Contacts of the helix formed by residues 211 - 241 (chain A) in PDB entry 6LGV
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 HIS 211 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A GLY 4.8 3.3 + - - -
208A SER* 3.0 25.8 + - - +
210A SER* 1.3 88.8 + - - +
212A ILE* 1.3 65.2 + - - +
213A ALA 3.3 1.1 - - - -
214A SER* 3.3 4.4 + - - +
215A VAL* 3.2 24.8 + - + +
273A PRO* 4.2 28.1 - - + +
274A LEU* 3.8 38.2 + - + +
277A LEU* 4.0 9.9 - - + -
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Residues in contact with ILE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A TYR* 3.9 40.4 - - + +
205A VAL* 5.3 8.1 - - + +
208A SER* 4.2 2.0 - - - +
209A GLN* 3.2 23.9 + - - +
211A HIS* 1.3 78.9 - - - +
213A ALA* 1.3 62.6 + - - +
216A GLY* 2.8 38.7 + - - +
217A PHE 4.1 1.9 + - - -
220A ILE* 5.0 9.0 - - + -
277A LEU* 3.9 21.3 - - + -
281A LEU* 4.3 20.6 - - + -
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Residues in contact with ALA 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A TYR* 5.8 1.7 + - - -
209A GLN 4.6 1.4 + - - -
210A SER 4.2 8.1 + - - +
211A HIS 3.3 0.8 - - - -
212A ILE* 1.3 79.1 - - - +
214A SER* 1.3 62.2 + - - +
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Residues in contact with SER 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A SER 5.1 0.6 + - - -
211A HIS* 3.3 5.4 + - - +
212A ILE 3.2 0.4 - - - -
213A ALA* 1.3 82.4 - - - +
215A VAL* 1.3 66.8 + - - +
216A GLY 3.7 0.2 - - - -
217A PHE* 5.5 1.1 + - - +
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Residues in contact with VAL 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A PRO* 5.2 8.7 - - + -
92A LEU* 3.8 23.1 - - + -
211A HIS* 3.2 14.2 + - + +
214A SER* 1.3 79.3 - - - +
216A GLY* 1.3 67.0 + - - +
217A PHE* 3.3 3.2 + - - -
218A VAL* 3.4 13.5 + - + +
219A VAL* 3.1 21.7 + - + +
274A LEU* 3.8 23.3 - - + -
277A LEU* 3.5 21.3 - - + -
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Residues in contact with GLY 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A HIS 3.7 0.4 + - - -
212A ILE* 2.8 43.5 + - - +
215A VAL* 1.3 77.6 - - - +
217A PHE* 1.3 55.9 + - - +
219A VAL* 3.7 5.4 - - - +
220A ILE* 2.8 41.8 + - - +
277A LEU* 4.6 3.8 - - - -
281A LEU* 4.8 1.3 - - - -
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Residues in contact with PHE 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A ILE* 4.1 3.2 + - - +
214A SER 5.5 1.1 - - - +
215A VAL 3.3 1.0 - - - -
216A GLY* 1.3 76.5 - - - +
218A VAL* 1.3 75.0 + - + +
220A ILE* 3.3 9.6 + - + +
221A ILE* 3.2 50.9 + - + +
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Residues in contact with VAL 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 3.7 48.2 - - + +
88A MET* 4.6 7.9 - - + -
92A LEU* 5.3 0.4 - - + -
215A VAL* 3.5 20.4 - - + +
217A PHE* 1.3 95.0 - - + +
219A VAL* 1.3 66.1 + - + +
221A ILE* 3.4 3.9 + - + +
222A ALA* 2.9 29.3 + - - +
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Residues in contact with VAL 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A MET* 4.3 5.6 - - + -
