Contacts of the helix formed by residues 180 - 207 (chain A) in PDB entry 3QJQ
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 PRO 180 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A GLU* 3.3 23.1 - - + +
97A LEU* 3.8 19.1 - - + -
170A TRP* 3.5 33.7 - - + +
178A VAL 3.2 7.8 - - - +
179A THR* 1.4 93.3 - - + +
181A LEU* 1.3 61.1 + - - +
182A VAL 3.8 0.7 - - - -
183A THR* 3.4 2.9 + - - -
184A TYR 2.9 21.0 + - - -
266A ARG* 4.1 2.7 - - - +
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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
----------------------------------------------------------
96A GLU* 3.5 5.9 + - - +
180A PRO* 1.3 69.0 - - - +
182A VAL* 1.3 69.9 + - + +
184A TYR* 2.9 14.4 + - - +
185A MET* 2.9 40.4 + - + +
249A THR* 3.8 16.6 - - + -
259A LEU* 3.7 30.1 - - + -
262A ASP* 4.0 18.4 - - - +
265A ALA* 4.0 7.4 - - + -
266A ARG* 3.6 36.6 - - + +
511A VAL* 4.1 15.3 - - + -
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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
----------------------------------------------------------
89A MET* 6.0 1.1 - - - +
92A LEU* 3.7 37.2 - - + -
93A PRO* 3.8 12.3 - - + -
96A GLU* 3.2 22.5 + - + +
181A LEU* 1.3 77.4 - - + +
183A THR* 1.3 56.7 + - - +
185A MET* 3.4 13.2 - - + +
186A ALA* 3.0 25.9 + - - +
245A ALA* 5.8 5.2 - - + -
249A THR* 4.1 20.9 - - + +
508A PHE* 3.8 25.4 - - + -
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Residues in contact with THR 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A PRO* 4.2 14.2 + - + +
96A GLU* 2.7 21.6 + - - -
97A LEU* 3.3 38.7 - - + +
163A VAL* 5.6 3.1 - - + -
166A LEU* 5.8 0.4 - - + -
167A TRP* 4.0 28.3 - - + +
170A TRP* 6.4 0.2 - - + -
179A THR* 4.1 4.3 - - + -
180A PRO* 3.7 6.3 - - + -
181A LEU 3.1 0.8 - - - -
182A VAL* 1.3 74.4 - - - +
184A TYR* 1.3 56.4 + - - +
186A ALA* 3.0 6.7 + - + +
187A VAL* 2.8 43.2 + - + +
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Residues in contact with TYR 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A THR* 3.6 9.5 - - + +
180A PRO 2.9 13.4 + - - +
181A LEU 2.9 9.2 + - - +
183A THR* 1.3 75.3 - - - +
185A MET* 1.3 66.6 + - + +
187A VAL* 3.4 3.9 + - - +
188A VAL* 3.2 41.3 + - + +
266A ARG* 3.4 63.5 - - + +
269A PHE* 4.7 0.7 - - + -
270A LEU* 3.6 26.6 - - - +
524A MET* 3.1 41.2 + - + +
525A ASP* 3.9 9.0 - - - -
527A ILE* 3.8 29.2 - - + -
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Residues in contact with MET 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A MET* 5.0 3.8 - - + -
181A LEU* 2.9 30.1 + - + +
182A VAL* 3.4 11.7 - - - +
184A TYR* 1.3 79.7 - - + +
186A ALA* 1.3 62.0 + - - +
188A VAL* 3.4 4.8 - - - +
189A PHE* 3.1 24.2 + - - +
245A ALA* 4.3 13.0 - - + -
248A TYR* 4.0 8.1 - - + -
249A THR* 3.9 26.5 - - + -
265A ALA* 3.4 34.1 - - + +
269A PHE* 3.6 53.7 - - + -
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Residues in contact with ALA 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A MET* 4.1 22.0 - - - +
93A PRO* 3.2 36.6 - - + -
163A VAL* 4.3 5.6 - - + -
182A VAL 3.0 6.9 + - - +
