Contacts of the helix formed by residues 1181 - 1203 (chain E) in PDB entry 2X4Y
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 LYS1181 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1179E GLY 3.5 0.4 - - - -
1180E ARG* 1.3 80.9 - - - +
1182E SER* 1.3 68.8 + - - +
1183E ASN* 3.1 33.8 + - - +
1184E ILE* 3.0 19.3 + - + +
1185E ARG* 3.0 28.9 + - - +
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Residues in contact with SER1182 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1181E LYS* 1.3 74.7 - - - +
1183E ASN* 1.3 56.8 + - - +
1185E ARG* 3.2 26.3 + - - +
1186E LYS* 2.8 30.0 + - - +
1189E GLN* 5.4 0.2 + - - -
1185M ARG* 3.6 23.3 + - - -
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Residues in contact with ASN1183 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1181E LYS* 3.1 43.1 - - - +
1182E SER* 1.3 72.0 - - - +
1184E ILE* 1.3 78.2 + - - +
1186E LYS* 3.6 17.0 - - - +
1187E SER* 3.1 23.2 + - - -
1180M ARG 6.1 1.3 - - - +
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Residues in contact with ILE1184 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1097E PRO* 3.7 33.2 - - + -
1179E GLY* 4.0 11.9 - - - -
1180E ARG* 5.0 4.0 - - + +
1181E LYS* 3.0 24.8 + - + +
1183E ASN* 1.3 98.6 + - - +
1185E ARG* 1.3 66.2 + - - +
1187E SER* 3.2 7.7 + - - -
1188E VAL* 3.2 21.9 + - + +
39F HIS* 6.4 0.2 - - - +
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Residues in contact with ARG1185 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1182A SER* 5.3 7.1 + - - -
1186A LYS* 4.0 17.2 - - - +
1176E MET 3.9 18.1 - - - +
1177E LEU* 4.4 16.7 - - - +
1179E GLY* 2.9 44.9 + - - +
1180E ARG* 3.7 5.5 + - - +
1181E LYS* 3.0 18.4 + - - +
1182E SER* 3.5 34.6 + - - +
1184E ILE* 1.3 78.5 - - - +
1186E LYS* 1.3 55.8 + - - +
1188E VAL* 3.2 8.5 + - - +
1189E GLN* 2.9 47.5 + - - +
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Residues in contact with LYS1186 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1182E SER* 2.8 17.7 + - - +
1183E ASN* 3.6 15.7 - - - +
1185E ARG* 1.3 77.2 - - - +
1187E SER* 1.3 57.4 + - - +
1189E GLN* 3.2 12.5 + - - +
1190E ILE* 2.8 43.4 + - + +
1177M LEU* 2.8 43.5 + - + +
1178M GLU 3.5 8.7 + - - -
1179M GLY 3.3 18.1 + - - -
1180M ARG* 4.6 7.0 - - - +
1185M ARG* 3.5 33.4 - - - +
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Residues in contact with SER1187 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1099E TYR* 3.1 31.9 + - - -
1183E ASN 3.1 11.1 + - - -
1184E ILE* 3.2 9.6 + - - -
1186E LYS* 1.3 79.9 - - - +
1188E VAL* 1.3 57.5 - - - +
1190E ILE* 3.4 10.1 + - - +
1191E ALA 3.0 22.0 + - - -
1194E ARG* 5.3 0.7 + - - -
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Residues in contact with VAL1188 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1090E TRP* 3.7 32.8 - - + -
1097E PRO* 3.8 28.0 - - + -
1098E SER 3.9 6.5 - - - +
1099E TYR* 3.9 22.2 - - + -
1100E PRO* 3.9 2.7 - - + +
1175E LYS 4.8 1.8 - - - +
1176E MET* 4.2 17.7 - - + +
1179E GLY 6.0 1.3 - - - +
1184E ILE 3.2 13.9 + - - +
1185E ARG* 3.5 10.3 - - - +
1187E SER* 1.3 78.0 - - - +
1189E GLN* 1.3 58.0 + - - +
1191E ALA* 3.1 4.7 + - - +
1192E TYR* 2.9 25.8 + - - +
