Contacts of the helix formed by residues 190 - 224 (chain P) in PDB entry 2DYS
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 ASP 190 (chain P).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121P ILE* 4.1 14.0 - - + +
185P PRO 4.2 2.4 - - - +
186P PHE* 3.3 13.7 - - + +
187P THR* 3.0 45.8 + - - +
188P ILE 3.2 0.8 - - - -
189P SER* 1.3 73.5 - - - +
191P GLY* 1.3 64.8 + - - +
193P TYR* 3.9 2.8 + - - +
194P GLY* 3.2 12.0 + - - -
53T LEU* 3.6 27.9 - - + +
54T ARG* 3.0 43.7 + - - +
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Residues in contact with GLY 191 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218N THR* 3.0 19.1 - - - -
224N GLY* 3.5 6.3 - - - -
112P LEU* 5.7 1.3 - - - -
188P ILE 3.9 1.2 - - - +
189P SER 2.9 12.3 + - - -
190P ASP* 1.3 73.6 - - - +
192P VAL* 1.3 56.7 + - - -
193P TYR 4.2 0.2 - - - -
195P SER* 2.8 34.5 + - - -
52T HIS 3.3 19.8 + - - -
53T LEU* 4.8 0.7 - - - -
55T ILE* 3.9 2.2 - - - +
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Residues in contact with VAL 192 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218N THR* 3.1 20.2 + - - +
219N PHE* 4.2 12.6 - - + -
224N GLY 2.9 21.0 + - - +
225N GLY 3.7 17.5 - - - +
226N GLY* 4.3 1.1 - - - -
104P SER* 3.2 26.2 - - - +
112P LEU* 4.2 8.7 - - + +
116P TRP* 3.6 25.6 - - + -
191P GLY* 1.3 69.4 - - - -
193P TYR* 1.3 60.9 + - - +
195P SER* 3.7 6.5 - - - -
196P THR* 2.9 43.8 + - + +
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Residues in contact with TYR 193 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101P PHE* 5.8 2.0 - + - -
116P TRP* 3.4 35.0 - + + -
117P PRO* 4.0 11.0 - - + -
118P PRO* 3.8 25.4 - - + +
121P ILE* 3.8 24.9 - - + -
123P PRO* 3.8 21.7 - - + +
124P LEU 4.9 0.7 + - - -
186P PHE* 3.7 32.4 - + - -
190P ASP 4.2 5.4 - - - +
191P GLY 3.2 0.8 - - - -
192P VAL* 1.3 79.0 - - - +
194P GLY* 1.3 70.5 + - - +
196P THR* 3.2 3.5 + - - -
197P PHE* 3.0 37.5 + + + +
256P ILE* 4.8 9.4 + - + -
257P TYR* 6.1 0.2 - - - -
260P GLY 4.0 20.6 + - - -
261P SER* 5.4 0.5 - - - -
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Residues in contact with GLY 194 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186P PHE* 4.6 3.6 - - - -
187P THR 3.2 23.1 - - - -
188P ILE* 3.8 7.2 - - - -
190P ASP* 3.2 11.7 + - - -
191P GLY 3.8 1.6 - - - -
193P TYR* 1.3 85.2 - - - +
195P SER* 1.3 61.7 + - - +
197P PHE* 4.5 1.3 - - - -
198P PHE* 3.0 35.4 + - - +
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Residues in contact with SER 195 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217N THR* 3.1 23.3 - - - -
218N THR 2.8 26.0 + - - -
219N PHE* 3.8 15.7 - - - -
188P ILE* 3.6 6.7 + - - -
191P GLY 2.8 21.8 + - - -
192P VAL* 3.5 10.8 - - - -
194P GLY* 1.3 75.7 - - - +
196P THR* 1.3 61.7 + - - +
199P VAL* 2.9 32.2 + - - +
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Residues in contact with THR 196 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219N PHE* 4.0 21.8 - - + -
97P PHE* 5.6 1.1 - - - -
100P ALA* 4.4 3.8 - - + +
101P PHE* 3.8 50.1 - - + +
104P SER* 4.9 2.7 - - - +
116P TRP* 4.6 3.0 - - + -
192P VAL* 2.9 37.1 + - + +
