Contacts of the helix formed by residues 164 - 192 (chain A) in PDB entry 6GA6
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 ARG 164 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A MET* 1.3 80.4 - - - +
165A PRO* 1.3 66.2 - - + +
166A GLU* 2.3 45.3 + - - +
167A VAL* 3.0 22.1 - - + +
168A ALA* 2.9 26.0 + - - +
227A ARG* 3.4 17.4 + - - +
228A ALA* 3.9 7.3 + - - +
230A PHE 2.9 30.3 + - - -
231A GLY* 4.0 3.2 + - - -
232A GLU* 3.8 40.1 - - - +
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Residues in contact with PRO 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A MET 4.1 2.9 - - - +
164A ARG* 1.3 84.8 - - + +
166A GLU* 1.3 66.4 + - - +
168A ALA* 3.7 7.4 - - + +
169A SER* 2.8 32.3 + - - -
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Residues in contact with GLU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A ARG* 2.3 57.8 + - - +
165A PRO* 1.3 86.1 - - - +
167A VAL* 1.3 63.6 + - - +
169A SER* 3.2 5.9 + - - -
170A THR* 2.9 31.8 + - - +
226A SER* 5.3 0.9 - - - +
227A ARG* 4.5 10.3 - - + -
228A ALA* 3.5 15.8 - - + +
232A GLU* 4.5 9.5 - - - +
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Residues in contact with VAL 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 4.1 22.2 - - + +
101A VAL* 5.5 1.5 - - + +
160A ALA* 5.3 2.0 - - + -
163A MET* 3.4 36.1 - - + -
164A ARG* 3.0 47.3 + - - +
166A GLU* 1.3 74.6 - - - +
168A ALA* 1.3 60.6 + - - +
170A THR* 4.1 0.2 - - - -
171A PHE* 2.9 33.1 + - - +
228A ALA* 3.6 32.3 - - + +
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Residues in contact with ALA 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A ALA* 3.4 36.8 - - + +
161A GLU* 4.6 6.3 - - + +
163A MET 4.8 0.9 - - - +
164A ARG 2.9 13.7 + - - +
165A PRO* 3.7 8.3 - - + +
167A VAL* 1.3 79.3 - - - +
169A SER* 1.3 57.8 + - - +
171A PHE* 3.8 3.1 - - - +
172A LYS* 3.0 28.8 + - - +
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Residues in contact with SER 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A PRO 2.8 19.5 + - - -
166A GLU* 3.2 10.4 + - - -
168A ALA* 1.3 74.9 - - - +
170A THR* 1.3 67.2 + - - +
172A LYS* 3.4 17.0 + - - +
173A VAL* 3.2 28.5 + - - +
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Residues in contact with THR 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 4.2 7.9 - - + -
166A GLU* 2.9 18.9 + - - +
167A VAL 4.1 1.6 - - - -
169A SER* 1.3 76.7 + - - +
171A PHE* 1.3 67.0 + - - +
173A VAL* 3.3 6.8 + - - +
174A LEU* 3.0 43.5 + - + +
222A ILE* 4.8 6.5 - - + +
223A LEU* 4.3 7.9 - - + -
226A SER* 2.6 39.1 + - - +
228A ALA* 4.1 5.8 - - + -
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Residues in contact with PHE 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU* 4.1 28.5 - - + -
100A LEU* 3.7 14.1 - - + +
101A VAL* 3.4 24.5 - - + -
152A LEU* 3.8 9.0 - - + -
156A PHE* 3.3 39.5 - + + -
157A THR* 3.7 31.0 - - + -
160A ALA* 3.7 16.2 - - + -
167A VAL 2.9 19.7 + - - +
168A ALA 3.8 2.7 - - - +
170A THR* 1.3 77.3 - - - +
172A LYS* 1.3 56.9 + - - +