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Residues in contact with GLN1189 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1176E MET* 4.0 36.4 + - + +
1185E ARG* 2.9 41.5 + - - +
1186E LYS* 3.6 5.6 - - - +
1188E VAL* 1.3 69.5 - - - +
1190E ILE* 1.3 65.4 + - - +
1192E TYR* 3.2 1.9 + - - +
1193E HIS* 3.0 36.4 + - + +
1177M LEU* 3.5 33.3 - - + +
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Residues in contact with ILE1190 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1150E ASN* 5.3 0.4 - - - +
1186E LYS* 2.8 31.3 + - + +
1187E SER* 3.7 8.5 - - - +
1189E GLN* 1.3 74.6 - - - +
1191E ALA* 1.4 58.6 + - - +
1193E HIS* 3.2 6.1 + - - +
1194E ARG* 2.9 62.8 + - - +
1174M GLU* 3.9 23.2 - - + +
1177M LEU* 3.7 42.6 - - + +
1178M GLU* 4.6 3.8 - - - +
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Residues in contact with ALA1191 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1099E TYR* 3.4 28.7 - - + +
1100E PRO* 3.8 10.0 - - + +
1148E PHE* 3.4 34.4 - - + +
1187E SER 3.0 12.6 + - - +
1188E VAL 3.1 6.9 + - - +
1190E ILE* 1.4 77.2 - - - +
1192E TYR* 1.3 59.0 + - - +
1194E ARG* 3.2 5.0 + - - +
1195E ALA* 2.9 25.5 + - - +
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Residues in contact with TYR1192 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1090E TRP* 3.6 19.1 - + + -
1100E PRO* 3.5 12.1 - - + +
1165E LEU* 3.8 20.4 - - + -
1166E GLY* 4.6 0.7 - - - -
1169E GLN* 4.7 11.4 + - - +
1172E ASP* 2.8 46.3 + - + +
1176E MET* 3.7 30.2 - - + +
1188E VAL 2.9 13.2 + - - +
1189E GLN 3.2 7.2 + - - +
1191E ALA* 1.3 77.4 - - - +
1193E HIS* 1.3 79.2 + + - +
1195E ALA* 3.1 5.0 + - - +
1196E LEU* 3.0 54.1 + - + +
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Residues in contact with HIS1193 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1176E MET* 5.3 2.8 - - + +
1189E GLN* 3.0 36.6 + - + +
1190E ILE 3.2 3.6 + - - +
1192E TYR* 1.3 94.1 - + - +
1194E ARG* 1.3 60.0 + - - +
1196E LEU 3.2 0.8 + - - +
1197E GLN* 2.9 35.3 + - - +
1170M ASP* 3.0 44.0 + - + +
1173M LYS* 3.5 50.5 - - + +
1174M GLU* 4.2 7.6 - - + +
1177M LEU* 4.5 8.5 - - + +
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Residues in contact with ARG1194 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1099E TYR* 4.8 2.2 + - - -
1148E PHE* 2.9 40.0 + - + -
1149E ASP* 3.6 11.8 - - - +
1150E ASN* 2.5 35.8 + - - +
1187E SER 5.3 0.6 + - - -
1190E ILE* 2.9 38.3 + - - +
1191E ALA* 3.5 8.1 - - - +
1192E TYR 3.2 0.2 - - - -
1193E HIS* 1.3 74.0 - - - +
1195E ALA* 1.3 66.7 + - - +
1197E GLN* 3.2 10.4 + - - +
1198E HIS* 3.0 21.8 + - - +
1174M GLU* 3.3 31.7 + - - +
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Residues in contact with ALA1195 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088E LEU* 3.6 12.3 - - + +
1100E PRO* 4.2 9.9 - - + -
1101E ALA 5.5 0.2 - - - +
1148E PHE* 3.6 32.5 - - + -
1165E LEU* 4.2 17.7 - - + -
1191E ALA 2.9 13.5 + - - +
1192E TYR 3.1 9.8 + - - +
1194E ARG* 1.3 76.5 - - - +
1196E LEU* 1.3 65.2 + - - +
1198E HIS* 3.2 4.3 + - - +
1199E ARG 3.1 17.3 + - - -
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Residues in contact with LEU1196 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088E LEU* 4.7 2.7 - - + -