92A LEU* 3.7 33.4 - - + -
96A MET* 4.7 4.9 - - - -
215A VAL 3.1 20.7 + - - +
216A GLY 3.9 0.7 - - - +
218A VAL* 1.3 77.2 - - + +
220A ILE* 1.3 59.5 + - - +
222A ALA* 3.7 4.2 - - - -
223A VAL* 2.8 35.6 + - + +
277A LEU* 4.1 7.0 - - + -
278A PRO* 3.9 31.9 - - + -
281A LEU* 3.7 22.7 - - + -
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Residues in contact with ILE 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A ILE* 5.0 10.3 - - + -
216A GLY* 2.8 37.4 + - - +
217A PHE* 3.3 9.6 + - + +
219A VAL* 1.3 72.4 - - - +
221A ILE* 1.3 66.9 + - + +
223A VAL* 3.4 4.8 + - - +
224A ILE* 3.1 41.5 + - + +
281A LEU* 3.8 25.6 - - + -
285A TRP* 6.3 0.7 - - + -
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Residues in contact with ILE 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 3.7 25.6 - - + -
217A PHE* 3.2 50.3 + - + +
218A VAL* 3.9 5.4 - - + +
220A ILE* 1.3 80.9 - - + +
222A ALA* 1.3 64.4 + - - +
224A ILE* 3.4 8.1 + - + +
225A LEU* 3.0 35.0 + - + +
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Residues in contact with ALA 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU* 3.5 7.3 - - + +
86A PHE* 4.0 18.8 - - + -
88A MET* 3.7 15.0 - - + -
96A MET* 3.5 25.1 - - + -
218A VAL 2.9 19.0 + - - +
219A VAL 3.7 2.7 - - - +
221A ILE* 1.3 78.1 - - - +
223A VAL* 1.3 51.5 + - - +
225A LEU* 3.4 3.2 + - - -
226A HIS* 2.7 36.7 + - - +
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Residues in contact with VAL 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A MET* 4.5 9.2 - - - -
99A VAL* 6.0 0.4 - - + -
219A VAL* 2.8 37.0 + - + +
220A ILE* 3.8 5.6 - - - +
222A ALA* 1.3 71.2 - - - +
224A ILE* 1.3 58.5 + - + +
226A HIS* 3.6 7.0 - - - +
227A ASN* 2.8 29.6 + - - +
278A PRO* 3.8 22.7 - - + +
281A LEU* 3.8 6.3 - - + +
282A PHE* 3.5 38.3 - - + +
285A TRP* 3.7 21.1 - - + -
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Residues in contact with ILE 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A ILE* 3.1 35.7 + - + +
221A ILE* 3.7 7.4 - - + +
223A VAL* 1.3 72.8 - - - +
225A LEU* 1.3 68.9 + - + +
227A ASN* 3.4 1.2 + - - +
228A GLY* 2.9 21.8 + - - -
285A TRP* 3.4 48.7 + - + +
402A A6L 3.8 43.2 - - + +
403A A6L 4.4 6.8 - - + +
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Residues in contact with LEU 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU* 4.1 25.6 - - + -
86A PHE* 4.2 10.3 - - + -
221A ILE* 3.0 38.4 + - + +
222A ALA 3.6 3.1 - - - +
224A ILE* 1.3 79.2 - - + +
226A HIS* 1.3 57.1 + - - +
228A GLY* 3.3 0.6 + - - +
229A ILE* 2.9 40.6 + - + +
403A A6L 4.0 38.3 - - + +
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Residues in contact with HIS 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A MET* 2.8 42.9 + - + +
78A THR* 3.6 22.4 - - + -
79A ALA* 3.5 15.2 - - + +
82A LEU* 3.7 13.7 - - + +
96A MET* 4.3 10.3 - - + +
99A VAL* 4.0 10.7 - - + +
100A GLY* 3.4 28.7 - - - -
222A ALA 2.7 21.9 + - - +
223A VAL* 3.6 6.5 - - - +
225A LEU* 1.3 72.3 - - - +
227A ASN* 1.3 63.0 + - - +
229A ILE* 3.5 1.6 + - - +
230A GLY 3.2 16.8 + - - -
