Contacts of the helix formed by residues 252 - 279 (chain C) in PDB entry 3OLJ
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 MET 252 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C ASP* 3.7 15.3 - - - +
115C HIS* 3.3 12.9 - - - -
116C TRP* 3.4 54.5 - - + -
119C LEU* 4.4 8.5 - - + -
127C ILE* 4.8 1.8 - - + -
183C TYR* 3.4 35.2 - - + +
246C LEU* 5.1 5.6 - - + -
251C LEU* 1.3 86.2 - - + +
253C PRO* 1.3 75.6 - - - +
254C GLY 3.3 2.7 - - - -
255C LEU* 3.2 27.8 + - + -
256C THR* 2.9 18.8 + - - -
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Residues in contact with PRO 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A GLN* 5.9 0.4 - - - -
118A SER* 6.0 6.3 - - - -
108C ASP 4.8 2.5 - - - +
111C LYS* 4.2 21.5 - - + +
112C ASP* 3.4 10.3 - - - +
115C HIS* 4.2 19.5 - - + +
250C GLY 5.3 1.8 - - - +
251C LEU 3.8 1.8 - - - -
252C MET* 1.3 88.2 - - - +
254C GLY* 1.3 54.7 + - - +
256C THR* 3.1 8.5 + - - +
257C PHE* 2.9 33.9 + - - +
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Residues in contact with GLY 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A GLN* 5.2 0.9 - - - -
107C VAL* 3.4 11.1 - - - +
108C ASP 3.4 20.7 + - - -
109C LEU* 3.7 13.9 - - - -
112C ASP* 2.7 23.5 + - - -
179C LEU* 4.6 0.2 - - - -
253C PRO* 1.3 72.3 - - - +
255C LEU* 1.3 60.7 + - - +
257C PHE* 3.6 1.5 + - - -
258C SER* 3.1 24.1 + - - -
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Residues in contact with LEU 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C ASP* 3.0 6.7 + - - -
127C ILE* 3.9 18.6 - - + -
131C LEU* 3.7 30.1 - - + -
176C TYR* 5.9 0.9 - - + -
179C LEU* 4.0 13.5 - - + -
183C TYR* 3.4 16.8 + - + +
243C ILE* 3.8 23.3 - - + -
246C LEU* 3.7 29.6 - - + -
252C MET* 3.5 24.5 - - + +
254C GLY* 1.3 76.0 - - - +
256C THR* 1.3 58.7 + - + +
258C SER* 3.0 7.1 + - - -
259C ASN* 3.0 28.1 + - + +
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Residues in contact with THR 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243C ILE* 3.7 20.2 - - + +
244C PHE* 5.4 0.5 - - - -
246C LEU* 4.3 3.1 - - + -
247C LYS* 3.7 43.2 - - - +
251C LEU 3.4 24.9 + - - +
252C MET* 2.9 5.4 + - + +
253C PRO* 3.1 16.8 + - - +
255C LEU* 1.3 75.9 - - + +
257C PHE* 1.3 64.9 + - - +
259C ASN* 3.4 4.4 + - - +
260C GLU* 3.1 28.2 + - - +
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Residues in contact with PHE 257 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A SER 5.7 4.3 - - - -
113A ILE* 4.2 14.1 - - + -
114A GLN* 3.4 69.1 - - + +
117A GLU* 3.7 10.1 - - - +
106C GLU* 5.0 2.7 - - + -
107C VAL* 4.3 10.8 - - + -
253C PRO 2.9 18.1 + - - +
254C GLY 4.2 1.6 - - - +
256C THR* 1.3 75.3 + - - +
258C SER* 1.3 61.6 + - - +
260C GLU* 2.9 42.2 + - + +
261C LEU* 3.1 48.4 + - + +
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Residues in contact with SER 258 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C TRP* 5.2 0.7 - - - -
107C VAL* 4.0 12.6 - - - -
175C MET* 3.9 32.7 - - - +
176C TYR* 5.9 0.5 - - - -
179C LEU* 3.7 17.7 - - - +
254C GLY 3.1 14.4 + - - -
255C LEU* 3.0 16.6 + - - +