183A THR 3.0 4.7 + - - +
185A MET* 1.3 79.8 - - - +
187A VAL* 1.3 59.1 + - - +
189A PHE* 3.5 5.7 - - - +
190A TRP* 3.0 37.1 + - + -
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Residues in contact with VAL 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A VAL* 4.7 8.7 - - + -
164A LEU* 4.2 11.8 - - + +
167A TRP* 3.7 42.0 - - + +
183A THR* 2.8 23.3 + - + +
184A TYR* 3.7 6.3 - - - +
186A ALA* 1.3 75.5 - - - +
188A VAL* 1.3 67.1 + - - +
189A PHE 3.1 1.1 - - - -
190A TRP* 3.2 4.3 + - - +
191A LEU* 3.0 43.0 + - + +
527A ILE* 3.9 24.0 - - + -
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Residues in contact with VAL 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A TYR* 3.2 45.1 + - + +
185A MET 3.4 11.2 - - - +
187A VAL* 1.3 75.8 - - - +
189A PHE* 1.3 55.0 + - - +
191A LEU* 3.5 1.7 + - - -
192A MET* 2.8 37.7 + - - +
241A LEU* 6.3 0.4 - - + -
269A PHE* 3.6 40.2 - - + +
270A LEU* 5.0 2.5 - - + -
272A PHE* 6.0 0.2 - - + -
273A LEU* 3.4 32.9 - - + +
527A ILE* 4.7 9.9 - - + -
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Residues in contact with PHE 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A ALA* 4.2 3.4 - - + -
89A MET* 3.4 33.7 - - + -
185A MET 3.1 19.1 + - - +
186A ALA* 3.5 5.8 - - - +
188A VAL* 1.3 76.0 - - + +
190A TRP* 1.3 106.5 + + - +
192A MET* 3.1 12.4 + - + +
193A TRP* 2.9 23.2 + - - +
238A PHE* 3.6 38.6 - + - -
241A LEU* 3.4 29.2 - - + -
242A PRO* 3.6 27.8 - - + -
269A PHE* 5.0 3.4 - - + -
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Residues in contact with TRP 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A GLN* 4.2 19.3 - - + -
89A MET* 3.0 41.8 + - + +
90A VAL* 4.4 6.5 - - + -
156A THR* 3.9 9.0 - - + -
159A SER* 3.5 33.0 - - - -
160A ILE* 3.7 40.9 - - + +
163A VAL* 3.5 26.2 - - + +
164A LEU* 5.5 4.5 - - + -
186A ALA 3.0 32.4 + - - +
187A VAL* 3.2 3.3 + - - +
189A PHE* 1.3 95.0 - + - +
191A LEU* 1.3 58.5 + - - +
193A TRP* 3.4 11.6 + + - +
194A PHE* 2.8 28.2 + - - +
238A PHE* 3.9 19.5 - + - -
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Residues in contact with LEU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A ILE* 5.4 3.1 - - + -
164A LEU* 4.0 28.3 - - + -
167A TRP* 5.7 1.8 - - + -
187A VAL* 3.0 39.4 + - + +
188A VAL* 3.9 3.6 - - - +
190A TRP* 1.3 74.5 - - - +
192A MET* 1.3 58.0 + - - +
194A PHE* 2.9 24.2 + - + +
195A LEU* 3.0 11.8 + - - +
273A LEU* 4.0 8.5 - - + -
527A ILE* 3.7 20.2 - - + -
531A PHE* 3.5 49.7 - - + -
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Residues in contact with MET 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A VAL 2.8 22.0 + - - +
189A PHE* 3.7 14.8 - - + +
191A LEU* 1.3 73.5 - - - +
193A TRP* 1.3 70.6 + - + +
195A LEU* 3.4 5.8 + - + +
196A ALA* 3.0 28.9 + - - +
234A PRO* 4.5 15.0 - - - +
237A TYR* 4.8 0.9 - - + -
238A PHE* 4.6 16.4 - - + +
241A LEU* 4.2 24.2 - - + -
272A PHE 3.4 23.1 - - - +
273A LEU* 3.4 24.1 - - + +
276A SER* 3.4 25.8 - - - +
277A THR* 4.2 5.3 + - - +
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Residues in contact with TRP 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A GLN* 5.7 1.1 - - + -
