Contacts of the helix formed by residues 1181 - 1203 (chain G) in PDB entry 2X4X
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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1179G GLY 3.4 0.2 - - - -
1180G ARG* 1.3 102.7 - - + +
1182G SER* 1.3 66.7 + - - +
1183G ASN* 3.2 20.7 + - - +
1184G ILE* 3.2 24.8 + - + +
1185G ARG* 3.0 25.6 + - - +
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Residues in contact with SER1182 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1185A ARG* 5.1 8.7 + - - -
1181G LYS* 1.3 72.1 - - - +
1183G ASN* 1.3 58.0 + - - +
1185G ARG* 3.1 29.0 + - - +
1186G LYS* 2.8 30.4 + - - +
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Residues in contact with ASN1183 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1181G LYS* 3.3 25.4 - - - +
1182G SER* 1.3 71.7 - - - +
1184G ILE* 1.3 78.2 + - - +
1186G LYS* 3.2 9.6 + - - +
1187G SER* 3.0 24.9 + - - -
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Residues in contact with ILE1184 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1097G PRO* 3.5 35.9 - - + -
1099G TYR* 5.5 0.2 - - - -
1179G GLY* 4.1 8.7 - - - -
1180G ARG* 4.5 8.7 - - + +
1181G LYS* 3.2 44.6 + - + +
1183G ASN* 1.3 88.4 - - - +
1185G ARG* 1.3 61.5 + - - +
1187G SER* 3.4 6.8 + - - -
1188G VAL* 3.1 22.3 + - + +
39H HIS* 5.8 6.1 - - - +
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Residues in contact with ARG1185 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1186C LYS* 3.9 21.7 - - - +
1176G MET 3.9 18.0 - - - +
1177G LEU* 3.9 21.5 - - - +
1179G GLY* 3.0 41.0 + - - +
1180G ARG 3.8 8.3 + - - -
1181G LYS 3.0 21.5 + - - +
1182G SER* 3.6 30.3 + - - +
1184G ILE* 1.3 73.0 - - - +
1186G LYS* 1.3 62.6 + - - +
1188G VAL* 3.2 9.3 + - - +
1189G GLN* 2.8 41.8 + - - +
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Residues in contact with LYS1186 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1177A LEU* 3.1 42.5 + - + +
1178A GLU 3.9 4.6 + - - -
1179A GLY 2.9 27.1 + - - -
1180A ARG* 4.1 7.7 + - - +
1185A ARG* 4.0 22.5 - - - +
1182G SER* 2.8 19.6 + - - +
1183G ASN* 3.2 9.4 + - - +
1185G ARG* 1.3 74.6 - - - +
1187G SER* 1.3 57.1 + - - +
1189G GLN* 3.2 12.0 + - - +
1190G ILE* 2.8 44.4 + - + +
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Residues in contact with SER1187 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1099G TYR* 3.1 24.6 + - - -
1150G ASN* 5.7 3.8 + - - -
1183G ASN 3.0 16.8 + - - -
1184G ILE* 3.6 7.4 - - - -
1186G LYS* 1.3 77.1 - - - +
1188G VAL* 1.3 56.8 + - - +
1190G ILE* 3.4 10.3 + - - +
1191G ALA* 2.9 29.6 + - - +
1194G ARG* 5.5 0.5 + - - -
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Residues in contact with VAL1188 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1090G TRP* 3.7 32.3 - - + -
1097G PRO* 4.1 16.4 - - + -
1098G SER 4.0 11.7 - - - +
1099G TYR* 3.9 26.9 - - + -
1100G PRO* 3.9 3.2 - - + +
1175G LYS 4.8 1.1 - - - +
1176G MET* 4.1 17.7 - - + +
1179G GLY 5.9 2.0 - - - +
1184G ILE* 3.1 15.9 + - + +
1185G ARG* 3.5 10.1 - - - +
1187G SER* 1.3 75.7 - - - +
1189G GLN* 1.3 58.2 + - - +
1191G ALA* 3.2 4.1 + - - +
1192G TYR* 2.8 26.2 + - - +
