Contacts of the helix formed by residues 179 - 209 (chain A) in PDB entry 2L6X
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 SER 179 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A ALA* 5.7 2.9 - - - +
177A THR 4.3 1.2 - - - +
178A ALA* 1.3 79.8 - - - +
180A PRO* 1.3 76.9 - - - +
181A ALA* 3.2 8.3 - - - -
182A VAL* 3.6 19.8 + - - +
183A GLN* 3.1 26.0 + - - +
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Residues in contact with PRO 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A ALA 4.7 0.7 - - - +
179A SER* 1.3 90.4 - - - +
181A ALA* 1.3 60.8 + - + +
183A GLN* 4.1 10.3 - - + +
184A SER* 2.9 32.2 + - - -
245A GLU* 3.6 10.0 - - - +
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Residues in contact with ALA 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TRP* 4.8 14.9 - - + +
179A SER* 3.2 6.0 - - - -
180A PRO* 1.3 82.0 - - + +
182A VAL* 1.3 67.7 + - + +
184A SER* 3.2 3.1 + - - -
185A ALA* 3.0 25.2 + - - +
245A GLU* 4.2 27.6 + - + +
246A SER* 5.4 2.7 - - - +
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Residues in contact with VAL 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TRP* 5.6 2.7 - - + -
113A LEU* 3.2 42.5 - - + +
116A ALA* 4.9 11.4 - - + -
171A GLY* 6.0 4.9 - - - +
178A ALA* 4.9 9.9 - - + -
179A SER* 3.6 27.5 + - - +
181A ALA* 1.3 79.3 - - + +
183A GLN* 1.3 58.5 + - - +
185A ALA* 3.4 3.0 + - - +
186A TYR* 2.9 32.0 + - + +
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Residues in contact with GLN 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A LYS* 4.3 32.4 + - + +
177A THR 5.2 5.7 - - - +
178A ALA* 5.4 3.1 - - + +
179A SER 3.1 16.9 + - - +
180A PRO* 4.2 8.9 - - - +
182A VAL* 1.3 80.2 - - - +
184A SER* 1.3 59.1 + - - +
186A TYR* 4.0 10.3 - - + +
187A ASN* 3.0 44.4 + - + +
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Residues in contact with SER 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A PRO 2.9 20.8 + - - -
181A ALA 3.5 1.3 - - - -
182A VAL 3.2 0.4 - - - -
183A GLN* 1.3 78.7 + - - +
185A ALA* 1.3 52.6 + - - +
187A ASN* 3.9 3.4 - - - +
188A THR* 2.6 43.0 + - - +
241A VAL* 3.5 7.2 - - - -
245A GLU* 2.9 41.1 + - - -
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TRP* 3.5 33.7 - - + -
109A PHE* 5.0 5.4 - - + -
113A LEU* 5.4 3.6 - - + -
181A ALA 3.0 15.0 + - - +
182A VAL* 3.9 3.8 - - - +
184A SER* 1.3 77.1 - - - +
186A TYR* 1.3 58.6 + - - +
188A THR* 2.8 17.5 + - - -
189A MET* 2.9 20.6 + - - +
238A ILE* 4.1 7.3 - - + +
241A VAL* 3.7 15.4 - - + +
242A ALA 5.5 0.2 - - - +
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Residues in contact with TYR 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A PHE* 5.4 1.8 - + - -
110A TYR* 4.5 15.0 - + - -
113A LEU* 4.9 13.9 - - + +
166A LEU* 2.6 63.5 + - + +
167A TRP* 3.7 9.3 + + - -
169A GLY* 5.9 1.3 - - - -
172A LYS* 5.9 10.1 - - + -
182A VAL* 2.9 21.1 + - + +
183A GLN* 4.0 9.9 - - + +
185A ALA* 1.3 74.5 - - - +
187A ASN* 1.3 72.1 + - + +
189A MET* 3.1 7.7 + - + +
190A MET* 2.9 37.6 + - + +
