Contacts of the helix formed by residues 1105 - 1126 (chain C) in PDB entry 5HZN
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 SER1105 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1103C PRO 3.6 2.2 + - - -
1104C PRO* 1.3 76.6 - - - +
1106C LEU* 1.3 64.8 + - - +
1107C SER* 3.6 11.0 + - - -
1108C LYS* 3.1 28.4 + - - +
1109C MET* 3.0 21.3 + - - +
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Residues in contact with LEU1106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1105C SER* 1.3 73.7 - - - +
1107C SER* 1.3 57.6 + - - +
1109C MET* 3.0 13.0 + - - +
1110C ILE* 2.9 57.1 + - + +
1235C PRO* 3.7 37.5 - - + -
1237C MET* 4.3 12.1 - - + -
1238C LEU* 4.2 14.6 - - + -
1266C GLU* 5.9 1.1 - - - +
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Residues in contact with SER1107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1105C SER* 3.2 9.9 + - - -
1106C LEU* 1.3 78.9 - - - +
1108C LYS* 1.3 59.9 + - - +
1110C ILE* 3.9 11.5 - - - +
1111C GLN* 3.1 26.3 + - - +
1266C GLU* 4.7 19.5 - - - +
1268C GLU* 5.0 2.8 - - - +
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Residues in contact with LYS1108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1104C PRO* 4.3 9.2 - - + -
1105C SER* 3.1 29.4 + - - +
1107C SER* 1.3 78.3 - - - +
1109C MET* 1.3 64.0 + - - +
1111C GLN* 3.5 5.0 + - + +
1112C MET* 3.1 32.3 + - + +
1268C GLU* 4.0 21.5 + - - +
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Residues in contact with MET1109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1104C PRO* 3.8 31.0 - - + +
1105C SER 3.0 10.7 + - - +
1106C LEU* 3.0 18.5 + - - +
1108C LYS* 1.3 75.6 - - - +
1110C ILE* 1.3 59.8 + - - +
1112C MET* 3.4 10.1 + - - +
1113C ALA* 2.9 28.5 + - - +
1202C ILE* 3.7 31.9 - - + +
1203C ALA* 4.2 16.4 - - - +
1235C PRO* 3.8 35.2 - - + -
1238C LEU* 4.0 22.1 - - + +
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Residues in contact with ILE1110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1106C LEU* 2.9 46.9 + - + +
1107C SER* 3.9 9.4 - - - +
1109C MET* 1.3 74.3 - - - +
1111C GLN* 1.3 59.3 + - - +
1113C ALA* 3.5 7.1 - - - +
1114C GLY 2.8 26.3 + - - -
1237C MET* 3.5 28.9 - - + -
1238C LEU* 4.8 5.8 - - + -
1263C ILE* 4.0 16.6 - - + +
1266C GLU* 3.9 41.7 - - + +
1267C MET* 3.5 14.2 - - - +
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Residues in contact with GLN1111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1058C HIS* 5.6 0.2 + - - -
1107C SER 3.1 20.2 + - - +
1108C LYS* 3.8 7.0 - - + +
1109C MET 3.3 0.4 - - - -
1110C ILE* 1.3 73.5 - - - +
1112C MET* 1.3 67.1 + - - +
1115C GLU* 3.0 57.1 + - - +
1266C GLU 5.9 0.2 - - - +
1267C MET* 3.3 25.4 - - - +
1268C GLU* 2.9 64.5 + - + +
1271C PHE* 4.4 12.1 - - - +
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Residues in contact with MET1112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1084C LEU* 3.9 25.4 - - - -
1087C TYR* 4.8 13.7 - - + -
1088C LEU* 4.8 4.5 - - + -
1104C PRO* 4.3 20.0 - - + -
1108C LYS* 3.1 25.2 + - + +
1109C MET* 3.5 16.2 - - - +
1111C GLN* 1.3 75.5 - - + +
1113C ALA* 1.3 63.2 + - - +
1115C GLU* 3.1 13.0 + - - +
1116C ILE* 3.0 31.2 + - + +
1144C PHE 5.3 2.5 - - - +
1146C VAL* 3.6 19.7 - - + +
1202C ILE* 3.9 28.0 - - + -