193P TYR* 3.2 7.4 + - - -
195P SER* 1.3 72.7 - - - +
197P PHE* 1.3 67.8 + - - +
200P ALA* 3.1 29.6 + - - +
256P ILE* 4.6 2.1 - - - +
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Residues in contact with PHE 197 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124P LEU* 3.8 16.2 - - + -
181P TYR* 4.4 7.0 - + - -
186P PHE* 3.8 24.0 - + + -
193P TYR* 3.0 36.1 + + + +
194P GLY 3.8 2.7 - - - +
196P THR* 1.3 81.9 + - - +
198P PHE* 1.3 75.6 + + - +
200P ALA* 4.2 0.2 - - - +
201P THR* 2.5 52.9 + - + +
256P ILE* 3.4 31.4 - - + -
257P TYR* 3.4 46.0 - + - -
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Residues in contact with PHE 198 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181P TYR* 3.6 36.8 - + - -
184P ALA* 4.1 7.2 - - + -
186P PHE* 3.5 33.4 - + - -
187P THR 3.5 18.8 - - - -
188P ILE* 3.5 23.8 - - + -
194P GLY 3.0 23.5 + - - +
197P PHE* 1.3 84.3 - + - +
199P VAL* 1.3 57.6 + - - +
201P THR* 3.6 1.1 - - - -
202P GLY* 2.6 32.7 + - - -
305P PEK 3.2 61.4 - - + +
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Residues in contact with VAL 199 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207N THR* 5.4 1.8 - - + -
208N MET* 5.5 0.2 - - + -
211N THR* 4.7 9.0 - - + +
217N THR* 4.1 13.7 - - + -
219N PHE* 3.6 23.3 - - + -
97P PHE* 3.7 28.9 - - + -
188P ILE* 4.1 10.1 - - + -
195P SER 2.9 25.5 + - - +
196P THR* 4.5 0.7 - - - +
198P PHE* 1.3 75.9 - - - +
200P ALA* 1.3 57.4 + - - +
203P PHE* 3.0 45.3 + - + -
305P PEK 4.2 14.5 - - + +
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Residues in contact with ALA 200 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94P PHE* 3.9 11.0 - - + -
97P PHE* 4.7 24.7 - - + +
98P PHE* 6.1 0.9 - - + -
101P PHE* 6.4 0.2 - - + -
196P THR* 3.1 19.8 + - - +
199P VAL* 1.3 73.6 - - - +
201P THR* 1.3 60.3 + - - +
202P GLY 3.1 1.3 - - - -
203P PHE* 3.5 1.7 + - - -
204P HIS* 3.0 27.7 + - - +
252P LEU* 3.9 12.7 - - + +
256P ILE* 3.8 21.1 - - + -
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Residues in contact with THR 201 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177P GLN* 4.3 17.0 + - - +
181P TYR* 2.7 27.4 + - - -
197P PHE* 2.5 33.8 + - + +
198P PHE* 3.6 2.1 - - - -
200P ALA* 1.3 74.0 - - + +
202P GLY* 1.3 60.2 + - - +
204P HIS* 3.7 1.7 + - - +
205P GLY* 2.8 26.5 + - - -
252P LEU* 4.1 22.2 - - + -
256P ILE* 5.0 3.6 - - + -
257P TYR* 3.8 34.1 - - + +
305P PEK 5.0 0.3 - - - +
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Residues in contact with GLY 202 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181P TYR* 2.9 9.3 + - - -
198P PHE 2.6 27.8 + - - -
201P THR* 1.3 74.4 - - - +
203P PHE* 1.3 61.4 + - - +
205P GLY* 3.0 4.3 + - - -
206P LEU* 3.0 19.6 + - - +
305P PEK 3.5 34.2 - - - +
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Residues in contact with PHE 203 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207N THR* 4.1 11.0 - - + -
609N PGV 4.4 6.7 - - + -
93P PHE* 4.1 19.7 - + + -
94P PHE* 4.1 13.2 - - + -
97P PHE* 3.9 30.5 - + + -
199P VAL* 3.0 38.9 + - + +
200P ALA* 4.0 3.4 - - - +
202P GLY* 1.3 71.5 - - - +
204P HIS* 1.3 66.8 + - - +