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Residues in contact with ASN 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A GLN* 3.0 31.8 + - + +
184A SER* 3.9 4.0 - - - +
186A TYR* 1.3 83.0 - - + +
188A THR* 1.3 60.6 + - + +
190A MET* 3.4 8.2 + - - +
191A TYR* 2.9 51.1 + - - +
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Residues in contact with THR 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A SER* 2.6 26.6 + - - +
185A ALA* 2.8 18.2 + - - -
187A ASN* 1.3 78.3 - - + +
189A MET* 1.3 61.1 + - - +
191A TYR* 3.4 6.9 + - - +
192A ILE* 3.0 30.6 + - - +
237A ILE* 3.9 19.8 - - + +
238A ILE* 5.2 0.2 - - - +
241A VAL* 3.7 22.5 - - + +
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Residues in contact with MET 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ILE* 6.4 1.6 - - - -
109A PHE* 3.8 20.0 - - + -
110A TYR* 5.7 3.8 - - + +
185A ALA 2.9 20.2 + - - +
186A TYR* 3.1 9.4 + - + +
188A THR* 1.3 78.6 + - - +
190A MET* 1.3 57.1 + - - +
192A ILE* 3.3 10.5 + - + -
193A ILE* 2.9 57.5 + - + +
234A PHE* 3.4 42.2 - - + +
237A ILE* 5.2 1.6 - - + -
238A ILE* 3.4 29.2 - - + -
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Residues in contact with MET 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A ILE* 3.2 36.1 - - + +
166A LEU* 3.4 40.8 - - + -
167A TRP* 3.7 32.8 - - + +
186A TYR* 2.9 30.2 + - + +
187A ASN* 3.8 9.0 - - - +
189A MET* 1.3 77.1 - - - +
191A TYR* 1.3 61.9 + - + +
193A ILE* 3.8 6.2 - - + +
194A ILE* 2.9 48.1 + - + +
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Residues in contact with TYR 191 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A ASN* 2.9 40.8 + - - +
188A THR* 3.5 9.6 - - - +
190A MET* 1.3 78.1 - - + +
192A ILE* 1.3 59.0 + - + +
194A ILE* 3.8 8.7 - - + +
195A PHE* 3.0 61.3 + + - +
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Residues in contact with ILE 192 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A THR* 3.0 18.1 + - - +
189A MET* 3.8 12.6 - - + +
191A TYR* 1.3 73.7 - - + +
193A ILE* 1.3 61.1 - - + +
195A PHE* 3.2 7.4 + - + +
196A GLY* 2.8 34.7 + - - +
229A VAL* 5.1 8.1 - - + +
230A ASN* 6.1 1.6 - - - +
233A LEU* 4.4 28.3 - - + -
234A PHE* 5.2 2.7 - - - +
237A ILE* 3.6 39.7 - - + -
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Residues in contact with ILE 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LEU* 6.3 1.6 - - + -
106A ILE* 5.8 8.7 - - + -
126A LYS* 6.1 5.8 - - - -
162A MET* 5.7 4.5 - - - -
163A ILE* 5.7 4.5 - - + -
166A LEU* 6.5 0.7 - - + -
189A MET* 2.9 49.3 + - + +
190A MET* 3.8 8.1 - - + +
192A ILE* 1.3 76.3 - - + +
194A ILE* 1.3 62.0 + - + +
197A TRP* 2.9 82.2 + - + +
234A PHE* 5.2 4.7 - - + -
301A RET 6.4 0.4 - - + -
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Residues in contact with ILE 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A TRP* 3.2 34.4 + - + +
163A ILE* 3.3 42.2 - - + -
167A TRP* 6.1 0.7 - - + -
190A MET* 2.9 39.6 + - + +
191A TYR* 3.8 9.9 - - + +
193A ILE* 1.3 75.7 - - + +
195A PHE* 1.3 63.3 + - + +
197A TRP* 4.1 2.4 - - - +
198A ALA* 2.8 41.9 + - + +