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Residues in contact with ALA1113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1109C MET 2.9 18.3 + - - +
1110C ILE* 3.3 9.8 + - - +
1112C MET* 1.3 75.7 - - - +
1114C GLY* 1.3 56.8 + - - +
1116C ILE* 3.4 3.5 + - - -
1117C ALA* 2.9 30.7 + - - +
1195C PHE* 3.3 15.0 - - + -
1199C LEU* 3.5 29.6 - - + -
1202C ILE* 4.6 1.1 - - - +
1238C LEU* 5.0 7.0 - - + -
1241C LEU* 5.3 2.7 - - + -
1263C ILE* 4.5 7.9 - - + -
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Residues in contact with GLY1114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1110C ILE 2.8 15.8 + - - -
1113C ALA* 1.3 69.8 - - - +
1115C GLU* 1.3 60.2 + - - +
1117C ALA* 4.0 4.3 - - - +
1118C ASP* 3.0 28.6 + - - +
1260C ILE* 4.4 3.3 - - - +
1263C ILE* 3.7 16.1 - - - +
1267C MET* 3.6 23.1 - - - -
1271C PHE* 3.6 7.1 - - - -
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Residues in contact with GLU1115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1058C HIS* 3.4 36.5 + - + +
1111C GLN* 3.0 49.1 + - - +
1112C MET* 3.1 11.1 + - - +
1114C GLY* 1.3 73.6 - - - +
1116C ILE* 1.3 66.6 + - - +
1118C ASP* 3.2 1.3 + - - +
1119C GLY* 3.0 19.8 + - - -
1144C PHE 4.1 2.4 - - - +
1145C THR* 3.4 22.4 + - - +
1146C VAL* 3.1 44.7 + - + +
1271C PHE* 4.5 2.0 - - + -
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Residues in contact with ILE1116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1084C LEU* 3.9 18.8 - - + -
1112C MET* 3.0 20.9 + - + +
1113C ALA* 3.8 5.2 - - - +
1115C GLU* 1.3 74.8 - - - +
1117C ALA* 1.3 64.4 + - - +
1119C GLY 3.1 2.9 + - - -
1120C MET* 3.0 26.6 + - + +
1133C LEU* 3.9 17.9 - - + -
1138C CYS* 4.2 6.3 - - - -
1146C VAL* 3.7 21.8 - - + +
1148C ILE* 3.6 22.5 - - + +
1195C PHE* 3.7 20.9 - - + -
1198C VAL* 3.9 24.2 - - + -
1202C ILE* 4.2 7.2 - - + -
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Residues in contact with ALA1117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1113C ALA 2.9 19.0 + - - +
1114C GLY* 4.0 3.4 - - - +
1116C ILE* 1.3 75.5 - - - +
1118C ASP* 1.3 57.3 + - - +
1121C ALA* 2.8 31.2 + - - +
1195C PHE* 3.6 14.8 - - + -
1256C PHE* 3.5 22.2 - - + +
1259C ILE* 4.0 13.0 - - + -
1260C ILE* 3.6 22.4 - - + +
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Residues in contact with ASP1118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1056C CYS* 4.3 1.6 - - - -
1058C HIS* 2.6 27.5 + - - +
1114C GLY 3.0 21.5 + - - +
1115C GLU 3.5 4.5 - - - +
1116C ILE 3.2 0.2 - - - -
1117C ALA* 1.3 75.2 - - - +
1119C GLY* 1.3 63.6 + - - +
1121C ALA* 3.5 1.6 + - - +
1122C TYR* 3.1 22.7 + - - +
1260C ILE* 3.6 8.0 - - + +
1271C PHE* 3.7 12.1 - - + -
1275C SER* 3.9 0.2 - - - -
1276C PHE* 2.8 23.2 + - - +
1277C TYR* 2.9 37.1 + - - +
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Residues in contact with GLY1119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1056C CYS* 4.3 3.4 - - - -
1058C HIS* 3.7 17.1 - - - +
1059C VAL* 3.7 18.7 - - - +
1115C GLU 3.0 11.1 + - - -
1116C ILE 3.7 2.2 - - - -
1118C ASP* 1.3 74.8 - - - +
1120C MET* 1.3 56.9 + - - +
1122C TYR* 3.3 4.2 + - - +
1123C LEU* 2.9 32.4 + - - +
1148C ILE* 3.9 8.3 - - - -
