Contacts of the helix formed by residues 288 - 315 (chain C) in PDB entry 2BG9
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 ILE 288 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C VAL* 4.9 16.4 - - + +
135C LEU* 6.0 1.8 - - + -
137C PHE* 3.0 42.3 - - + +
138C PRO* 4.1 20.2 - - + -
286C PRO 3.9 1.8 + - - -
287C LEU* 1.3 78.3 - - - +
289C GLY* 1.3 68.5 + - - +
290C LYS* 3.2 44.6 - - + +
291C TYR* 3.3 28.9 - - + +
292C LEU* 3.4 23.3 + - - +
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Residues in contact with GLY 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287C LEU 4.0 0.2 + - - -
288C ILE* 1.3 78.5 - - - +
290C LYS* 1.3 64.9 + - - +
291C TYR 3.4 0.2 - - - -
292C LEU* 4.1 1.3 - - - -
293C MET* 2.4 55.4 + - - +
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Residues in contact with LYS 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C LEU* 5.9 3.0 - - - +
138C PRO* 4.5 12.5 - - - +
288C ILE* 3.2 30.7 - - + +
289C GLY* 1.3 79.5 - - - +
291C TYR* 1.3 75.9 + - + +
293C MET* 3.9 3.6 + - - +
294C PHE* 2.7 40.4 + - + -
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Residues in contact with TYR 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C PHE* 3.3 26.9 - + + -
138C PRO* 4.7 2.9 - - + +
139C PHE* 2.6 43.2 + + - -
224C LYS* 3.1 27.9 + - + -
228C TYR* 5.1 6.5 - - - -
287C LEU* 5.9 2.5 - - + -
288C ILE* 3.3 20.4 - - + +
290C LYS* 1.3 94.2 - - + +
292C LEU* 1.3 63.6 - - + +
293C MET 3.0 7.4 + - - -
294C PHE* 3.2 23.0 + + + +
295C ILE* 3.2 22.6 + - + +
478C PHE* 5.0 16.2 - + - -
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Residues in contact with LEU 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278C LEU* 3.4 42.4 - - + -
282C ALA* 5.0 4.7 - - + -
287C LEU* 3.3 44.2 - - + +
288C ILE 3.4 16.3 + - - +
289C GLY* 3.9 0.6 + - - -
290C LYS 3.6 0.2 - - - -
291C TYR* 1.3 78.7 - - + +
293C MET* 1.4 70.6 + - - +
295C ILE* 3.6 11.1 - - + +
296C MET* 3.3 30.8 + - + +
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Residues in contact with MET 293 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289C GLY* 2.4 50.9 + - - +
290C LYS 4.2 4.0 - - - +
291C TYR 3.0 1.0 - - - -
292C LEU* 1.4 84.2 - - - +
294C PHE* 1.3 60.0 + - + +
295C ILE 3.0 2.1 + - - -
296C MET* 3.2 1.5 + - - -
297C SER* 2.4 47.6 + - - +
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Residues in contact with PHE 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C LYS* 2.7 35.4 - - + -
291C TYR* 3.2 20.6 + + + +
293C MET* 1.3 78.6 - - + +
295C ILE* 1.3 64.8 + - + +
297C SER* 4.1 7.4 - - - -
298C LEU* 3.3 28.8 + - + +
471C PHE* 4.9 33.1 - + + -
474C VAL* 4.1 27.1 - - + -
478C PHE* 4.7 18.4 - + - -
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Residues in contact with ILE 295 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228C TYR* 5.9 7.6 - - + -
232C PHE* 5.4 11.2 - - + -
274C THR* 6.5 0.2 - - + -
278C LEU* 3.7 27.8 - - + -
287C LEU* 6.4 0.7 - - + -
291C TYR* 3.2 20.2 - - + +
292C LEU* 3.6 19.1 - - + +
293C MET 3.0 0.2 - - - -
294C PHE* 1.3 80.5 - - + +
296C MET* 1.3 71.3 + - + +
298C LEU* 3.8 1.8 - - - +
299C VAL* 2.7 35.2 + - + +
471C PHE* 6.5 0.2 - - - -
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Residues in contact with MET 296 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223B TYR* 6.0 13.5 - - + -
271C LEU* 5.7 2.0 - - + -
274C THR* 5.0 5.2 - - + -
275C SER* 3.4 37.7 - - - -
278C LEU* 4.5 16.8 - - + -
292C LEU* 3.3 16.7 + - + +
293C MET* 3.2 3.0 + - - +
295C ILE* 1.3 90.4 - - + +
297C SER* 1.3 58.7 + - - +
298C LEU 3.4 0.2 - - - -
299C VAL* 3.1 28.6 - - + +
300C THR* 2.6 34.5 + - - +
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Residues in contact with SER 297 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293C MET* 2.4 42.6 + - - -
294C PHE* 4.1 6.4 - - - -
296C MET* 1.3 68.5 - - - +
298C LEU* 1.3 66.7 + - - +
300C THR* 3.2 8.6 - - - +
301C GLY* 2.9 22.0 + - - -
