILE* 4.6 8.5 - - + -
1236 PHE* 2.9 22.2 + - + +
1246 ILE* 4.1 5.6 - - - +
1256 ASN 3.4 0.2 - - - -
1266 GLU* 1.3 97.3 + - - +
1286 VAL* 1.3 59.5 + - - +
1296 GLU 3.3 0.2 - - - -
1306 GLU* 3.8 7.4 + - - +
1316 GLU* 3.1 34.9 + - - +
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Residues in contact with VAL 128 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605 TYR* 4.3 15.9 - - + -
635 ASP* 3.9 29.2 - - + +
645 ARG* 4.1 24.2 - - - +
1155 SER* 4.0 28.0 - - - +
1246 ILE 3.3 17.5 + - - +
1256 ASN* 3.6 13.2 - - - +
1266 GLU 3.2 0.2 - - - -
1276 GLN* 1.3 77.6 - - - +
1296 GLU* 1.3 62.5 + - + +
1316 GLU* 4.1 1.4 - - - +
1326 ALA* 3.2 23.7 + - - +
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Residues in contact with GLU 129 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
635 ASP* 5.6 5.8 - - - +
1256 ASN 3.7 10.7 + - - +
1266 GLU* 3.1 13.2 + - - +
1286 VAL* 1.3 80.9 - - + +
1306 GLU* 1.3 52.8 + - + +
1326 ALA* 3.4 5.4 + - - +
1336 SER* 2.8 35.5 + - - -
170O MET* 3.8 24.8 - - + +
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Residues in contact with GLU 130 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
466 GLN* 2.8 35.0 + - - +
496 GLU* 4.4 0.9 - - - +
506 GLU* 3.0 13.5 - - - +
536 HIS* 3.2 10.1 - - - -
946 GLU* 3.0 36.2 - - - +
1266 GLU* 3.0 33.5 + - - +
1276 GLN* 3.7 8.0 + - - +
1296 GLU* 1.3 77.7 - - + +
1316 GLU* 1.3 61.1 + - - +
1336 SER* 3.5 6.8 - - - -
1346 VAL* 2.9 36.5 + - + +
11726 AG 4.2 2.9 - - - -
170O MET* 5.5 2.4 - - + +
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Residues in contact with GLU 131 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15 MET 5.8 2.3 + - - -
635 ASP 5.1 3.8 - - - +
645 ARG* 3.9 25.0 + - - +
916 TYR* 3.7 22.9 + - + -
946 GLU* 4.1 22.2 - - + +
956 LYS* 3.8 23.5 - - - +
986 SER* 2.7 31.8 + - - +
1026 TYR* 4.9 0.2 + - - -
1276 GLN 3.1 18.4 + - - +
1286 VAL* 4.1 3.8 - - - +
1306 GLU* 1.3 76.2 - - - +
1326 ALA* 1.3 57.4 + - - +
1346 VAL* 3.5 0.4 + - - -
1356 LYS* 3.0 30.9 + - - +
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Residues in contact with ALA 132 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
625 TYR 5.3 0.9 - - - +
635 ASP* 3.6 41.2 + - - +
1286 VAL 3.2 17.7 + - - +
1296 GLU* 3.7 4.5 - - - +
1316 GLU* 1.3 77.4 - - - +
1336 SER* 1.3 58.7 + - - +
1356 LYS* 4.1 5.1 - - - +
1366 LYS* 3.1 29.8 + - - +
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Residues in contact with SER 133 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426 TRP* 3.7 20.2 - - - -
466 GLN* 5.1 3.1 + - - -
1296 GLU 2.8 19.0 + - - -
1306 GLU* 3.2 10.7 + - - -
1326 ALA* 1.3 77.8 - - - +
1346 VAL* 1.3 62.7 + - - +
1366 LYS* 3.8 6.0 + - - +
1376 ILE* 3.5 25.7 + - - +
1616 ARG* 5.2 0.5 + - - -
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Residues in contact with VAL 134 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246 TYR* 4.9 6.3 - - + +
426 TRP* 4.4 17.3 - - + -
436 MET* 6.5 0.4 - - + -
466 GLN* 5.6 4.5 - - + +
876 PHE* 3.9 26.6 - - + +
906 ALA* 4.1 6.1 - - + -
916 TYR* 3.7 37.2 - - + +
946 GLU* 4.1 19.3 - - + -
1306 GLU* 2.9 21.5 + - + +
1316 GLU 4.1 2.5 - - - +
1336 SER* 1.3 77.4 - - - +
1356 LYS* 1.3 58.5 + - - +
1376 ILE* 3.3 3.0 + - - -
1386 LEU* 3.0 25.3 + - - +
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Residues in contact with LYS 135 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655 ASN* 3.4 42.3 + - + +
916 TYR* 3.5 40.1 - - + +
1316 GLU 3.0 20.2 + - - +
1326 ALA* 4.1 5.4 - - - +
1346 VAL* 1.3 77.0 - - - +
1366 LYS* 1.3 56.9 + - - +
1386 LEU* 3.6 12.3 - - + +
1396 ASP* 2.7 69.5 + - - +
1426 LYS* 5.5 4.5 - - - +
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Residues in contact with LYS 136 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1326 ALA 3.1 20.6 + - - +