282A PHE* 3.7 13.0 - + + -
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Residues in contact with ASN 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A VAL 2.8 17.9 + - - +
224A ILE 3.9 0.9 - - - +
226A HIS* 1.3 78.3 - - - +
228A GLY* 1.3 57.3 + - - +
230A GLY* 3.2 2.6 + - - -
231A LEU* 2.9 43.4 + - - +
256A GLY* 3.1 23.9 + - - -
257A MET* 3.5 20.8 - - - -
282A PHE* 3.8 18.3 - - + -
285A TRP* 3.4 24.0 + - + -
286A HIS* 4.1 2.8 - - - +
289A SER* 2.9 24.1 + - - -
402A A6L 4.7 1.2 - - - +
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Residues in contact with GLY 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A ILE 2.9 12.0 + - - -
227A ASN* 1.3 75.4 + - - +
229A ILE* 1.3 60.5 + - - +
231A LEU* 3.2 7.7 + - - +
232A LEU* 2.8 34.8 + - - +
402A A6L 5.8 1.1 - - - -
403A A6L 3.4 38.1 - - - -
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Residues in contact with ILE 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ILE* 4.3 6.5 - - + -
75A MET* 5.6 0.4 - - - -
78A THR* 3.9 36.8 - - + +
82A LEU* 4.9 6.1 - - + -
225A LEU* 2.9 28.9 + - + +
226A HIS 3.9 3.4 - - - +
228A GLY* 1.3 76.1 - - - +
230A GLY* 1.3 55.3 + - - +
232A LEU* 3.8 5.0 - - + +
233A SER* 2.7 46.9 + - - +
403A A6L 3.6 27.1 - - + +
406A A6L 5.2 10.5 - - + -
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Residues in contact with GLY 230 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ILE* 5.5 0.7 - - - -
75A MET* 3.6 25.1 - - - -
226A HIS 3.2 11.1 + - - -
227A ASN 3.7 2.5 - - - -
228A GLY 3.2 0.2 - - - -
229A ILE* 1.3 75.1 - - - +
231A LEU* 1.3 63.7 + - - +
233A SER* 4.4 2.0 - - - -
234A GLY 3.1 19.6 + - - -
252A ALA 3.8 0.3 - - - +
255A VAL* 3.4 15.9 - - - +
256A GLY* 3.6 13.5 + - - -
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Residues in contact with LEU 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227A ASN* 2.9 40.0 + - - +
228A GLY* 3.2 5.6 + - - +
230A GLY* 1.3 75.2 - - - +
232A LEU* 1.3 61.4 + - - +
235A TYR* 3.0 20.6 + - - +
252A ALA* 3.3 32.4 - - + +
253A ILE* 4.3 0.2 - - - -
256A GLY* 3.7 4.7 - - - -
257A MET* 3.8 32.1 - - + -
289A SER* 4.3 4.0 - - - +
293A LEU* 3.8 21.8 - - + -
402A A6L 4.0 23.1 - - + -
403A A6L 3.9 20.6 - - + +
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Residues in contact with LEU 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A GLY 2.8 20.7 + - - +
229A ILE* 3.9 5.2 - - + +
231A LEU* 1.3 77.1 - - - +
233A SER* 1.4 57.2 + - - +
235A TYR* 4.5 0.4 - - - -
236A TRP* 2.8 56.4 + - + +
403A A6L 3.9 80.1 - - + +
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Residues in contact with SER 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LEU* 3.9 6.4 - - - +
74A ILE* 3.6 39.5 - - - +
229A ILE* 2.7 33.1 + - - +
230A GLY* 3.8 6.3 - - - -
231A LEU 3.4 0.2 - - - -
232A LEU* 1.4 71.6 - - - +
234A GLY* 1.3 55.4 + - - +
237A GLY* 2.7 32.9 + - - +
255A VAL* 4.4 4.9 - - - -
406A A6L 4.3 13.6 - - - +
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Residues in contact with GLY 234 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LEU* 4.4 3.4 - - - -