174A LEU* 3.2 1.2 + - - -
175A ARG* 2.7 54.9 + - + +
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Residues in contact with LYS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A ALA 3.0 17.9 + - - +
169A SER* 3.6 18.3 - - - +
170A THR 3.3 0.2 - - - -
171A PHE* 1.3 84.4 - - + +
173A VAL* 1.3 63.3 + - - +
175A ARG* 3.7 27.6 - - - +
176A ASN* 3.1 37.8 + - - +
306A OCT 4.6 15.8 - - + +
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Residues in contact with VAL 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A SER* 3.2 15.3 + - - +
170A THR* 3.7 8.5 - - - +
172A LYS* 1.3 79.3 - - + +
174A LEU* 1.3 59.2 + - - +
176A ASN* 3.3 3.1 + - - +
177A VAL* 2.9 39.1 + - + +
222A ILE* 4.1 26.2 - - + -
306A OCT 4.1 30.7 - - + +
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ASP* 6.2 0.2 - - + -
97A LEU* 3.6 15.9 - - + -
100A LEU* 4.0 9.2 - - + -
170A THR* 3.0 26.3 + - + +
171A PHE 3.9 1.3 - - - +
173A VAL* 1.3 74.2 - - - +
175A ARG* 1.3 57.9 + - - +
177A VAL* 3.7 4.2 - - + +
178A THR* 2.7 38.4 + - - -
219A PHE* 3.7 41.2 - - + +
222A ILE* 3.5 34.5 - - + -
223A LEU* 3.6 36.1 - - + -
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Residues in contact with ARG 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU* 4.5 7.8 - - - +
152A LEU* 3.5 24.2 - - + +
153A PHE* 3.6 25.7 - - - -
157A THR* 2.3 56.2 + - - +
171A PHE* 2.7 39.4 + - + +
172A LYS* 3.7 27.5 + - - +
174A LEU* 1.3 73.4 - - - +
176A ASN* 1.3 84.6 + - - +
178A THR* 3.3 5.1 + - - -
179A VAL* 2.9 46.1 + - + +
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Residues in contact with ASN 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A PHE* 4.3 7.3 - - - -
172A LYS* 3.1 20.6 + - - +
173A VAL 3.3 4.5 + - - +
175A ARG* 1.3 106.0 + - - +
177A VAL* 1.3 64.9 + - - +
179A VAL* 3.5 4.3 + - - +
180A VAL* 3.1 32.6 + - + +
306A OCT 3.6 42.3 - - + +
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Residues in contact with VAL 177 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A VAL* 2.9 24.2 + - + +
174A LEU* 3.7 7.2 - - + +
175A ARG 3.3 0.2 - - - -
176A ASN* 1.3 75.9 - - - +
178A THR* 1.3 59.8 + - - +
180A VAL* 4.0 0.7 - - - +
181A LEU* 3.0 52.5 + - + +
214A SER 4.9 4.0 - - - +
215A ALA* 5.5 0.4 - - - -
219A PHE* 4.8 17.9 - - + -
222A ILE* 4.2 21.8 - - + -
306A OCT 4.0 29.6 - - + -
312A DD9 4.3 12.8 - - + -
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Residues in contact with THR 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A LEU* 5.1 0.2 - - + -
97A LEU* 3.9 11.8 - - + +
149A LEU* 5.4 0.4 - - + -
152A LEU* 4.1 21.5 - - + -
174A LEU 2.7 21.8 + - - -
175A ARG* 3.6 4.9 - - - -
177A VAL* 1.3 78.4 - - - +
179A VAL* 1.3 58.2 + - - +
181A LEU* 4.9 0.4 - - - -
182A TRP* 2.8 74.9 + - + +
219A PHE* 3.4 24.1 - - - -
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Residues in contact with VAL 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A LEU* 4.0 35.9 - - + -
152A LEU* 4.7 7.4 - - + -
153A PHE* 3.3 39.0 - - + -
175A ARG* 2.9 29.9 + - + +