153A VAL* 3.7 27.8 - - + -
156A THR* 3.1 35.9 + - + +
160A ILE* 4.2 8.3 - - + +
189A PHE* 2.9 19.8 + - + +
190A TRP* 3.7 16.8 - + + +
192A MET* 1.3 79.3 - - + +
194A PHE* 1.3 55.7 + - - +
196A ALA* 4.0 11.7 - - + -
197A SER* 2.9 37.3 + - - -
200A LEU* 5.8 1.3 - - + -
231A THR* 4.1 21.5 - - + -
234A PRO 5.1 0.4 - - - -
235A ILE* 3.7 44.2 - - + -
238A PHE* 3.3 47.6 - + + -
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Residues in contact with PHE 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A TRP* 3.7 37.7 - + + -
160A ILE* 3.4 34.7 - - + +
190A TRP 2.8 14.1 + - - +
191A LEU* 2.9 14.9 + - + +
193A TRP* 1.3 72.9 - - - +
195A LEU* 1.3 66.9 + - + +
197A SER* 2.9 16.7 + - - -
198A LEU* 3.4 34.7 - - + +
531A PHE* 4.4 19.5 - + + -
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Residues in contact with LEU 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A LEU 3.0 13.3 + - - +
192A MET* 3.8 5.8 - - - +
194A PHE* 1.3 78.0 - - - +
196A ALA* 1.3 63.5 + - - +
198A LEU* 3.3 27.2 + - + +
230A TRP* 3.1 16.9 + - + -
273A LEU* 4.9 4.7 - - + +
274A LEU 6.0 0.7 - - - +
277A THR* 4.1 11.9 - - + +
531A PHE* 4.5 15.9 - - + -
534A ALA* 3.7 36.6 - - + +
535A ALA* 3.8 26.5 - - + +
538A VAL* 3.8 25.1 - - + -
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Residues in contact with ALA 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A MET 3.0 18.7 + - - +
193A TRP* 3.7 15.5 - - + +
195A LEU* 1.3 74.0 - - - +
197A SER* 1.3 56.9 + - - +
198A LEU 3.1 1.0 + - - -
230A TRP* 3.2 12.9 + - - +
231A THR* 2.7 30.6 + - - -
234A PRO* 3.2 35.0 - - + -
277A THR* 3.9 11.3 + - - +
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Residues in contact with SER 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A VAL* 5.0 2.7 - - - -
157A TRP* 2.9 28.2 + - - -
193A TRP* 2.9 38.3 + - - -
194A PHE* 2.9 17.3 + - - -
195A LEU 3.3 0.2 - - - -
196A ALA* 1.3 76.7 - - - +
198A LEU* 1.3 60.2 + - - +
199A GLY 3.2 0.7 + - - -
200A LEU* 3.4 4.5 + - - +
201A VAL* 2.9 31.9 + - - +
231A THR* 4.1 9.2 - - - -
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A TRP* 4.0 25.4 - - + -
194A PHE* 3.4 31.9 - - + +
195A LEU* 3.4 30.7 - - + +
196A ALA 3.1 1.0 - - - -
197A SER* 1.3 77.0 - - - +
199A GLY* 1.3 56.7 + - - +
201A VAL* 3.9 4.9 - - + +
202A LEU* 2.8 42.2 + - + +
230A TRP* 3.8 15.9 - - + -
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Residues in contact with GLY 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A SER 3.3 1.0 - - - -
198A LEU* 1.3 76.6 - - - +
200A LEU* 1.3 51.3 + - - +
202A LEU* 3.1 2.9 + - - +
203A GLU* 2.8 32.4 + - - +
227A LEU* 3.6 28.1 - - - +
230A TRP* 3.1 27.1 - - - +
231A THR* 3.3 8.2 + - - -
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Residues in contact with LEU 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A PHE* 3.6 29.8 - - + -
149A ALA* 6.5 1.6 - - + -
153A VAL* 4.4 31.9 - - + -
193A TRP* 5.8 1.1 - - + -
197A SER 3.4 2.4 + - - +
199A GLY* 1.3 68.3 - - - +
201A VAL* 1.3 61.9 + - + +
203A GLU* 3.6 24.7 - - - +