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Residues in contact with PHE 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A TYR* 3.0 46.2 + + - +
192A ILE* 3.6 8.7 - - + +
194A ILE* 1.3 85.0 - - + +
196A GLY* 1.3 51.7 + - - +
198A ALA* 3.5 4.6 - - - +
199A ILE* 2.7 54.2 + - + +
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Residues in contact with GLY 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A ILE* 2.8 21.1 + - - +
195A PHE* 1.3 72.8 - - - +
197A TRP* 1.3 55.9 + - - +
199A ILE* 2.7 32.8 + - - +
200A TYR* 3.0 12.5 + - - +
226A ALA* 5.7 1.4 - - - +
229A VAL* 5.6 8.5 - - - -
230A ASN* 4.0 17.8 + - - -
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Residues in contact with TRP 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A TRP* 6.2 1.3 - + - -
102A VAL* 6.4 2.2 - - + -
106A ILE* 6.4 2.5 - - + -
126A LYS* 5.9 4.5 - - + -
129A VAL* 5.3 5.4 - - + -
130A GLY* 6.1 4.3 - - - -
133A VAL* 5.3 10.5 - - + -
159A TRP* 5.8 17.3 - + + -
162A MET* 4.3 31.9 - - + -
193A ILE* 2.9 59.4 + - + +
194A ILE* 4.1 3.6 - - - +
196A GLY* 1.3 72.0 - - - -
198A ALA* 1.3 55.6 + - - +
200A TYR* 3.6 4.7 - - - +
201A PRO* 2.9 23.2 - - - +
230A ASN* 3.9 22.5 - - - +
301A RET 3.3 60.2 - - + +
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Residues in contact with ALA 198 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A TRP* 5.4 14.1 - - + -
194A ILE* 2.8 27.9 + - + +
195A PHE* 3.5 4.9 - - - +
197A TRP* 1.3 75.1 - - - +
199A ILE* 1.3 61.1 + - + +
201A PRO* 3.1 15.5 - - - +
202A VAL* 2.9 24.1 - - + +
----------------------------------------------------------
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Residues in contact with ILE 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A PHE* 2.7 47.9 + - + +
196A GLY* 2.7 13.0 + - - +
198A ALA* 1.3 77.2 - - - +
200A TYR* 1.3 65.5 + - - +
202A VAL* 2.9 24.2 + - + +
203A GLY* 2.9 14.4 + - - +
222A ILE* 5.7 0.2 - - - +
225A LEU* 5.3 13.5 - - + -
226A ALA* 6.4 1.6 - - + -
229A VAL* 6.4 1.3 - - + -
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Residues in contact with TYR 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ALA* 5.2 3.5 - - + +
196A GLY 3.0 9.0 + - - +
197A TRP* 3.6 8.5 - - - +
199A ILE* 1.3 78.6 - - - +
201A PRO* 1.3 76.6 - - + +
203A GLY* 4.1 0.3 - - - -
204A TYR* 3.0 56.6 + + + +
222A ILE* 4.2 8.5 - - + +
223A TYR* 3.6 39.9 + + - -
226A ALA* 4.4 28.5 - - + -
230A ASN* 5.6 2.2 - - - +
301A RET 3.3 71.9 - - + +
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Residues in contact with PRO 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ALA* 5.7 2.5 - - + +
152A PHE* 4.8 29.8 - - + +
197A TRP 2.9 20.6 - - - +
198A ALA* 3.1 20.0 - - - +
200A TYR* 1.3 106.1 - - + +
202A VAL* 1.3 61.6 + - + +
204A TYR* 4.0 7.6 - - + -
205A PHE* 3.3 25.3 + - - +
301A RET 5.0 8.1 - - + -
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Residues in contact with VAL 202 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A ALA* 2.9 26.0 - - + +
199A ILE* 2.9 18.1 + - + +
201A PRO* 1.3 81.8 - - + +
203A GLY* 1.3 62.0 + - - +
205A PHE* 4.1 5.2 + - - +
206A THR* 3.9 12.1 + - - -
