Contacts of the helix formed by residues 201 - 227 (chain A) in PDB entry 2IQV
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 PHE 201 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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137A ILE* 5.8 3.6 - - + -
197A LEU* 2.3 49.8 + - + +
199A THR 3.6 2.6 + - - -
200A MET* 1.3 76.5 - - - +
202A PHE* 1.3 84.8 + + - +
203A THR 3.1 0.6 - - - +
204A MET* 4.3 6.8 - - - +
205A LEU* 2.3 82.4 + - + +
262A PHE* 3.8 42.8 - + + -
266A ILE* 5.2 10.8 - - + -
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Residues in contact with PHE 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A ILE* 4.8 8.1 - - + -
197A LEU* 2.7 35.3 + - + -
198A ILE* 3.5 27.6 - - + +
201A PHE* 1.3 95.7 - + - +
203A THR* 1.3 56.8 - - - +
205A LEU* 4.3 2.9 - - - -
206A ALA* 2.8 33.1 + - - +
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Residues in contact with THR 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198A ILE* 2.6 29.6 + - - +
199A THR* 3.9 21.3 + - + +
202A PHE* 1.3 75.3 - - - +
204A MET* 1.3 62.7 + - + +
206A ALA* 3.4 4.0 - - - +
207A LEU* 2.9 47.3 + - + +
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Residues in contact with MET 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A LEU* 4.1 19.3 - - + -
137A ILE* 3.4 34.3 - - + +
138A CYS* 3.9 29.8 - - + -
141A LEU* 4.0 24.4 - - + +
176A ALA* 4.4 11.2 - - + -
199A THR 4.2 19.3 - - - +
200A MET* 4.9 4.7 - - + -
201A PHE* 3.2 9.2 + - - +
203A THR* 1.3 75.2 - - + +
205A LEU* 1.3 58.8 + - + +
207A LEU* 3.0 8.5 + - - +
208A MET* 2.5 41.1 + - + +
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Residues in contact with LEU 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A ILE* 5.5 7.6 - - + -
201A PHE* 2.3 92.5 + - + +
202A PHE* 4.1 2.9 - - - +
204A MET* 1.3 72.0 - - + +
206A ALA* 1.3 52.5 + - - +
208A MET* 3.1 30.8 - - + +
209A ALA* 2.7 37.5 + - - +
255A VAL* 5.7 6.1 - - + -
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Residues in contact with ALA 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202A PHE 2.8 22.1 + - - +
203A THR* 3.4 5.4 - - - +
205A LEU* 1.3 78.4 - - - +
207A LEU* 1.3 51.8 + - + +
209A ALA* 3.4 5.7 + - - +
210A SER* 2.6 43.1 + - - +
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Residues in contact with LEU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A LEU* 3.5 36.8 - - + -
203A THR* 2.9 35.2 + - + +
204A MET 3.5 1.1 - - - +
206A ALA* 1.3 75.6 - - + +
208A MET* 1.3 55.1 + - - +
210A SER* 3.0 9.3 + - - +
211A LEU* 2.7 45.2 + - + +
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Residues in contact with MET 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A ILE* 6.5 0.7 - - + -
140A LEU* 4.1 22.2 - - + +
141A LEU* 4.4 6.4 - - + +
144A ALA* 4.5 13.8 - - + +
204A MET* 2.5 19.2 + - + +
205A LEU* 3.1 38.6 - - + +
207A LEU* 1.3 72.7 - - - +
209A ALA* 1.3 52.1 + - + +
211A LEU* 3.7 1.8 - - - +
212A TYR* 2.7 37.9 + - + +
251A ILE* 3.2 53.2 - - + -
255A VAL* 4.9 5.4 - - + -
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Residues in contact with ALA 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205A LEU 2.7 23.6 + - - +
206A ALA* 3.7 5.2 - - - +
208A MET* 1.3 72.7 - - + +
210A SER* 1.3 58.2 + - - +
212A TYR* 3.9 9.9 - - + -
213A VAL* 2.6 44.8 + - + +
