Contacts of the helix formed by residues 1216 - 1245 (chain O) in PDB entry 5X0X
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 SER1216 (chain O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1015O MET* 3.7 12.1 - - - -
1058O ILE* 5.1 2.7 - - - -
1213O THR* 2.3 45.5 + - - -
1215O ASN* 1.3 76.2 - - - +
1217O VAL* 1.3 60.4 + - - +
1218O GLU* 3.0 20.9 - - - +
1219O GLU* 2.8 33.9 + - - +
1220O VAL* 3.9 1.9 + - - +
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Residues in contact with VAL1217 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1050O ASN* 6.1 0.7 - - - +
1054O GLN* 3.5 36.8 - - + +
1055O LEU* 6.4 0.2 - - + -
1057O LYS* 4.7 10.5 - - + +
1058O ILE* 3.6 26.5 - - + -
1216O SER* 1.3 68.7 - - - +
1218O GLU* 1.3 64.5 + - - +
1220O VAL* 2.8 39.3 + - + +
1221O ILE* 3.4 14.9 + - + +
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Residues in contact with GLU1218 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1058O ILE* 3.5 34.3 - - + +
1182O ASP* 4.6 10.1 - - - +
1183O THR* 5.0 11.7 - - + +
1211O LEU 3.6 4.9 - - - +
1212O ILE* 3.1 29.2 - - + +
1213O THR* 2.2 48.6 + - - +
1216O SER* 3.0 19.1 - - - +
1217O VAL* 1.3 82.9 - - - +
1219O GLU* 1.3 56.9 + - - +
1221O ILE* 3.4 7.9 + - - +
1222O LEU* 2.8 31.3 + - - +
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Residues in contact with GLU1219 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1012O LYS* 2.4 38.2 + - - +
1212O ILE* 3.7 5.6 - - + -
1213O THR 2.9 12.8 - - - +
1214O THR* 3.2 2.1 - - - -
1215O ASN* 3.1 19.0 + - - +
1216O SER* 2.8 31.0 + - - +
1218O GLU* 1.3 78.2 - - - +
1220O VAL* 1.3 62.7 + - + +
1222O LEU* 3.4 9.8 - - + +
1223O GLU* 2.9 40.4 + - - +
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Residues in contact with VAL1220 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1216O SER 4.9 1.3 - - - +
1217O VAL* 2.8 27.9 + - + +
1219O GLU* 1.3 78.4 - - + +
1221O ILE* 1.3 66.3 + - + +
1223O GLU* 3.1 10.0 + - - +
1224O ARG* 2.9 44.5 + - + +
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Residues in contact with ILE1221 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140I C 4.5 3.6 - - - +
1050O ASN* 3.9 11.9 - - - +
1054O GLN* 6.4 0.4 - - + -
1055O LEU* 4.7 6.3 - - + -
1183O THR* 3.6 45.5 - - + +
1185O TRP* 3.6 50.9 - - + -
1217O VAL* 3.4 15.4 + - + +
1218O GLU* 3.4 7.2 + - - +
1220O VAL* 1.3 77.2 - - + +
1222O LEU* 1.3 65.1 + - - +
1224O ARG* 2.9 15.1 + - + +
1225O ALA* 2.8 28.0 + - + +
1228O LYS* 6.0 0.4 - - - +
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Residues in contact with LEU1222 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010O VAL* 6.3 2.2 - - + -
1012O LYS* 5.4 2.9 - - + +
1183O THR* 5.6 4.0 - - - +
1210O ARG* 3.6 32.1 - - - +
1212O ILE* 3.6 37.5 - - + -
1218O GLU 2.8 18.1 + - - +
1219O GLU* 3.4 10.3 - - + +
1221O ILE* 1.3 77.7 - - - +
1223O GLU* 1.3 63.4 + - + +
1225O ALA* 3.5 5.9 + - + +
1226O TYR* 2.9 29.9 + - + +
1229O LEU* 6.5 1.1 - - + -
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Residues in contact with GLU1223 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1219O GLU* 2.9 30.8 + - + +
1220O VAL* 3.6 7.9 - - - +
1222O LEU* 1.3 79.1 - - + +
1224O ARG* 1.3 60.7 + - - +
1226O TYR* 3.0 13.6 + - + +
1227O LYS* 2.8 38.3 + - + +