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Residues in contact with GLN1189 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177A LEU* 3.7 27.2 - - + +
1176G MET* 4.0 29.7 + - + +
1185G ARG* 2.8 36.5 + - - +
1186G LYS* 3.5 12.9 - - - +
1188G VAL* 1.3 73.5 - - - +
1190G ILE* 1.3 63.7 + - - +
1192G TYR* 3.0 8.6 + - - +
1193G HIS* 3.0 35.9 + - + +
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Residues in contact with ILE1190 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1174A GLU* 4.0 19.9 - - + +
1177A LEU* 3.7 39.5 - - + +
1178A GLU* 5.6 1.8 - - - -
1150G ASN* 5.3 0.2 - - - +
1186G LYS* 2.8 35.6 + - + +
1187G SER* 3.7 8.5 - - - +
1189G GLN* 1.3 75.8 - - - +
1191G ALA* 1.3 64.4 + - - +
1193G HIS* 3.1 6.7 + - - +
1194G ARG* 2.9 57.2 + - - +
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Residues in contact with ALA1191 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1099G TYR* 3.4 34.1 - - + +
1100G PRO* 3.8 9.4 - - + +
1148G PHE* 3.5 26.2 - - + +
1187G SER 2.9 15.9 + - - +
1188G VAL 3.5 5.2 - - - +
1190G ILE* 1.3 77.9 - - - +
1192G TYR* 1.3 57.8 + - - +
1194G ARG* 3.3 5.5 + - - +
1195G ALA* 2.8 28.6 + - - +
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Residues in contact with TYR1192 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1090G TRP* 3.7 16.8 - + - -
1100G PRO* 3.7 11.4 - - + +
1165G LEU* 3.8 22.9 - - + -
1166G GLY* 4.7 0.9 - - - -
1169G GLN* 4.9 9.7 + - - +
1172G ASP* 2.8 46.3 + - + +
1176G MET* 3.4 31.8 - - + +
1188G VAL 2.8 13.4 + - - +
1189G GLN 3.0 9.3 + - - +
1191G ALA* 1.3 78.1 - - - +
1193G HIS* 1.3 75.6 + + - +
1195G ALA* 3.1 5.1 + - - +
1196G LEU* 2.9 53.2 + - + +
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Residues in contact with HIS1193 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1170A ASP* 3.3 36.3 + - - +
1173A LYS* 3.7 44.7 - - + +
1174A GLU* 4.1 9.0 - - + -
1177A LEU* 4.2 16.0 - - + +
1176G MET* 5.2 3.5 - - + -
1189G GLN* 3.0 33.9 + - - +
1190G ILE 3.8 4.5 - - - +
1192G TYR* 1.3 95.0 - + - +
1194G ARG* 1.3 62.1 + - - +
1196G LEU* 3.4 1.6 + - - +
1197G GLN* 3.0 30.3 + - - +
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Residues in contact with ARG1194 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1174A GLU* 3.3 29.7 + - - +
1099G TYR* 5.0 1.2 + - - -
1148G PHE* 3.0 41.0 + - + -
1149G ASP* 3.5 13.2 - - - +
1150G ASN* 2.5 35.2 + - - +
1152G ARG* 6.2 1.3 - - - +
1187G SER 5.5 0.4 + - - -
1190G ILE* 2.9 36.7 + - - +
1191G ALA* 3.5 9.8 - - - +
1193G HIS* 1.3 73.8 - - - +
1195G ALA* 1.3 65.0 + - - +
1197G GLN* 3.2 11.5 + - - +
1198G HIS* 3.0 22.0 + - - +
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Residues in contact with ALA1195 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088G LEU* 3.6 13.1 - - + +
1100G PRO* 4.1 10.3 - - + -
1148G PHE* 3.7 32.2 - - + -
1165G LEU* 4.1 17.5 - - + -
1191G ALA 2.8 17.6 + - - +
1192G TYR 3.2 10.1 - - - +
1194G ARG* 1.3 73.6 - - - +
1196G LEU* 1.3 61.9 + - - +
1198G HIS* 3.1 14.6 + - - +
1199G ARG 3.2 9.2 + - - -
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Residues in contact with LEU1196 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1170A ASP* 3.6 34.8 - - - +