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Residues in contact with MET1120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116C ILE* 3.0 21.7 + - + +
1117C ALA 3.7 0.2 - - - +
1119C GLY* 1.3 73.5 - - - +
1121C ALA* 1.3 59.9 + - - +
1123C LEU* 3.3 7.3 + - + +
1124C ASN* 2.8 40.3 + - - +
1130C HIS* 3.8 13.9 - - + -
1133C LEU* 3.8 22.9 - - + -
1148C ILE* 3.8 31.8 - - + +
1191C ASP* 3.3 41.7 - - + +
1256C PHE* 3.6 35.0 - - + -
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Residues in contact with ALA1121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1117C ALA 2.8 22.7 + - - +
1118C ASP 3.7 5.4 - - - +
1119C GLY 3.4 0.2 - - - -
1120C MET* 1.3 72.6 - - - +
1122C TYR* 1.3 56.3 + - - +
1124C ASN* 3.9 4.4 - - - +
1125C ALA* 2.9 30.7 + - - +
1256C PHE* 3.8 17.2 - - + +
1257C LEU* 4.0 23.1 - - + +
1260C ILE* 4.0 14.1 - - + -
1276C PHE* 3.7 7.7 - - + -
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Residues in contact with TYR1122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1053C GLU 3.3 12.3 + - - -
1054C PHE* 4.0 17.9 - + + -
1055C ASN* 2.7 43.9 + - - +
1056C CYS* 3.6 29.4 - - + -
1059C VAL* 4.4 1.3 - - + -
1118C ASP 3.1 14.5 + - - +
1119C GLY 3.3 7.4 - - - +
1121C ALA* 1.3 75.1 - - - +
1123C LEU* 1.3 74.8 + - + +
1125C ALA* 3.2 2.6 + - - +
1126C ASN* 2.6 58.4 + - - -
1276C PHE* 3.7 30.7 - + + -
1281C GLU* 3.7 17.4 + - - -
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Residues in contact with LEU1123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1054C PHE* 3.5 48.0 - - + -
1059C VAL* 4.0 12.3 - - + -
1119C GLY 2.9 19.6 + - - +
1120C MET* 3.3 15.5 + - + +
1122C TYR* 1.3 83.7 - - + +
1124C ASN* 1.3 58.0 + - - +
1126C ASN* 2.9 19.0 + - - +
1127C LYS 3.2 0.2 + - - -
1128C PHE* 3.0 49.9 + - + +
1130C HIS* 4.5 1.3 - - + -
1148C ILE* 3.9 28.5 - - + -
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Residues in contact with ASN1124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1120C MET* 2.8 24.8 + - - +
1121C ALA* 4.0 5.4 - - - +
1123C LEU* 1.3 78.0 - - - +
1125C ALA* 1.3 55.6 + - - +
1127C LYS* 3.0 23.4 + - - +
1128C PHE 2.9 22.0 + - - +
1129C VAL* 4.5 0.8 - - - +
1188C THR* 2.6 45.9 + - + +
1191C ASP* 3.7 16.2 + - - -
1256C PHE* 3.4 20.2 - - + -
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Residues in contact with ALA1125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1121C ALA 2.9 19.3 + - - +
1122C TYR 3.2 5.1 + - - +
1124C ASN* 1.3 75.6 - - - +
1126C ASN* 1.3 61.3 + - - +
1127C LYS* 3.2 8.7 + - - +
1257C LEU* 6.4 1.8 - - + -
1276C PHE* 3.7 22.7 - - + -
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Residues in contact with ASN1126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1053C GLU* 5.1 5.5 - - + +
1054C PHE* 5.0 13.3 - - + -
1122C TYR* 2.6 62.1 + - + +
1123C LEU* 2.9 12.5 + - - +
1125C ALA* 1.3 81.2 - - - +
1127C LYS* 1.3 71.0 + - - +
1128C PHE* 3.3 4.0 + - - +
1276C PHE* 5.4 1.2 - - - -
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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
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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) + - + + + + + -
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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