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Residues in contact with SER 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206A ALA* 2.6 26.7 + - - +
207A LEU* 3.3 12.7 - - - +
209A ALA* 1.3 77.6 - - - +
211A LEU* 1.3 60.9 + - - +
213A VAL* 4.6 2.0 - - - -
214A HIS* 2.8 48.5 + - - +
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Residues in contact with LEU 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A LEU* 4.0 10.1 - - + -
144A ALA* 3.4 35.4 - - + +
145A VAL* 3.4 34.5 - - + -
148A TYR* 3.2 48.0 - - + -
207A LEU* 2.7 24.7 + - + +
208A MET 4.0 0.4 - - - +
210A SER* 1.3 73.9 - - - +
212A TYR* 1.3 53.0 + - - +
214A HIS* 4.0 2.8 - - - +
215A MET* 2.5 42.1 + - - +
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Residues in contact with TYR 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ALA* 5.5 0.8 - - - +
208A MET* 2.7 23.8 + - + +
209A ALA* 3.2 9.2 + - + +
211A LEU* 1.3 77.0 - - - +
213A VAL* 1.3 73.8 + - + +
215A MET* 3.6 11.1 - - - +
216A PHE* 2.9 43.8 + + + +
248A THR* 3.5 37.4 - - + +
251A ILE* 6.2 5.2 - - + -
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Residues in contact with VAL 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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209A ALA* 2.6 29.0 + - + +
210A SER* 4.0 3.1 - - - +
212A TYR* 1.3 87.3 - - + +
214A HIS* 1.3 68.3 + - + +
216A PHE* 4.1 3.7 - - - +
217A LEU* 2.8 42.9 + - + +
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Residues in contact with HIS 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A TYR* 3.6 30.2 + + + -
152A PHE* 3.7 24.0 - + + -
210A SER* 2.8 38.9 + - - +
211A LEU 4.0 0.7 - - - +
213A VAL* 1.3 85.6 - - + +
215A MET* 1.3 57.4 + - - +
217A LEU* 4.2 14.7 - - + +
218A MET* 2.7 37.1 + - - +
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Residues in contact with MET 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ALA* 5.8 4.9 - - - +
147A ARG* 4.7 11.4 - - + -
148A TYR* 4.9 5.8 - - + -
151A ILE* 4.0 30.2 - - + +
211A LEU 2.5 24.9 + - - +
212A TYR* 3.6 13.5 - - - +
213A VAL 3.2 0.2 - - - -
214A HIS* 1.3 73.8 - - - +
216A PHE* 1.3 59.3 + - - +
218A MET* 3.9 0.7 - - - +
219A ALA* 2.8 34.3 + - + +
244A ALA* 2.9 41.7 - - + +
247A LEU* 5.9 1.1 - - + -
248A THR* 3.1 27.1 - - + +
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Residues in contact with PHE 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212A TYR* 2.9 31.5 + + + +
213A VAL* 4.1 3.6 - - - +
215A MET* 1.3 78.1 - - + +
217A LEU* 1.3 63.1 + - + +
219A ALA* 3.7 5.9 - - + +
220A ARG* 2.8 56.0 + - + +
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Residues in contact with LEU 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A PHE* 6.4 1.3 - - + -
213A VAL* 2.8 29.0 + - + +
214A HIS* 4.1 16.4 - - + +
216A PHE* 1.3 83.0 - - + +
218A MET* 1.3 62.1 + - - +
220A ARG* 3.4 16.5 - - - +
221A LEU* 3.3 34.5 + - + +
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Residues in contact with MET 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A ILE* 3.3 36.8 - - + +
152A PHE* 4.1 29.2 - - + -
153A TYR* 4.5 7.6 - - + +
214A HIS 2.7 25.6 + - - +
215A MET 4.0 2.0 - - - +
217A LEU* 1.3 74.5 - - + +
219A ALA* 1.3 66.6 + - - +
220A ARG 3.1 0.6 + - - -
221A LEU* 3.4 20.8 + - + +