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Residues in contact with LEU 298 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236C CYS* 6.0 5.8 - - - -
294C PHE* 3.3 17.4 + - - +
295C ILE 3.2 3.0 + - - +
297C SER* 1.3 83.9 + - - +
299C VAL* 1.3 65.0 + - - +
300C THR 3.0 1.3 - - - -
301C GLY* 2.9 11.5 + - - +
302C VAL* 3.1 14.4 + - - +
467C LEU* 3.2 46.1 - - + +
468C GLY* 4.9 4.9 - - - +
471C PHE* 3.5 41.5 - - + -
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Residues in contact with VAL 299 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236C CYS* 5.2 17.3 - - - -
239C ILE* 5.9 5.6 - - + -
271C LEU* 3.8 31.1 - - + +
274C THR* 5.0 9.2 - - + -
295C ILE* 2.7 24.4 + - + +
296C MET* 3.1 28.0 - - + +
298C LEU* 1.3 75.5 - - + +
300C THR* 1.3 50.5 + - - +
302C VAL* 2.9 16.7 - - + +
303C VAL* 2.5 36.6 + - - +
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Residues in contact with THR 300 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226B VAL* 5.5 6.4 - - + +
230B LEU* 5.0 18.7 - - + +
296C MET* 2.6 24.0 + - - +
297C SER* 3.2 9.6 - - - +
298C LEU 3.0 0.4 - - - -
299C VAL* 1.3 77.4 - - - +
301C GLY* 1.3 54.5 + - - +
302C VAL 3.0 0.2 - - - -
303C VAL* 3.0 15.2 - - + +
304C VAL* 2.5 50.7 + - + +
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Residues in contact with GLY 301 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297C SER 2.9 14.2 + - - -
298C LEU* 2.9 9.0 + - - -
300C THR* 1.3 78.0 - - - +
302C VAL* 1.3 56.7 + - - +
304C VAL* 3.7 6.4 - - - +
305C ASN* 3.1 33.6 + - - +
467C LEU* 5.2 12.1 - - - -
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Residues in contact with VAL 302 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236C CYS* 6.5 0.4 - - - -
239C ILE* 4.8 13.9 - - + -
240C SER* 4.7 20.2 - - - +
243C ALA* 3.3 34.3 - - + -
267C GLN* 5.5 1.3 - - - +
271C LEU* 6.0 0.9 - - + -
298C LEU 3.1 13.2 + - - +
299C VAL* 2.9 28.3 - - + +
301C GLY* 1.3 74.6 - - - +
303C VAL* 1.3 50.0 + - - +
304C VAL 3.1 0.2 - - - -
305C ASN* 2.9 7.1 + - + +
306C CYS* 2.3 46.1 + - - -
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Residues in contact with VAL 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B LEU* 4.2 28.0 - - + -
233B ILE* 5.6 3.8 - - + +
234B LEU* 5.5 7.2 - - + +
268C ALA* 6.5 0.2 - - + -
271C LEU* 2.8 37.0 - - + -
299C VAL 2.5 37.2 + - - +
300C THR* 2.9 22.6 + - + +
302C VAL* 1.3 76.4 - - - +
304C VAL* 1.3 54.6 + - - +
306C CYS* 2.8 30.9 + - + +
307C GLY* 2.9 12.1 + - - -
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Residues in contact with VAL 304 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B LEU* 5.6 2.9 - - + +
233B ILE* 5.4 14.5 - - + +
300C THR* 2.5 44.4 + - + +
301C GLY* 3.7 7.6 - - - +
303C VAL* 1.3 70.7 - - + +
305C ASN* 1.3 59.3 + - - +
307C GLY* 2.8 7.1 + - - -
308C ILE* 2.5 39.9 + - + -
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Residues in contact with ASN 305 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243C ALA* 5.9 4.0 - - + -
247C PHE* 4.5 6.9 - - + -
301C GLY 3.1 19.1 + - - +
302C VAL* 2.9 10.7 + - + +
304C VAL* 1.3 84.9 - - - +
306C CYS* 1.3 52.1 + - - +
308C ILE* 2.7 42.3 - - + +
309C VAL* 2.3 40.6 + - + +
460C ILE* 4.8 11.8 - - - +
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Residues in contact with CYS 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B LEU* 5.7 1.3 - - + -
243C ALA* 5.6 1.1 - - - -
264C LEU* 2.8 30.1 - - + +
267C GLN* 3.8 24.2 - - - +
268C ALA* 6.3 3.4 - - + -
271C LEU* 5.2 5.8 - - - -
302C VAL* 2.3 54.1 + - - -
303C VAL* 2.8 17.7 + - + +
305C ASN* 1.3 67.7 - - - +
307C GLY* 1.3 55.0 + - - +
309C VAL* 2.7 14.8 - - - +
310C LEU* 2.6 30.7 + - - +
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Residues in contact with GLY 307 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233B ILE* 4.4 12.6 - - - -
234B LEU* 4.5 4.6 - - - +
237B LEU* 3.9 14.7 - - - +
303C VAL 2.9 9.3 + - - -
304C VAL 2.8 7.0 + - - -
306C CYS* 1.3 75.6 - - - +
308C ILE* 1.3 58.3 + - - +
310C LEU* 2.7 38.4 - - - +
311C ASN* 3.3 6.2 + - - +