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Residues in contact with ARG1224 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139I A 5.1 4.6 - - - -
140I C 3.7 22.5 + - - -
1185O TRP* 4.5 15.2 - - - -
1220O VAL* 2.9 40.0 + - + +
1221O ILE* 2.9 16.6 + - + +
1223O GLU* 1.3 75.0 - - + +
1225O ALA* 1.3 64.0 + - - +
1226O TYR 3.0 0.7 + - - -
1227O LYS* 3.0 18.1 + - - +
1228O LYS* 2.9 42.4 + - - +
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Residues in contact with ALA1225 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1183O THR 5.3 2.7 - - - +
1184O ASP 4.9 5.2 - - - +
1185O TRP* 5.7 0.9 - - + -
1186O ASN* 4.6 22.0 - - - +
1187O PRO* 4.6 4.1 - - + +
1221O ILE* 2.8 21.7 + - + +
1222O LEU* 3.7 5.4 - - + +
1224O ARG* 1.3 72.5 - - - +
1226O TYR* 1.3 57.3 + - - +
1228O LYS* 3.3 24.2 - - + +
1229O LEU* 2.8 30.6 + - + +
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Residues in contact with TYR1226 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1222O LEU* 2.9 18.2 + - + +
1223O GLU* 3.2 19.3 - - + +
1224O ARG 2.9 0.2 - - - -
1225O ALA* 1.3 76.2 - - - +
1227O LYS* 1.3 64.2 + - + +
1229O LEU* 2.9 32.5 + - + +
1230O ASP* 2.9 39.0 + - - +
1264O ARG* 3.1 35.4 + - + +
1268O ARG* 4.2 26.9 - - + -
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Residues in contact with LYS1227 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1223O GLU* 2.8 22.1 + - + +
1224O ARG* 3.6 15.7 - - - +
1226O TYR* 1.3 76.3 - - + +
1228O LYS* 1.3 66.1 + - - +
1230O ASP* 3.1 11.0 + - + +
1231O ILE* 3.0 33.4 + - + +
1268O ARG* 4.1 30.5 - - - +
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Residues in contact with LYS1228 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139I A 4.3 8.4 + - - -
928O GLN* 3.3 31.6 - - - +
929O ASN* 3.1 15.2 + - + +
1185O TRP* 4.2 24.4 - - - -
1186O ASN* 4.1 9.6 + - - +
1187O PRO* 4.8 4.9 - - + -
1221O ILE* 6.0 0.4 - - - +
1224O ARG* 2.9 30.1 + - - +
1225O ALA* 3.3 28.2 - - + +
1227O LYS* 1.3 76.5 - - + +
1229O LEU* 1.3 55.0 + - - +
1230O ASP 3.2 0.2 + - - -
1231O ILE* 3.2 0.6 + - - -
1232O ASP* 2.8 43.7 + - - +
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Residues in contact with LEU1229 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008O GLU* 6.0 2.0 - - - +
1187O PRO* 3.5 30.1 - - + -
1191O LEU* 6.3 2.5 - - + -
1210O ARG* 5.9 6.5 - - - +
1222O LEU* 6.5 1.1 - - + -
1225O ALA* 2.8 22.8 + - + +
1226O TYR* 2.9 43.9 + - + +
1228O LYS* 1.3 72.3 - - - +
1230O ASP* 1.3 60.4 + - - +
1232O ASP* 2.5 22.9 + - - +
1233O GLY* 2.9 8.3 + - - -
1264O ARG* 4.3 5.2 + - - +
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Residues in contact with ASP1230 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1226O TYR* 2.9 24.2 + - - +
1227O LYS 3.1 7.4 + - - +
1229O LEU* 1.3 75.8 - - - +
1231O ILE* 1.3 61.9 + - + +
1233O GLY* 2.6 24.6 + - - -
1234O LYS* 2.9 10.2 + - - +
1261O GLU* 5.4 6.3 - - + +
1264O ARG* 2.3 52.2 + - - +
1268O ARG* 2.1 39.5 + - - +
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Residues in contact with ILE1231 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
929O ASN* 2.9 38.8 - - + +
931O LEU* 6.3 1.3 - - + -
959O PRO 5.8 3.1 - - - +
960O PHE* 6.5 1.1 - - + -
1227O LYS* 3.0 21.7 + - + +