257C PHE* 1.3 76.5 - - - +
259C ASN* 1.3 55.9 + - - +
261C LEU* 3.2 7.4 + - - +
262C ILE* 2.9 39.4 + - - +
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Residues in contact with ASN 259 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C PHE* 4.7 0.5 - - - -
176C TYR* 5.0 3.2 + - - -
240C PHE* 3.2 34.3 + - - +
243C ILE* 3.5 37.6 - - + +
244C PHE* 3.3 41.6 - - - +
255C LEU 3.0 19.4 + - - +
256C THR 3.4 6.2 + - - +
258C SER* 1.3 74.4 + - - +
260C GLU* 1.3 59.6 + - - +
262C ILE* 4.6 5.8 - - - +
263C SER* 2.8 31.5 + - - -
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Residues in contact with GLU 260 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ILE* 4.8 1.4 - - - +
117A GLU* 2.6 34.7 - - - +
244C PHE* 3.8 23.1 - - + -
247C LYS* 2.7 35.4 + - - +
256C THR* 3.1 17.4 + - - +
257C PHE* 2.9 20.4 + - + +
259C ASN* 1.3 76.4 - - - +
261C LEU* 1.3 64.3 + - + +
263C SER* 3.4 4.6 + - - -
264C ARG* 3.1 25.3 + - - +
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Residues in contact with LEU 261 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C TRP* 3.7 48.5 - - + +
106C GLU* 6.0 1.8 - - + +
107C VAL* 4.4 6.3 - - + -
257C PHE* 3.1 50.1 + - + +
258C SER* 3.2 6.3 + - - +
260C GLU* 1.3 77.5 - - + +
262C ILE* 1.3 58.3 + - - +
264C ARG* 3.5 27.8 + - - +
265C ASP* 3.0 35.1 + - - +
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Residues in contact with ILE 262 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C TRP* 3.6 19.1 - - + -
138C ASP* 6.0 0.7 - - - +
172C HIS* 3.7 31.0 - - + +
175C MET* 4.1 27.4 - - + -
176C TYR* 3.3 46.7 - - + +
240C PHE* 4.0 10.5 - - + -
258C SER* 2.9 26.4 + - - +
259C ASN* 4.4 3.1 - - - +
261C LEU* 1.3 76.4 - - - +
263C SER* 1.3 58.1 + - - +
265C ASP* 3.2 2.9 + - - +
266C GLU* 2.8 30.3 + - + +
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Residues in contact with SER 263 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240C PHE* 3.7 43.6 - - - -
244C PHE* 3.7 17.9 - - - -
259C ASN 2.8 23.8 + - - -
260C GLU* 3.4 4.5 + - - -
262C ILE* 1.3 77.3 - - - +
264C ARG* 1.3 59.4 + - - +
266C GLU* 3.8 0.7 - - - +
267C GLY* 2.9 25.8 + - - -
350C MET* 6.4 0.2 - - - -
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Residues in contact with ARG 264 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C SER* 3.3 41.5 + - - +
102C TRP* 3.4 16.4 - - - +
260C GLU 3.1 16.2 + - - +
261C LEU* 3.5 25.6 + - - +
262C ILE 3.3 0.2 - - - -
263C SER* 1.3 81.5 + - - +
265C ASP* 1.3 84.6 + - - +
267C GLY* 3.1 3.5 + - - -
268C LEU* 2.9 22.7 + - + +
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Residues in contact with ASP 265 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C SER* 4.3 6.2 + - - -
102C TRP* 2.8 20.3 + - - -
168C MET* 3.8 10.1 - - - +
172C HIS* 2.6 37.2 + - + +
261C LEU 3.0 11.7 + - - +
262C ILE 3.4 3.6 - - - +
264C ARG* 1.3 101.3 + - - +
266C GLU* 1.3 58.0 + - - +
268C LEU* 3.2 9.5 + - - +
269C HIS* 2.9 41.4 + - + +
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Residues in contact with GLU 266 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C ASP* 5.2 0.7 - - - -