204A ALA* 2.9 31.0 + - + +
208A LEU* 5.1 2.5 - - + -
227A LEU 4.0 1.3 + - - -
228A PHE* 3.9 12.6 - - + +
231A THR* 2.9 35.8 + - + -
235A ILE* 6.1 3.6 - - + -
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Residues in contact with VAL 201 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A VAL* 5.2 8.7 - - + -
154A LEU* 3.8 33.4 - - + -
157A TRP* 4.3 22.0 - - + +
197A SER* 2.9 31.6 + - - +
198A LEU* 3.9 7.4 - - + +
200A LEU* 1.3 78.1 - - + +
202A LEU* 1.3 58.9 + - + +
204A ALA* 3.5 3.8 + - - +
205A VAL* 3.0 45.4 + - + +
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Residues in contact with LEU 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A LEU* 2.8 27.2 + - + +
199A GLY 3.4 4.5 - - - +
201A VAL* 1.3 75.4 - - + +
203A GLU* 1.3 58.7 - - - +
205A VAL* 3.1 4.2 + - + -
206A LEU* 2.8 61.0 + - + +
227A LEU* 4.1 25.8 - - + -
230A TRP* 5.4 9.2 - - + -
546A LEU* 6.4 0.9 - - + -
550A PHE* 6.0 3.8 - - + -
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Residues in contact with GLU 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A THR 5.7 0.2 - - - +
135A PHE* 4.8 1.9 - - - +
137A PRO* 4.2 6.9 - - - +
199A GLY 2.8 19.2 + - - +
200A LEU* 3.3 15.8 + - - +
202A LEU* 1.3 72.0 - - - +
204A ALA* 1.3 60.4 + - - +
207A PHE* 3.2 29.9 - - + +
208A LEU* 3.2 30.5 + - + +
224A ALA* 3.5 47.4 - - + +
227A LEU* 3.7 18.8 - - + +
228A PHE* 3.1 30.4 - - - +
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Residues in contact with ALA 204 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A SER* 3.7 23.3 - - - +
200A LEU* 2.9 18.8 + - + +
201A VAL* 3.5 7.9 - - + +
203A GLU* 1.3 74.9 - - - +
205A VAL* 1.3 66.2 + - + +
207A PHE 3.3 0.3 + - - -
208A LEU* 3.0 23.2 + - + +
209A LEU* 3.0 33.0 + - + +
210A PRO* 3.5 0.9 - - - +
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Residues in contact with VAL 205 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A LEU* 6.3 2.7 - - + -
201A VAL* 3.0 29.8 + - + +
202A LEU* 4.1 4.9 - - + +
204A ALA* 1.3 84.7 - - + +
206A LEU* 1.3 70.5 + - + +
209A LEU* 4.2 13.9 - - + +
210A PRO* 3.4 16.6 - - - +
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Residues in contact with LEU 206 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A LEU* 2.8 40.4 + - + +
205A VAL* 1.3 87.3 - - + +
207A PHE* 1.3 83.1 - - + +
210A PRO* 3.7 8.3 - - - +
550A PHE* 4.3 26.5 - - + -
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Residues in contact with PHE 207 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A GLU* 3.2 23.7 + - + +
204A ALA 3.3 0.8 + - - -
205A VAL 3.2 2.8 + - - -
206A LEU* 1.3 104.7 - - + +
208A LEU* 1.3 69.7 + - + +
209A LEU 3.3 2.0 - - - -
210A PRO* 3.0 13.4 - - - +
211A TRP* 3.0 18.3 + - - +
216A VAL* 4.9 0.8 - - - +
218A GLY 5.4 1.1 - - - -
219A VAL* 4.2 36.5 - - + +
220A ASP 5.4 2.5 - - - -
223A VAL* 3.9 24.5 - - + -
224A ALA* 5.8 1.1 - - + -
227A LEU* 4.1 8.3 - - + -
550A PHE* 3.8 33.0 - + - -
553A LEU* 4.8 15.7 - - + -
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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