1228O LYS* 5.8 0.2 - - - -
1230O ASP* 1.3 76.8 - - + +
1232O ASP* 1.3 56.9 + - - +
1234O LYS* 3.0 30.0 - - + +
1235O VAL* 2.9 22.0 + - + +
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Residues in contact with ASP1232 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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926O PRO 5.7 1.6 - - - +
927O LEU 5.4 4.9 - - - +
928O GLN* 5.2 1.8 - - - +
929O ASN* 2.9 17.4 + - - +
1187O PRO* 3.6 21.3 - - - +
1188O HIS* 4.0 21.8 + - + +
1228O LYS* 2.8 29.1 + - - +
1229O LEU* 2.5 31.6 - - - +
1231O ILE* 1.3 72.3 - - - +
1233O GLY* 1.3 68.1 + - - +
1235O VAL* 3.1 13.6 - - + +
1236O ILE* 2.9 32.6 + - - +
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Residues in contact with GLY1233 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1229O LEU 3.5 6.5 - - - -
1230O ASP* 2.6 16.9 + - - -
1232O ASP* 1.3 77.6 + - - +
1234O LYS* 1.3 56.6 + - - -
1236O ILE* 2.7 36.8 + - - +
1237O GLN 2.9 9.7 + - - -
1257O LEU* 3.0 15.0 - - - +
1264O ARG* 5.6 3.6 - - - -
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Residues in contact with LYS1234 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959O PRO* 4.1 21.2 + - - +
972O SER* 3.7 13.3 + - - -
976O THR* 3.4 25.6 - - - +
980O ILE* 3.4 43.6 - - + +
983O LEU* 6.3 2.7 - - - -
1230O ASP 2.9 7.3 + - - +
1231O ILE* 3.0 30.4 - - + +
1233O GLY* 1.3 73.1 - - - +
1235O VAL* 1.3 57.0 + - + +
1237O GLN* 3.1 8.8 - - - +
1238O ALA* 2.9 23.2 + - - +
1257O LEU* 3.5 14.9 - - + +
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Residues in contact with VAL1235 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
926O PRO* 4.6 26.2 - - + +
927O LEU 5.4 7.0 - - - +
929O ASN* 3.3 16.6 - - - +
931O LEU* 5.4 13.7 - - + -
934O LEU* 5.9 8.1 - - + -
984O HIS* 6.2 0.4 - - - +
1231O ILE* 2.9 15.3 + - + +
1232O ASP* 3.1 16.2 - - + +
1233O GLY 3.0 0.2 - - - -
1234O LYS* 1.3 74.6 - - + +
1236O ILE* 1.3 64.3 + - + +
1238O ALA* 2.9 22.3 + - + +
1239O GLY* 2.9 10.6 + - - -
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Residues in contact with ILE1236 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
993O ARG* 4.8 22.4 - - - +
995O LEU* 4.8 11.9 - - + -
1232O ASP* 2.9 19.7 + - - +
1233O GLY* 2.7 28.9 + - - +
1235O VAL* 1.3 71.0 - - + +
1237O GLN* 1.3 53.9 + - - +
1239O GLY* 2.8 21.5 + - - +
1240O LYS* 2.9 39.3 + - + +
1257O LEU* 5.4 0.2 - - + -
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Residues in contact with GLN1237 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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980O ILE* 3.3 33.1 - - + +
1233O GLY 2.9 5.3 + - - -
1234O LYS* 3.1 13.7 - - - +
1236O ILE* 1.3 75.6 - - - +
1238O ALA* 1.3 55.0 + - - -
1240O LYS* 2.8 29.4 + - + +
1241O PHE* 3.0 22.5 + - + -
1250O GLN 5.3 0.4 - - - +
1253O LEU* 3.8 21.5 - - + +
1254O LEU* 3.1 45.4 + - + +
1257O LEU* 3.2 31.9 - - + +
1258O LEU* 5.0 0.7 + - - +
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Residues in contact with ALA1238 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
980O ILE* 4.4 3.3 - - + +
984O HIS* 3.6 32.3 - - + +
991O LEU* 6.0 2.2 - - + -
1234O LYS 2.9 9.9 + - - +
1235O VAL* 2.9 23.4 + - + +
1237O GLN* 1.3 75.2 - - - +
1239O GLY* 1.3 53.8 + - - +
1240O LYS 3.0 4.0 + - - -