176A ASN* 4.1 3.6 - - - +
178A THR* 1.3 72.1 - - - +
180A VAL* 1.3 60.6 + - + +
182A TRP* 4.5 0.2 - - - +
183A SER* 2.7 34.6 + - - +
303A TRD 4.6 6.7 - - + -
307A OCT 4.1 21.0 - - + +
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Residues in contact with VAL 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ASN* 3.1 20.0 + - + +
177A VAL 4.0 2.0 - - - +
179A VAL* 1.3 77.9 - - + +
181A LEU* 1.3 72.9 + - + +
183A SER* 3.6 6.9 + - - -
184A ALA* 3.6 11.6 + - - +
306A OCT 4.7 24.2 - - + -
307A OCT 4.1 46.0 - - + +
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Residues in contact with LEU 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A VAL* 3.0 41.1 + - + +
178A THR* 4.2 1.1 - - - +
180A VAL* 1.3 83.1 - - + +
182A TRP* 1.3 72.8 + - + +
184A ALA* 3.2 15.6 + - - +
185A TYR* 3.2 16.4 - - + -
210A VAL* 6.6 0.2 - - + -
211A LEU* 3.9 24.8 - - + +
214A SER* 3.7 18.8 - - - +
215A ALA* 3.7 34.8 - - + +
306A OCT 5.7 4.5 - - + -
312A DD9 4.2 7.4 - - + -
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Residues in contact with TRP 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A THR* 3.6 21.1 - - + -
93A LEU* 4.1 21.3 - - + +
94A LEU* 3.7 20.2 - - + -
115A ASP* 3.5 25.8 - - - -
118A MET* 4.0 12.3 - - + -
145A MET* 3.7 10.3 - - + +
148A ILE* 4.6 11.7 - - + -
149A LEU* 5.0 6.7 - - + -
178A THR* 2.8 46.3 + - + +
179A VAL* 4.5 2.2 - - - +
181A LEU* 1.3 83.4 - - + +
183A SER* 1.3 61.0 - - - +
185A TYR* 3.1 21.1 + - - +
186A PRO* 3.2 10.6 - - - +
215A ALA* 4.5 7.3 + - + +
219A PHE* 6.3 0.4 - - - -
301A RET 3.3 53.7 - - + +
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Residues in contact with SER 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A MET* 4.1 10.3 - - - -
149A LEU* 3.5 20.3 - - - +
179A VAL* 2.7 23.4 + - - +
180A VAL 3.9 4.0 - - - -
181A LEU 3.2 0.6 - - - -
182A TRP* 1.3 77.5 - - - +
184A ALA* 1.3 61.0 + - - +
186A PRO* 3.3 15.2 - - - +
187A VAL* 3.6 12.6 - - - +
303A TRD 3.6 26.9 - - - +
307A OCT 4.0 18.4 - - - +
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Residues in contact with ALA 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A VAL 3.6 6.2 + - - +
181A LEU 3.2 11.5 + - - +
182A TRP 3.1 1.4 - - - -
183A SER* 1.3 76.6 - - - +
185A TYR* 1.3 66.6 + - - +
187A VAL* 3.1 6.8 + - - +
188A VAL* 2.9 25.5 + - + +
211A LEU* 3.8 24.0 - - + -
307A OCT 3.9 24.0 - - + +
308A MYS 4.3 8.7 - - + -
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Residues in contact with TYR 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A TRP* 3.7 11.4 - + - -
181A LEU 3.2 30.7 - - - -
182A TRP* 3.1 13.5 + + - +
184A ALA* 1.3 78.1 - - - +
186A PRO* 1.4 70.3 - - + +
188A VAL* 3.2 2.4 + - - +
189A TRP* 3.0 23.6 + - - +
208A PHE* 3.6 30.7 - + - -
211A LEU* 3.3 23.5 + - + -
212A ASP* 2.6 43.0 + - - -
215A ALA* 4.0 1.7 - - + +
301A RET 3.3 67.2 - - + +
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Residues in contact with PRO 186 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A TRP* 3.0 39.5 + - + +