206P LEU* 3.2 20.1 + - + +
207P HIS* 2.7 36.4 + + + +
302P DMU 5.7 1.8 - - + -
305P PEK 3.8 61.2 - - + +
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Residues in contact with HIS 204 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94P PHE* 3.8 13.2 - + + -
137P LEU* 4.0 2.0 - - + -
173P PHE* 3.7 16.2 - + - -
177P GLN* 5.4 0.8 + - - -
200P ALA 3.0 19.3 + - - +
201P THR 3.8 3.7 + - - +
203P PHE* 1.3 76.2 - - - +
205P GLY* 1.3 63.5 + - - +
207P HIS* 3.0 8.0 + - + +
208P VAL* 2.9 41.6 + - + +
245P VAL* 2.8 36.1 + - + +
248P VAL* 3.8 21.3 - - + -
249P TRP* 3.6 33.0 - + + +
252P LEU* 3.6 16.3 - - + +
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Residues in contact with GLY 205 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173P PHE* 4.9 7.2 - - - -
174P THR* 5.1 0.7 + - - +
177P GLN* 5.7 2.2 - - - -
201P THR 2.8 16.7 + - - -
202P GLY 3.0 5.4 + - - -
204P HIS* 1.3 78.1 + - - +
206P LEU* 1.3 55.6 + - - +
208P VAL* 3.3 11.0 + - - +
209P ILE* 3.0 31.5 + - - +
305P PEK 3.8 20.6 - - - -
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Residues in contact with LEU 206 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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609N PGV 4.3 8.7 - - + -
202P GLY 3.0 11.3 + - - +
203P PHE* 3.4 21.5 - - + +
205P GLY* 1.3 75.1 - - - +
207P HIS* 1.3 59.2 + - - +
209P ILE* 3.1 14.5 + - + +
210P ILE* 3.0 44.6 + - + +
301P DCW 3.9 22.2 - - + -
302P DMU 4.7 9.9 - - + -
305P PEK 4.1 31.7 - - + +
307P PGV 5.2 8.1 - - + -
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Residues in contact with HIS 207 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90P GLU* 3.3 10.3 + - - +
93P PHE* 5.1 6.0 - + - -
94P PHE* 3.6 27.6 - + - -
203P PHE* 2.7 36.0 + + + -
204P HIS* 3.0 13.1 + - + +
206P LEU* 1.3 72.3 - - - +
208P VAL* 1.3 61.6 + - - +
210P ILE* 3.3 5.3 + - - +
211P GLY* 2.8 27.2 + - - -
241P TYR* 3.0 30.7 - - - +
244P PHE* 3.7 15.7 - + - -
245P VAL* 3.8 15.2 - - + +
301P DCW 3.1 41.5 + - + +
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Residues in contact with VAL 208 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137P LEU* 4.9 2.9 - - + -
170P GLY* 3.9 8.5 - - - +
173P PHE* 3.6 26.2 - - + -
174P THR* 3.6 20.4 - - - +
204P HIS* 2.9 45.2 + - + +
205P GLY 3.4 7.4 - - - +
207P HIS* 1.3 76.0 - - - +
209P ILE* 1.3 56.7 + - - +
211P GLY 3.3 0.2 + - - -
212P SER* 2.9 35.1 + - - +
242P TRP* 3.7 16.9 - - + -
245P VAL* 3.6 16.4 - - + -
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Residues in contact with ILE 209 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174P THR* 4.0 30.1 - - + +
205P GLY 3.0 17.6 + - - +
206P LEU* 3.1 16.1 + - + +
208P VAL* 1.3 77.9 - - - +
210P ILE* 1.3 57.0 + - + +
212P SER* 3.4 6.5 + - - -
213P THR* 2.8 31.0 + - - -
305P PEK 4.7 18.6 - - + -
307P PGV 4.2 20.6 - - + -
309P CDL 3.8 31.6 - - + +
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Residues in contact with ILE 210 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206P LEU* 3.0 30.3 + - + +
207P HIS* 3.7 5.2 - - - +
209P ILE* 1.3 74.5 - - + +
211P GLY* 1.3 60.5 + - - +
213P THR* 3.3 8.6 + - - -