1241O PHE* 3.2 16.2 - - + -
1242O ASP* 2.8 31.9 + - - +
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Residues in contact with GLY1239 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
791O ALA* 5.9 0.2 - - - -
991O LEU* 5.9 3.6 - - - -
993O ARG* 3.3 32.8 - - - +
995O LEU* 6.1 0.2 - - - +
1235O VAL 2.9 8.4 + - - -
1236O ILE 2.8 14.7 + - - -
1238O ALA* 1.3 71.3 - - - +
1240O LYS* 1.3 51.8 + - - +
1242O ASP* 4.2 5.4 - - - -
1243O ASN* 2.4 36.1 + - - +
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Residues in contact with LYS1240 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
995O LEU* 4.5 18.6 - - + -
998O ASP* 6.1 0.7 - - - +
1236O ILE* 2.9 38.9 + - + +
1237O GLN* 2.8 21.6 + - - +
1238O ALA 3.0 0.6 - - - -
1239O GLY* 1.3 76.5 - - - +
1241O PHE* 1.3 60.0 + - - +
1242O ASP 3.0 0.4 - - - -
1243O ASN* 2.7 22.9 + - + +
1244O LYS* 3.0 15.2 + - - +
1245O SER 4.6 0.2 + - - -
1249O GLU* 5.5 1.4 - - - +
1253O LEU* 3.4 48.0 - - + +
1256O SER* 5.4 0.2 - - - -
1257O LEU* 3.4 27.5 - - - +
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Residues in contact with PHE1241 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
980O ILE* 3.1 41.5 - - + -
981O ARG* 3.3 26.9 - - - -
984O HIS* 3.2 47.3 - - + -
985O LYS 3.3 4.0 - - - -
988O ARG* 4.5 10.3 + - + +
1237O GLN* 3.0 23.5 + - + -
1238O ALA* 3.2 21.3 - - - -
1240O LYS* 1.3 78.4 - - - +
1242O ASP* 1.3 74.9 + - - +
1245O SER* 3.5 19.8 + - - -
1246O THR 4.5 1.4 + - - +
1250O GLN* 3.2 47.1 - - + +
1253O LEU* 5.5 0.4 - - - +
1254O LEU* 5.6 0.9 - - + -
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Residues in contact with ASP1242 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
984O HIS* 4.5 2.9 - - + +
987O LEU 3.5 3.4 - - - +
988O ARG* 2.9 27.2 - - - +
991O LEU* 2.7 61.2 - - - +
992O LEU* 4.4 6.8 - - - +
993O ARG 4.9 0.7 - - - -
1238O ALA 2.8 24.6 + - - +
1239O GLY* 4.2 2.9 - - - -
1241O PHE* 1.3 89.6 - - + +
1243O ASN* 1.3 66.1 + - - +
1245O SER* 4.0 6.1 + - - -
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Residues in contact with ASN1243 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
992O LEU* 3.6 13.0 - - - +
993O ARG* 3.3 36.6 - - + +
994O ARG* 4.1 4.7 - - - +
995O LEU* 6.2 1.3 - - + -
998O ASP* 5.1 3.4 - - - +
1239O GLY 2.4 31.4 + - - +
1240O LYS* 2.7 16.8 + - + +
1242O ASP* 1.3 74.9 - - - +
1244O LYS* 1.3 73.2 + - + +
1245O SER* 3.6 1.2 + - - -
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Residues in contact with LYS1244 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
770O TYR* 4.9 4.2 - - - +
993O ARG 4.6 0.2 - - - +
994O ARG* 3.3 39.7 - - - +
998O ASP* 3.3 33.6 - - - +
999O VAL* 3.7 18.8 - - - +
1240O LYS 3.0 7.0 + - - +
1243O ASN* 1.3 85.1 - - + +
1245O SER* 1.3 76.7 + - - +
1246O THR* 3.1 11.7 + - + +
1249O GLU* 3.0 31.6 - - - +
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Residues in contact with SER1245 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745O TYR* 6.2 4.3 - - - -
988O ARG* 5.9 11.9 - - - +
1241O PHE* 3.5 16.0 + - - +
1242O ASP 4.0 4.4 + - - -
1243O ASN 3.4 4.6 - - - -
1244O LYS* 1.3 89.4 + - - +
1246O THR* 1.3 60.6 + - - +
1250O GLN* 5.4 0.4 - - - -
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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