142A THR* 3.8 6.1 - - - +
145A MET* 3.8 19.3 - - + -
182A TRP 3.2 15.0 - - - +
183A SER 3.3 14.6 - - - +
185A TYR* 1.4 93.1 - - + +
187A VAL* 1.3 55.2 + - - +
189A TRP* 3.8 0.2 - - - +
190A LEU* 3.0 18.4 + - - +
301A RET 3.7 35.9 - - + -
303A TRD 4.1 8.5 - - + -
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Residues in contact with VAL 187 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A TRP* 5.5 0.7 - - + -
183A SER 3.6 17.0 - - - +
184A ALA* 3.1 9.3 + - - +
186A PRO* 1.3 76.9 - - - +
188A VAL* 1.3 66.6 + - - +
190A LEU* 3.2 8.6 + - + +
191A ILE* 3.1 33.2 + - + +
303A TRD 4.3 17.7 - - + -
307A OCT 5.1 7.9 - - + -
308A MYS 4.2 28.5 - - + -
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Residues in contact with VAL 188 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ALA 2.9 17.0 + - - +
185A TYR 3.8 5.6 - - - +
187A VAL* 1.3 75.0 - - - +
189A TRP* 1.3 57.7 + - - +
191A ILE* 3.5 8.2 - - + +
192A GLY* 2.8 28.9 + - - -
199A VAL* 6.4 0.2 - - + -
204A GLU* 3.9 15.8 - - + +
207A LEU* 4.2 32.8 - - + -
208A PHE* 3.7 30.7 - - + -
211A LEU* 4.1 19.7 - - + -
308A MYS 4.7 14.4 - - + -
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Residues in contact with TRP 189 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A TYR* 2.8 28.5 + + - -
86A TRP* 5.4 0.7 - + - -
122A GLY* 4.1 4.8 + - - -
125A GLY* 3.8 9.2 - - - -
126A ALA* 3.8 22.7 - - - -
134A ARG* 3.8 20.9 - - + -
135A PHE* 4.7 8.3 - + - -
138A TRP* 3.3 34.8 - + + -
185A TYR 3.0 16.7 + - - +
186A PRO 3.8 3.6 - - - +
188A VAL* 1.3 79.5 - - - +
190A LEU* 1.3 64.2 + - - +
191A ILE 3.3 0.3 + - - -
192A GLY* 3.3 4.9 + - - +
194A GLU* 3.5 48.1 - - + +
195A GLY* 3.3 27.4 + - - -
208A PHE* 4.2 8.9 - + + -
301A RET 3.6 34.9 - - + +
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Residues in contact with LEU 190 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A PHE* 3.7 34.5 - - + -
138A TRP* 3.9 31.9 - - + +
186A PRO 3.0 18.7 + - - +
187A VAL* 3.6 8.3 - - + +
189A TRP* 1.3 82.7 - - - +
191A ILE* 1.3 60.6 + - + +
195A GLY* 3.4 0.7 - - - -
196A ALA* 2.7 37.6 + - + +
310A L2P 3.9 37.9 - - + -
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Residues in contact with ILE 191 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A VAL* 3.1 25.3 + - + +
188A VAL* 3.5 8.7 - - + +
190A LEU* 1.3 84.5 - - + +
192A GLY* 1.3 63.8 + - - +
196A ALA* 4.4 6.1 - - + -
197A GLY 4.0 0.4 - - - -
198A ILE* 2.9 42.9 + - + -
199A VAL* 2.9 36.1 + - + -
207A LEU* 5.4 2.5 - - + -
308A MYS 4.1 31.4 - - + -
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Residues in contact with GLY 192 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A VAL 2.8 17.8 + - - -
189A TRP 3.3 1.4 + - - -
191A ILE* 1.3 78.8 - - - +
193A SER* 1.3 60.5 + - - -
194A GLU 3.2 2.9 - - - -
195A GLY 3.0 13.1 + - - -
197A GLY* 2.9 24.0 + - - -
199A VAL* 3.6 14.6 - - - -
204A GLU* 3.6 10.8 - - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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