1336 SER* 3.9 8.1 - - - +
1346 VAL 3.3 0.2 - - - -
1356 LYS* 1.3 77.3 - - - +
1376 ILE* 1.3 64.4 + - + +
1396 ASP* 3.6 7.1 + - - +
1406 LYS* 3.3 50.9 + - + +
35N GLY* 5.7 4.3 - - - +
37N GLU* 3.0 44.5 + - + +
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Residues in contact with ILE 137 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396 PHE* 4.3 7.2 - - + -
426 TRP* 3.5 38.4 - - + +
876 PHE* 3.7 36.6 - - + -
1336 SER* 3.5 13.2 - - - +
1346 VAL 3.3 2.1 + - - +
1356 LYS 3.3 0.4 - - - -
1366 LYS* 1.3 79.7 - - + +
1386 LEU* 1.3 65.6 + - - +
1406 LYS* 3.2 10.2 + - + +
1416 LEU* 3.0 24.4 + - + +
1546 LEU* 4.7 9.2 - - + -
1586 LEU* 3.8 32.3 - - + -
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Residues in contact with LEU 138 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
846 LEU* 3.9 3.3 - - + +
876 PHE* 3.4 40.3 - - + +
886 GLU* 3.8 22.4 - - + +
916 TYR* 3.6 30.7 - - + -
1346 VAL 3.0 17.0 + - - +
1356 LYS* 3.6 11.9 - - + +
1376 ILE* 1.3 75.8 - - - +
1396 ASP* 1.3 61.6 + - - +
1416 LEU* 3.1 8.1 + - - +
1426 LYS* 3.0 54.1 + - + +
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Residues in contact with ASP 139 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655 ASN* 4.5 2.6 - - - +
1356 LYS* 2.7 55.6 + - - +
1366 LYS* 3.8 7.8 - - - +
1386 LEU* 1.3 82.3 - - - +
1406 LYS* 1.3 58.1 + - + +
1426 LYS* 3.4 15.7 + - - +
1436 PHE* 3.1 24.9 + - - +
33N ASP 5.7 0.5 - - - +
34N LEU 6.0 1.1 - - - +
35N GLY* 5.8 9.0 - - - -
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Residues in contact with LYS 140 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1366 LYS* 3.3 43.7 + - - +
1376 ILE* 3.2 13.1 + - + +
1396 ASP* 1.3 78.6 - - + +
1416 LEU* 1.3 57.9 + - - +
1426 LYS 3.4 0.2 - - - -
1436 PHE* 3.4 13.4 - - + +
1446 ALA* 3.2 25.5 + - - +
1506 ILE* 5.0 1.0 - - - +
1546 LEU* 3.8 35.0 - - + +
1576 GLU* 3.8 20.0 + - - -
35N GLY* 4.5 17.5 - - - +
152N PHE* 4.5 18.8 - - + -
155N ASP* 5.4 7.0 + - - -
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Residues in contact with LEU 141 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396 PHE* 4.2 12.6 - - + -
836 PRO* 3.5 31.6 - - + +
846 LEU* 3.7 26.2 - - + +
876 PHE* 3.6 31.6 - - + -
1376 ILE* 3.0 21.7 + - + +
1386 LEU* 3.1 7.4 + - - +
1406 LYS* 1.3 76.2 - - - +
1426 LYS* 1.3 62.2 + - - +
1436 PHE 3.2 1.3 - - - -
1446 ALA* 3.3 23.4 + - + +
1456 LYS* 3.7 3.5 + - - -
1516 LEU* 3.8 28.7 - - + -
1546 LEU* 4.4 7.2 - - + -
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Residues in contact with LYS 142 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
846 LEU* 3.7 19.5 - - + -
886 GLU* 4.1 14.4 - - - -
1356 LYS* 5.5 3.8 - - - +
1386 LEU* 3.0 31.4 + - + +
1396 ASP* 3.6 19.9 + - - +
1416 LEU* 1.3 75.0 - - - +
1436 PHE* 1.3 60.8 + - - +
1456 LYS* 3.3 34.9 - - - +
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Residues in contact with PHE 143 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1396 ASP 3.1 14.5 + - - +
1406 LYS* 3.4 17.3 - - + +
1416 LEU 3.2 0.2 - - - -
1426 LYS* 1.3 77.9 - - - +
1446 ALA* 1.3 56.4 + - - +
1456 LYS 3.6 2.1 + - - -
1476 SER* 5.6 0.2 - - - -
1506 ILE* 4.4 13.1 - - + +
34N LEU 5.5 7.6 - - - -
36N LEU* 5.3 9.0 - - + -
148N PRO* 3.6 40.7 - - + +
151N LEU* 3.8 31.0 - - + -
152N PHE* 4.6 21.1 - + + -
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Residues in contact with ALA 144 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1406 LYS 3.2 15.1 + - - +
1416 LEU* 3.3 14.2 + - + +
1426 LYS 3.3 0.4 - - - -
1436 PHE* 1.3 78.2 - - - +
1456 LYS* 1.3 64.4 + - - +
1466 ASP 3.8 0.4 - - - -
1476 SER* 3.9 18.4 - - - +
1506 ILE* 3.6 37.7 - - + -
1516 LEU* 4.5 9.0 - - + +
1546 LEU* 4.9 3.4 - - + -
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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