----------------------------------------------------------
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Residues in contact with ILE 308 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C PHE* 3.6 21.8 - - + -
304C VAL* 2.5 23.6 + - + +
305C ASN* 2.7 59.7 - - - +
307C GLY* 1.3 70.8 - - - +
309C VAL* 1.3 61.4 + - - +
310C LEU 3.1 0.3 + - - -
311C ASN* 3.8 3.3 - - + +
312C PHE* 2.5 56.4 + - + +
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Residues in contact with VAL 309 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243C ALA* 5.3 5.6 - - + +
246C ALA* 4.2 25.1 - - + -
247C PHE* 4.2 15.0 - - + -
260C ALA* 5.4 4.0 - - + +
261C ILE* 5.9 0.2 - - + -
264C LEU* 3.3 20.6 - - + -
267C GLN* 4.7 9.0 - - - +
305C ASN* 2.3 34.4 + - + +
306C CYS* 2.7 17.9 - - - +
308C ILE* 1.3 68.8 - - - +
310C LEU* 1.3 52.1 + - + +
313C HIS* 2.3 60.5 + - + +
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Residues in contact with LEU 310 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B LEU* 3.8 4.0 - - + -
237B LEU* 3.2 31.0 - - + -
241B LEU* 5.0 8.1 - - + -
251B LEU* 5.6 2.2 - - + -
261C ILE* 4.5 17.7 - - + -
264C LEU* 3.3 31.0 - - + -
306C CYS 2.6 30.3 + - - +
307C GLY* 2.7 23.8 - - - +
308C ILE 3.0 0.2 - - - -
309C VAL* 1.3 80.2 - - - +
311C ASN* 1.2 52.9 + - - +
313C HIS* 3.3 3.8 - - - +
314C PHE* 2.6 54.3 + - + -
----------------------------------------------------------
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Residues in contact with ASN 311 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237B LEU* 3.7 24.0 - - + +
240B TYR* 4.3 17.6 + - - -
244B ASP* 3.0 32.9 + - - +
307C GLY 3.3 5.7 + - - +
308C ILE* 4.1 4.5 - - - +
310C LEU* 1.2 81.6 - - - +
312C PHE* 1.4 51.7 + - - +
313C HIS 3.0 0.4 - - - -
314C PHE* 3.1 9.6 - - - -
315C ARG* 2.2 57.3 + - + +
----------------------------------------------------------
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Residues in contact with PHE 312 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C PHE* 3.5 35.2 - + + -
250C PRO* 6.0 1.0 - - - +
308C ILE* 2.5 45.1 + - + +
311C ASN* 1.4 70.5 - - - +
313C HIS* 1.4 52.9 + - - +
315C ARG* 2.8 46.2 + - + +
456C LEU* 2.7 58.3 - - + -
----------------------------------------------------------
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Residues in contact with HIS 313 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C PHE* 6.3 0.9 - - + -
250C PRO* 5.5 14.6 - - + +
254C GLY* 4.5 12.8 + - - -
256C LYS 4.2 0.2 - - - -
257C MET* 3.3 23.6 + - + +
260C ALA* 2.8 39.6 - - + +
261C ILE* 3.2 33.0 - - + +
309C VAL* 2.3 50.7 + - + +
310C LEU 4.2 3.1 - - - -
312C PHE* 1.4 60.1 - - - +
314C PHE* 1.4 53.6 + - + -
315C ARG* 4.0 7.0 + - - +
320C HIS 2.8 14.0 - - - +
----------------------------------------------------------
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Residues in contact with PHE 314 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237B LEU* 4.3 6.5 - - + -
241B LEU* 2.9 41.1 - - + -
244B ASP* 2.9 57.0 - - + +
245B ALA* 3.6 8.1 - - + -
251B LEU* 5.7 0.4 - - + -
257C MET* 3.4 20.2 - - + -
261C ILE* 5.1 3.8 - - + -
310C LEU* 2.6 64.0 + - + -
311C ASN* 3.1 13.7 - - - -
313C HIS* 1.4 74.9 - + + +
315C ARG* 1.3 61.7 + - - +
316C THR 3.4 3.7 + - - -
320C HIS* 3.0 15.1 - - - +
----------------------------------------------------------
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Residues in contact with ARG 315 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244B ASP* 3.8 12.5 - - - +
250C PRO* 6.1 3.4 - - - +
311C ASN* 2.2 52.3 + - + +
312C PHE* 2.8 41.2 + - + +
313C HIS* 4.0 13.1 + - - +
314C PHE* 1.3 67.5 - - - +
316C THR* 1.3 78.7 + - - +
317C PRO* 3.9 0.9 - - - +
319C THR* 4.3 14.3 - - - +
320C HIS 4.7 0.6 + - - -
448C LEU 3.7 20.0 + - - -
449C VAL* 4.2 12.7 + - - +
452C THR* 4.9 0.6 - - - +
456C LEU* 4.6 15.0 - - - +
----------------------------------------------------------
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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