----------------------------------------------------------
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Residues in contact with GLY 203 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A ILE* 2.9 13.3 + - - +
200A TYR 4.1 0.4 - - - -
202A VAL* 1.3 77.2 - - - +
204A TYR* 1.3 67.1 + - - +
205A PHE 3.2 0.2 - - - -
206A THR* 2.9 32.3 + - - +
222A ILE* 3.0 18.4 - - - +
----------------------------------------------------------
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Residues in contact with TYR 204 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ALA* 3.2 46.7 - - + +
151A ALA* 5.4 2.9 - - + -
200A TYR* 3.0 49.9 + + + +
201A PRO* 4.2 4.9 - - + -
203A GLY* 1.3 76.9 - - - +
205A PHE* 1.3 51.3 + - - +
207A GLY* 2.7 8.0 + - - -
208A TYR* 2.7 44.5 + - + +
219A LEU* 3.6 41.2 - - + +
222A ILE* 3.7 17.2 - - + +
223A TYR* 4.0 21.4 + + - -
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Residues in contact with PHE 205 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A TRP* 4.0 25.1 - + - -
201A PRO 3.3 17.2 + - - +
202A VAL 4.2 5.6 - - - +
203A GLY 3.2 0.2 - - - -
204A TYR* 1.3 79.8 - - - +
206A THR* 1.3 64.9 + - - +
207A GLY 3.0 1.6 + - - -
208A TYR* 3.3 18.8 + + - -
209A LEU* 3.6 40.0 + - + -
210A MET* 4.0 11.4 + - + +
----------------------------------------------------------
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Residues in contact with THR 206 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A VAL 3.9 6.7 + - - -
203A GLY* 2.9 25.0 + - - +
205A PHE* 1.3 83.0 - - - +
207A GLY* 1.3 52.0 + - - +
210A MET* 2.6 29.3 - - - +
211A GLY* 3.8 5.9 - - - -
218A ASN* 4.0 20.5 + - - +
222A ILE* 4.2 1.1 - - + -
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Residues in contact with GLY 207 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A GLY 3.5 1.0 + - - -
204A TYR 2.7 8.0 + - - -
206A THR* 1.3 85.3 - - - +
208A TYR* 1.3 60.7 + - - +
210A MET 3.1 10.0 - - - +
211A GLY* 4.9 1.6 - - - -
214A GLY* 5.1 8.5 - - - -
215A SER 4.6 6.2 + - - +
218A ASN* 4.4 18.8 - - - -
219A LEU* 3.4 20.6 - - - +
222A ILE* 4.7 2.9 - - - -
----------------------------------------------------------
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Residues in contact with TYR 208 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A MET* 5.7 2.4 - - - -
147A ALA 5.3 1.4 + - - -
148A ALA* 3.1 28.1 + - + +
149A TRP* 3.1 48.1 + - + +
150A PRO* 4.9 0.5 - - - +
204A TYR* 2.7 36.1 + + + +
205A PHE* 3.3 17.6 + + - -
207A GLY* 1.3 76.5 - - - +
209A LEU* 1.3 94.6 + - + +
214A GLY* 5.5 5.4 - - - -
219A LEU* 4.7 2.5 - - + -
----------------------------------------------------------
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Residues in contact with LEU 209 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A TRP* 4.3 15.3 - - + -
205A PHE* 3.6 34.0 + - + -
208A TYR* 1.3 112.1 - - + +
210A MET* 1.3 63.3 + - + +
213A GLY 6.0 0.9 - - - -
214A GLY* 5.7 4.3 + - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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