169C GLU* 3.0 23.0 - - - +
172C HIS* 3.2 16.7 + - - -
232C GLU* 2.5 43.8 - - - +
236C PHE* 3.3 16.9 - - + -
240C PHE* 3.8 28.3 - - + -
262C ILE* 2.8 28.3 + - + +
263C SER 3.9 3.8 - - - +
265C ASP* 1.3 68.5 - - - +
267C GLY* 1.3 60.5 + - - +
269C HIS* 3.2 11.3 + - - +
270C CYS* 3.0 33.6 + - - -
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Residues in contact with GLY 267 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C SER 2.9 16.5 + - - -
264C ARG* 3.1 4.2 + - - -
266C GLU* 1.3 75.1 - - - +
268C LEU* 1.3 56.0 + - - +
270C CYS* 3.3 7.7 + - - +
271C ASP* 2.9 37.5 + - - +
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Residues in contact with LEU 268 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C MET* 3.3 38.8 - - + +
96C LYS* 4.0 35.7 - - + +
97C ALA* 3.7 41.1 - - + +
100C SER* 5.1 4.0 - - - +
161C PHE* 4.2 7.2 - - + -
264C ARG* 2.9 13.6 + - + +
265C ASP* 3.5 11.7 - - - +
267C GLY* 1.3 75.8 - - - +
269C HIS* 1.3 61.7 + - + +
271C ASP* 3.3 10.1 + - - +
272C PHE* 2.9 25.3 + - - +
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Residues in contact with HIS 269 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C ALA* 5.8 3.6 - - + +
161C PHE* 3.9 20.6 - + - -
165C GLN* 3.4 39.6 - - + +
168C MET* 4.6 11.2 - - + +
169C GLU* 3.2 16.4 + - - -
172C HIS* 4.2 4.5 - + - -
232C GLU* 3.1 34.3 + - - +
265C ASP* 2.9 33.6 + - + +
266C GLU* 3.2 17.7 + - - +
268C LEU* 1.3 80.5 - - + +
270C CYS* 1.3 57.5 + - - +
272C PHE* 3.5 4.6 + - - +
273C ALA* 3.1 23.4 + - - +
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Residues in contact with CYS 270 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229C ALA* 3.6 15.1 - - + +
232C GLU* 3.5 11.4 - - - -
233C GLY* 3.3 39.5 - - - -
266C GLU 3.0 18.3 + - - +
267C GLY* 3.6 9.6 - - - +
268C LEU 3.2 0.2 - - - -
269C HIS* 1.3 72.9 - - - +
271C ASP* 1.3 65.7 + - - +
272C PHE 3.1 1.3 - - - -
273C ALA* 3.1 9.1 + - - +
274C CYS* 3.0 28.0 + - - -
331C LEU* 5.0 8.5 - - + -
334C GLU* 5.4 2.0 - - - +
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Residues in contact with ASP 271 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C MET* 3.8 15.3 - - + +
267C GLY 2.9 23.2 + - - +
268C LEU* 3.3 15.3 + - + +
270C CYS* 1.3 76.2 - - - +
272C PHE* 1.3 57.1 + - - +
274C CYS* 3.3 3.3 + - - +
275C LEU* 3.0 27.2 + - - +
334C GLU* 2.7 36.9 - - - +
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Residues in contact with PHE 272 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C ILE* 3.7 15.5 - - + -
93C MET* 3.5 18.8 - - + +
158C ALA* 3.8 11.0 - - + -
161C PHE* 3.3 68.2 - + + -
162C TYR* 3.6 26.7 - + - -
165C GLN* 5.1 0.4 - - - -
268C LEU 2.9 15.8 + - - +
269C HIS 3.6 3.8 - - - +
270C CYS 3.1 0.2 - - - -
271C ASP* 1.3 75.8 - - - +
273C ALA* 1.3 61.5 + - - +
275C LEU* 3.1 4.4 + - + +
276C MET* 2.8 70.7 + - + +
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Residues in contact with ALA 273 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C TYR* 5.4 0.4 - - - -