1088G LEU* 4.4 2.2 - - + -
1165G LEU* 4.0 23.3 - - + -
1166G GLY* 4.3 5.2 - - - -
1192G TYR* 2.9 49.7 + - + +
1193G HIS 3.9 0.7 - - - +
1194G ARG 3.3 0.2 - - - -
1195G ALA* 1.3 73.2 - - - +
1197G GLN* 1.3 65.5 + - - +
1199G ARG* 3.4 39.8 + - - +
1200G SER* 3.1 25.6 + - - -
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Residues in contact with GLN1197 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1168A ASN* 3.7 21.7 - - - +
1170A ASP* 3.6 8.5 + - + -
1171A LEU* 3.5 40.4 - - - +
1174A GLU* 2.8 26.6 + - - +
1193G HIS 3.0 26.8 + - - +
1194G ARG* 3.2 9.8 + - - +
1196G LEU* 1.3 74.4 - - - +
1198G HIS* 1.3 66.8 + - - +
1200G SER* 3.1 7.2 + - - -
1201G LYS* 3.0 42.2 + - - +
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Residues in contact with HIS1198 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1086G LEU* 5.0 3.8 + - - +
1088G LEU* 4.2 19.3 - - + -
1102G LEU* 3.8 30.5 - - + +
1115G HIS* 5.0 3.4 - + - -
1118G VAL* 4.2 25.4 - - + +
1120G ILE* 4.4 10.5 - - + -
1148G PHE* 3.9 19.6 - + + -
1152G ARG* 5.6 2.2 + - - -
1194G ARG 3.0 12.5 + - - +
1195G ALA 3.2 9.2 - - - +
1197G GLN* 1.3 75.8 - - - +
1199G ARG* 1.3 68.8 + - - +
1201G LYS* 3.1 13.5 + - - +
1202G VAL* 3.1 35.3 + - + +
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Residues in contact with ARG1199 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088G LEU* 3.9 21.9 - - + +
1165G LEU 4.2 3.8 + - - -
1166G GLY* 2.6 39.6 + - - -
1167G VAL* 5.3 1.6 - - - +
1195G ALA 3.2 3.2 + - - +
1196G LEU* 3.7 37.0 - - - +
1197G GLN 3.2 0.2 - - - -
1198G HIS* 1.3 86.5 - - + +
1200G SER* 1.3 61.8 + - - +
1202G VAL* 3.2 7.2 + - - +
1203G GLN* 2.9 54.5 + - - +
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Residues in contact with SER1200 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1168A ASN* 4.2 21.9 + - - -
1170A ASP* 5.0 5.0 + - - -
1196G LEU 3.1 17.1 + - - -
1197G GLN 3.1 5.6 + - - -
1199G ARG* 1.3 84.2 - - - +
1201G LYS* 1.3 62.8 + - - +
1203G GLN* 3.1 27.7 + - - +
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Residues in contact with LYS1201 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116G HIS 4.1 6.4 - - - +
1118G VAL* 3.9 26.3 - - + +
1197G GLN* 3.0 33.0 + - - +
1198G HIS* 3.1 11.6 + - - +
1200G SER* 1.3 74.8 - - - +
1202G VAL* 1.3 65.5 + - - +
1203G GLN 3.5 5.5 + - - +
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Residues in contact with VAL1202 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1115G HIS* 3.4 41.3 - - + +
1116G HIS* 3.4 33.1 + - + +
1118G VAL* 4.1 14.8 - - + -
1198G HIS* 3.1 30.5 + - + +
1199G ARG* 3.2 10.7 + - - +
1201G LYS* 1.3 76.6 - - - +
1203G GLN* 1.3 68.7 + - + +
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Residues in contact with GLN1203 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1199G ARG* 2.9 41.4 + - - +
1200G SER* 3.1 20.9 + - - +
1201G LYS 3.7 5.4 - - - +
1202G VAL* 1.3 90.3 - - + +
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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
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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