214P PHE* 2.9 27.0 + - + +
241P TYR* 4.0 19.3 - - + +
301P DCW 3.1 40.4 - - + -
307P PGV 3.5 64.7 - - + +
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Residues in contact with GLY 211 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207P HIS 2.8 19.7 + - - -
208P VAL 3.8 0.9 - - - -
210P ILE* 1.3 73.0 - - - +
212P SER* 1.3 52.3 + - - +
214P PHE* 3.1 7.6 + - - +
215P LEU* 2.8 37.1 + - - +
238P ALA 5.3 1.8 - - - +
241P TYR* 3.8 21.3 - - - -
242P TRP* 3.8 17.0 - - - -
245P VAL* 5.4 0.2 - - - -
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Residues in contact with SER 212 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167P ILE* 4.8 6.0 + - - +
170P GLY* 4.0 16.9 - - - -
171P VAL* 5.3 3.4 - - - -
174P THR* 4.9 0.3 + - - -
208P VAL* 2.9 23.0 + - - +
209P ILE* 3.4 5.6 - - - -
211P GLY* 1.3 73.4 - - - +
213P THR* 1.3 59.0 + - - +
215P LEU* 3.1 10.1 + - - +
216P ILE* 2.8 36.9 + - - +
242P TRP* 3.6 18.7 - - - -
309P CDL 4.0 19.8 - - - +
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Residues in contact with THR 213 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209P ILE 2.8 16.7 + - - -
210P ILE* 3.5 9.0 - - - -
212P SER* 1.3 75.7 - - - +
214P PHE* 1.3 63.5 + - - +
216P ILE* 3.1 13.1 + - - +
217P VAL* 2.9 22.5 + - - +
307P PGV 3.7 32.0 - - + +
309P CDL 3.4 60.4 - - + +
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Residues in contact with PHE 214 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83P MET* 4.5 2.2 - - + -
210P ILE* 2.9 14.2 + - + +
211P GLY* 3.1 12.1 + - - +
213P THR* 1.3 77.3 - - - +
215P LEU* 1.3 63.3 + - - +
217P VAL* 3.1 5.0 + - + +
218P CYS* 3.1 22.6 + - - -
234P GLY 3.4 24.9 - - - -
237P ALA* 3.9 14.6 - - + -
238P ALA* 3.5 29.4 - - + -
241P TYR* 4.7 11.4 - + + -
307P PGV 3.5 88.8 - - + +
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Residues in contact with LEU 215 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144P ILE* 3.6 24.9 - - + -
163P LEU* 4.0 15.4 - - + +
166P THR* 3.6 28.3 - - + +
167P ILE* 3.8 20.4 - - + +
211P GLY 2.8 14.5 + - - +
212P SER* 3.3 10.1 - - - +
214P PHE* 1.3 77.0 - - - +
216P ILE* 1.3 56.6 + - - +
218P CYS* 3.1 7.7 + - - +
219P PHE* 2.8 27.0 + - - +
235P PHE* 5.2 2.7 - - + -
238P ALA* 4.0 22.0 - - + +
242P TRP* 3.7 32.3 - - + -
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Residues in contact with ILE 216 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167P ILE* 3.8 32.8 - - + -
171P VAL* 5.8 1.1 - - + -
212P SER* 2.8 28.6 + - - +
213P THR* 3.4 7.6 - - - +
215P LEU* 1.3 69.8 - - - +
217P VAL* 1.3 66.7 + - - +
219P PHE* 3.0 13.8 + - + +
220P PHE* 3.1 38.7 + - + -
309P CDL 3.7 56.3 - - + -
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Residues in contact with VAL 217 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213P THR 2.9 16.8 + - - +
214P PHE* 3.4 9.9 - - + +
216P ILE* 1.3 76.0 - - - +
218P CYS* 1.3 65.7 + - - +
220P PHE* 3.2 2.4 + - - +
221P ARG* 3.0 39.2 + - - +
307P PGV 4.1 29.4 - - + +
309P CDL 3.8 70.3 - - + +
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Residues in contact with CYS 218 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163P LEU* 4.0 10.8 - - + -