225C VAL* 3.9 28.2 - - + +
229C ALA* 3.8 28.3 - - + +
269C HIS 3.1 13.9 + - - +
270C CYS* 3.1 9.6 + - - +
272C PHE* 1.3 78.6 - - - +
274C CYS* 1.3 56.2 + - - +
276C MET* 3.3 4.5 + - - +
277C PHE* 2.9 29.7 + - - +
335C LEU* 5.1 1.3 - - + -
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Residues in contact with CYS 274 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229C ALA* 5.4 0.2 - - - -
270C CYS 3.0 17.7 + - - -
271C ASP 3.5 7.6 - - - +
272C PHE 3.1 0.2 - - - -
273C ALA* 1.3 74.8 - - - +
275C LEU* 1.3 61.2 + - - +
277C PHE* 3.4 2.9 + - - +
278C LYS* 3.0 29.5 + - - +
331C LEU* 3.7 28.5 - - - -
334C GLU* 3.8 45.2 - - + +
335C LEU* 3.8 21.0 - - - +
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Residues in contact with LEU 275 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C ASP* 3.6 53.4 - - + +
90C ILE* 3.8 13.7 - - + +
93C MET* 3.8 19.7 - - + -
271C ASP 3.0 13.8 + - - +
272C PHE* 3.1 10.1 + - + +
274C CYS* 1.3 73.9 - - - +
276C MET* 1.3 66.7 + - + +
278C LYS* 3.4 18.9 + - + +
279C HIS* 3.1 38.2 + - + +
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Residues in contact with MET 276 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LEU* 3.3 35.5 - - + +
90C ILE* 3.5 38.8 - - + -
153C VAL* 5.0 2.7 - - - -
158C ALA* 3.8 14.6 - - - -
162C TYR* 3.8 2.7 - - - +
221C TYR* 3.5 27.6 - - + +
225C VAL* 4.5 2.2 - - + -
272C PHE* 2.8 61.5 + - + +
273C ALA* 3.6 9.0 - - - +
275C LEU* 1.3 74.8 - - + +
277C PHE* 1.3 64.3 + - - +
279C HIS* 2.9 11.5 + - - -
280C LEU* 3.4 3.6 + - - +
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Residues in contact with PHE 277 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222C GLY* 3.8 7.6 - - - -
225C VAL* 4.1 8.5 - - + +
226C VAL* 3.5 30.3 - - + -
273C ALA 2.9 17.5 + - - +
274C CYS 3.5 5.4 - - - +
276C MET* 1.3 75.8 - - - +
278C LYS* 1.3 64.7 + - - +
280C LEU* 3.1 30.6 + - + +
283C LYS* 3.4 37.0 - - + +
284C PRO* 3.6 27.1 - - + -
335C LEU* 3.6 41.5 - - + -
337C PHE* 3.7 30.1 - + - -
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Residues in contact with LYS 278 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C ASP* 5.3 3.6 + - - -
274C CYS 3.0 17.3 + - - +
275C LEU* 3.7 21.0 - - + +
276C MET 3.3 0.2 - - - -
277C PHE* 1.3 77.2 - - + +
279C HIS* 1.3 64.3 + - + +
280C LEU 3.3 3.6 + - - +
283C LYS* 3.5 21.9 + - - +
334C GLU 6.1 0.4 - - - +
----------------------------------------------------------
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Residues in contact with HIS 279 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C GLU* 4.3 3.1 - - - +
71C PRO* 4.7 8.9 - - - +
72C LEU* 3.8 25.2 - - + +
87C TYR* 3.8 33.3 - + - -
89C ASP* 2.5 32.5 + - - -
90C ILE* 4.1 14.3 - - + +
275C LEU* 3.1 29.4 + - + +
276C MET* 2.9 12.2 + - - +
278C LYS* 1.3 81.1 + - + +
280C LEU* 1.3 62.7 + - - +
281C VAL* 3.8 5.0 + - - +
----------------------------------------------------------
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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