230A GLY 3.1 11.1 + - - -
233A SER* 1.3 74.7 - - - +
235A TYR* 1.3 60.1 + - - +
238A GLY* 2.9 22.2 + - - -
248A CYS 4.1 0.2 - - - +
251A LEU* 3.3 33.6 - - - +
252A ALA* 3.7 8.5 - - - -
255A VAL* 3.8 15.6 - - - +
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Residues in contact with TYR 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A LEU 3.0 18.2 + - - +
232A LEU* 3.8 2.9 - - - +
234A GLY* 1.3 75.9 - - - +
236A TRP* 1.3 84.8 + + - +
238A GLY* 3.2 3.1 + - - -
239A LYS* 3.1 47.2 + - + +
245A GLU* 2.7 37.7 + - - -
248A CYS* 3.6 30.7 - - + +
249A ARG 4.6 0.4 - - - -
252A ALA* 3.6 7.4 - - + +
297A TRP* 4.0 19.3 - + - -
402A A6L 3.3 26.3 - - - -
403A A6L 3.5 32.0 - - - +
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Residues in contact with TRP 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A LEU* 2.8 45.6 + - + +
235A TYR* 1.3 90.0 - + - +
237A GLY* 1.3 60.4 + - - +
239A LYS* 3.3 23.2 + - + +
240A LEU* 2.9 29.6 + - - +
403A A6L 3.8 27.9 + - - -
406A A6L 3.6 60.7 - - + +
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Residues in contact with GLY 237 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LEU* 4.0 13.9 - - - -
233A SER 2.7 26.3 + - - -
236A TRP* 1.3 73.1 - - - +
238A GLY* 1.3 62.1 + - - +
240A LEU* 3.2 7.9 + - - +
241A PHE* 3.2 33.8 + - - -
406A A6L 3.9 12.8 - - - +
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Residues in contact with GLY 238 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A GLY 2.9 17.4 + - - -
235A TYR 3.2 4.4 + - - -
237A GLY* 1.3 75.5 - - - +
239A LYS* 1.3 60.4 + - - +
241A PHE 3.2 6.9 + - - -
243A PHE* 3.1 41.8 + - - -
248A CYS* 3.4 13.0 - - - -
251A LEU* 3.8 8.6 - - - +
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Residues in contact with LYS 239 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A TYR* 3.1 44.9 + - + +
236A TRP* 3.3 29.8 + - + +
238A GLY* 1.3 74.6 - - - +
240A LEU* 1.3 64.5 + - - +
242A GLY* 2.9 15.4 + - - -
243A PHE 4.6 6.8 + - - +
244A ASP* 5.0 0.6 - - - +
245A GLU* 2.9 33.6 + - - +
248A CYS* 3.3 15.7 - - - -
304A LYS* 4.4 18.1 - - - +
406A A6L 3.7 36.7 + - - +
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Residues in contact with LEU 240 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A TRP 2.9 14.8 + - - +
237A GLY* 3.2 11.9 + - - +
239A LYS* 1.3 74.4 - - - +
241A PHE* 1.3 76.7 + - + +
242A GLY* 3.4 3.1 + - - -
406A A6L 3.7 52.0 - - + +
----------------------------------------------------------
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Residues in contact with PHE 241 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ALA* 3.7 30.3 - - + -
69A PHE* 5.0 14.1 - + - -
70A LEU* 4.7 12.3 - - + -
237A GLY* 3.2 26.4 + - - +
238A GLY 3.2 0.4 + - - +
239A LYS 3.2 0.8 - - - -
240A LEU* 1.3 91.3 - - + +
242A GLY* 1.3 59.8 + - - +
243A PHE* 3.4 34.8 + + + -
----------------------------------------------------------
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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