214P PHE* 3.1 25.0 + - - -
215P LEU* 3.1 8.9 + - - +
217P VAL* 1.3 76.8 - - - +
219P PHE* 1.3 58.2 + - - +
221P ARG* 3.3 1.6 + - - -
222P GLN* 2.8 31.0 + - - +
227P PHE* 3.3 21.5 - - + -
234P GLY* 3.6 26.7 - - - -
235P PHE* 3.8 16.6 - - + -
238P ALA* 3.7 14.6 - - - -
307P PGV 5.8 0.4 - - - -
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Residues in contact with PHE 219 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160P LEU* 3.3 45.1 - - + +
163P LEU* 3.5 24.2 - - + +
164P PHE* 3.9 12.1 - + + -
167P ILE* 4.0 17.0 - - + -
215P LEU 2.8 12.2 + - - +
216P ILE* 3.1 11.9 - - + +
218P CYS* 1.3 76.9 - - - +
220P PHE* 1.3 78.8 + + + +
222P GLN* 3.1 6.3 - - - +
223P LEU* 3.0 44.5 + - + +
310P CHD 4.1 27.1 - - + -
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Residues in contact with PHE 220 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216P ILE* 3.1 39.9 + - + -
217P VAL 3.8 4.5 - - - +
219P PHE* 1.3 89.0 - + - +
221P ARG* 1.3 63.9 + - - +
222P GLN 3.1 1.6 - - - -
223P LEU* 3.5 26.9 + - + +
224P LYS* 3.1 39.5 + - + +
309P CDL 3.7 38.8 - - + +
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Residues in contact with ARG 221 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62P ILE* 3.2 35.0 - - - +
66P THR* 2.9 28.1 + - - -
217P VAL* 3.0 33.2 + - + +
218P CYS* 3.7 5.1 - - - +
220P PHE* 1.3 76.1 - - - +
222P GLN* 1.3 61.6 + - - +
224P LYS 3.4 1.2 + - - -
225P PHE 3.3 3.1 + - - -
226P HIS* 2.8 63.0 + - + +
227P PHE* 3.2 28.0 - - + -
234P GLY* 4.2 0.6 - - - -
307P PGV 2.8 53.9 + - - -
309P CDL 3.9 15.0 - - - -
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Residues in contact with GLN 222 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151P LEU* 4.0 2.5 - - - +
156P ARG* 2.7 51.0 + - - +
159P MET* 3.8 31.6 - - + +
160P LEU* 3.3 25.1 - - + -
218P CYS 2.8 13.5 + - - +
219P PHE* 3.1 11.4 - - - +
221P ARG* 1.3 75.6 - - - +
223P LEU* 1.3 57.7 + - - +
225P PHE* 3.0 8.8 + - - -
226P HIS 4.8 0.4 - - - +
227P PHE* 3.6 28.6 + - + +
6S VAL* 3.8 25.5 - - - +
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Residues in contact with LEU 223 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156P ARG* 2.6 28.5 + - - +
160P LEU* 3.7 12.6 - - + -
219P PHE* 3.0 28.4 + - + +
220P PHE* 3.6 36.3 - - + +
222P GLN* 1.3 77.3 - - - +
224P LYS* 1.3 60.9 + - + +
225P PHE* 3.1 11.1 - - - -
310P CHD 3.5 35.0 - - + +
1W PHE* 4.1 34.0 - - + +
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Residues in contact with LYS 224 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220P PHE* 3.1 26.3 + - - +
222P GLN 3.1 1.0 - - - -
223P LEU* 1.3 78.3 - - + +
225P PHE* 1.3 73.3 + - - +
226P HIS* 3.3 23.0 + - + +
309P CDL 3.4 76.5 + - - +
1W PHE* 4.9 17.2 - - + -
2W GLU 5.7 0.9 - - - -
3W ASN* 4.5 0.2 - - - +
4W ARG 5.0 3.1 + - - -
5W VAL* 3.6 9.5 - - - +
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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
------------------------------------------------------------
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