222A HIS* 3.4 17.3 + - + +
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Residues in contact with ALA 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A ILE* 5.2 6.7 - - + -
215A MET* 2.8 27.2 + - + +
216A PHE* 3.8 7.0 - - + +
218A MET* 1.3 80.6 - - - +
220A ARG* 1.3 52.6 + - - +
222A HIS* 3.1 8.8 + - - +
223A ILE* 2.8 47.9 + - + +
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Residues in contact with ARG 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216A PHE* 2.8 38.2 + - + +
217A LEU* 3.4 18.3 - - - +
218A MET 3.1 0.2 - - - -
219A ALA* 1.3 73.5 - - - +
221A LEU* 1.3 59.7 + - + +
222A HIS 2.8 8.5 + - - -
223A ILE* 2.9 8.5 + - + +
224A LYS* 2.5 74.8 + - + +
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Residues in contact with LEU 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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217A LEU* 3.3 27.0 + - + +
218A MET* 3.4 15.4 + - + +
220A ARG* 1.3 84.7 - - + +
222A HIS* 1.3 56.7 + - - +
224A LYS* 4.1 8.7 - - + -
225A ARG* 3.1 24.3 + - - +
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Residues in contact with HIS 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218A MET* 3.4 17.4 + - + +
219A ALA* 3.1 12.9 + - - +
220A ARG 2.8 1.6 + - - -
221A LEU* 1.3 78.7 - - - +
223A ILE* 1.3 63.6 + - + +
224A LYS 3.1 0.9 - - - -
225A ARG* 2.8 38.2 + - - +
226A ILE* 2.8 53.7 + - + +
237A GLN* 3.5 27.4 + - - +
241A MET* 5.5 7.2 - - + -
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Residues in contact with ILE 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219A ALA* 2.8 34.3 + - + +
220A ARG* 3.8 6.7 - - + +
222A HIS* 1.3 71.8 - - + +
224A LYS* 1.3 56.4 + - + +
225A ARG 2.9 4.9 - - - -
226A ILE* 4.5 2.2 - - - +
227A ALA* 2.6 52.3 + - + +
232A THR* 6.2 0.2 - - - -
241A MET* 5.3 14.8 - - + -
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Residues in contact with LYS 224 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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220A ARG* 2.5 59.7 + - + +
221A LEU* 4.1 10.1 - - + -
223A ILE* 1.3 73.0 - - + +
225A ARG* 1.3 56.3 + - - +
227A ALA* 4.8 2.2 - - - -
228A VAL* 3.1 19.1 - - + +
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Residues in contact with ARG 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A LEU 3.1 17.0 - - - +
222A HIS* 2.8 31.7 + - - +
224A LYS* 1.3 81.2 - - - +
226A ILE* 1.3 67.3 + - + +
228A VAL* 3.2 20.4 - - - +
229A LEU* 5.8 1.6 - - - +
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Residues in contact with ILE 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222A HIS* 2.8 53.3 + - + +
223A ILE* 5.1 1.3 - - - -
225A ARG* 1.3 82.9 - - + +
227A ALA* 1.3 55.3 + - - +
228A VAL 2.7 15.7 + - - -
229A LEU* 2.8 20.1 + - + +
231A GLY 3.5 8.4 - - - +
232A THR* 3.0 36.6 - - - +
233A GLY 4.7 8.3 - - - +
237A GLN* 5.9 2.9 - - + -
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Residues in contact with ALA 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223A ILE* 2.6 34.6 + - + +
224A LYS* 4.8 2.0 - - - -
226A ILE* 1.3 77.1 - - - +
228A VAL* 1.3 63.7 + - - +
229A LEU 2.8 11.8 - - - +
231A GLY 4.5 3.8 - - - -
232A THR* 4.5 11.8 - - + -
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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