1165E LEU* 3.9 26.2 - - + -
1166E GLY* 4.5 2.5 - - - -
1192E TYR* 3.0 51.0 + - + +
1193E HIS 3.9 0.4 - - - +
1194E ARG 3.2 0.4 - - - -
1195E ALA* 1.3 79.4 - - - +
1197E GLN* 1.3 58.2 + - - +
1199E ARG* 3.3 39.4 + - - +
1200E SER* 3.0 30.9 + - - -
1170M ASP* 3.5 33.4 - - - +
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Residues in contact with GLN1197 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1193E HIS 2.9 24.2 + - - +
1194E ARG* 3.5 9.6 - - - +
1196E LEU* 1.3 75.3 - - - +
1198E HIS* 1.3 64.6 + - - +
1200E SER* 3.2 8.2 + - - -
1201E LYS* 3.0 41.7 + - - +
1168M ASN* 4.0 11.5 + - - +
1170M ASP* 3.5 22.3 - - + +
1171M LEU* 3.6 37.2 - - - +
1174M GLU* 2.8 26.9 + - - +
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Residues in contact with HIS1198 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1086E LEU* 5.0 3.4 + - - +
1088E LEU* 4.1 21.8 - - + -
1102E LEU* 3.9 30.3 - - + +
1115E HIS* 5.3 3.0 - + - -
1118E VAL* 4.0 20.5 - - + +
1120E ILE* 4.3 10.1 - - + +
1148E PHE* 4.0 19.5 - + + -
1152E ARG* 5.6 1.8 + - - -
1194E ARG 3.0 12.5 + - - +
1195E ALA 3.2 7.6 + - - +
1197E GLN* 1.3 73.6 - - - +
1199E ARG* 1.3 72.6 + - - +
1201E LYS* 3.2 12.2 + - - +
1202E VAL* 2.9 44.1 + - + +
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Residues in contact with ARG1199 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088E LEU* 3.9 18.8 - - + +
1165E LEU 4.7 1.8 + - - -
1166E GLY* 2.7 36.8 + - - -
1195E ALA 3.1 12.4 + - - +
1196E LEU* 3.4 37.0 + - - +
1198E HIS* 1.3 81.8 - - - +
1200E SER* 1.3 58.7 + - - +
1202E VAL* 3.1 6.4 + - + +
1203E GLN* 2.9 56.5 + - + +
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Residues in contact with SER1200 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1196E LEU 3.0 16.6 + - - -
1197E GLN* 3.5 11.2 - - - -
1198E HIS 3.1 0.2 - - - -
1199E ARG* 1.3 78.6 + - - +
1201E LYS* 1.3 60.4 + - - +
1203E GLN* 3.2 11.0 + - - +
1204E GLY 3.1 5.0 + - - -
1205E GLU* 2.9 49.5 + - - +
1168M ASN* 4.9 11.7 + - - -
1170M ASP* 4.8 5.9 + - - -
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Residues in contact with LYS1201 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116E HIS 4.4 4.7 - - - +
1118E VAL* 3.9 26.5 - - + +
1197E GLN* 3.0 30.2 + - - +
1198E HIS* 3.6 12.7 - - - +
1200E SER* 1.3 78.2 - - - +
1202E VAL* 1.3 61.8 + - - +
1204E GLY* 3.3 11.6 + - - -
1205E GLU* 4.4 7.6 - - - +
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Residues in contact with VAL1202 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1115E HIS* 3.5 34.5 - - + +
1116E HIS* 3.6 34.3 - - + +
1118E VAL* 3.9 20.0 - - + -
1198E HIS* 2.9 41.7 + - + +
1199E ARG* 3.1 9.2 + - + +
1201E LYS* 1.3 76.5 - - - +
1203E GLN* 1.3 61.8 + - + +
1204E GLY 3.1 3.5 + - - -
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Residues in contact with GLN1203 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1199E ARG* 2.9 47.2 + - + +
1200E SER* 3.2 3.6 + - - +
1202E VAL* 1.3 78.7 - - + +
1204E GLY* 1.3 67.5 + - - +
1205E GLU* 2.9 31.5 + - - +
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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