Contacts of the helix formed by residues 283 - 309 (chain C) in PDB entry 5Q14
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 SER 283 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282C PHE* 1.3 74.9 - - - +
284C ALA* 1.4 59.5 + - - +
285C GLU* 3.5 11.5 + - - +
286C GLU* 3.0 39.2 + - - +
287C ASN* 2.9 28.8 + - - -
358C ASN 5.9 0.4 - - - -
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Residues in contact with ALA 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283C SER* 1.4 72.2 - - - +
285C GLU* 1.4 57.3 + - + +
287C ASN 3.5 0.2 + - - -
288C PHE* 3.0 26.0 + - - +
358C ASN 5.5 1.6 + - - +
359C SER 3.3 22.2 - - - +
360C GLY* 3.8 13.2 - - - -
458C TRP* 3.4 10.6 + - - -
459C ARG* 3.3 39.5 - - + +
460C VAL* 5.1 0.4 - - - -
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Residues in contact with GLU 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283C SER* 3.7 10.8 - - - +
284C ALA* 1.4 75.8 - - + +
286C GLU* 1.4 62.5 + - + +
288C PHE* 3.5 4.0 + - - +
289C LEU* 3.4 21.0 + - - +
459C ARG 4.5 2.9 - - - +
460C VAL* 3.4 36.1 - - - +
461C ASN* 3.6 23.6 + - - +
462C ASP 5.4 0.5 + - - -
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Residues in contact with GLU 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281C ALA 5.0 0.2 - - - +
282C PHE* 3.5 31.4 - - + +
283C SER* 3.0 39.1 + - - +
285C GLU* 1.4 76.1 - - + +
287C ASN* 1.3 58.3 + - - +
289C LEU* 3.3 8.4 + - - +
290C ILE* 3.0 33.1 + - + +
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Residues in contact with ASN 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277C ILE* 6.0 2.9 - - - +
282C PHE* 3.5 33.5 + - - +
283C SER 2.9 18.1 + - - +
286C GLU* 1.3 74.8 - - - +
288C PHE* 1.4 58.6 + - - +
290C ILE* 3.6 14.2 - - - +
291C LEU* 2.9 30.1 + - - +
355C ARG 4.9 3.8 + - - -
358C ASN 4.7 1.2 + - - -
359C SER* 3.4 43.2 + - - +
458C TRP* 4.5 2.5 - - + -
501C 9MM 3.8 21.3 - - + +
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Residues in contact with PHE 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284C ALA 3.0 18.4 + - - +
285C GLU 3.7 6.1 - - - +
286C GLU 3.3 0.4 - - - -
287C ASN* 1.4 75.3 - - - +
289C LEU* 1.3 60.3 + - + +
291C LEU* 3.4 14.7 + - + +
292C THR* 3.0 37.0 + - + +
455C LEU* 3.9 22.0 - - + -
458C TRP* 3.7 33.4 - + + +
460C VAL* 4.0 18.4 - - + -
462C ASP 4.4 4.0 - - - -
463C HIS* 3.8 13.7 - + + -
464C LYS* 3.4 33.0 - - + -
465C PHE* 3.7 31.4 - + - -
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Residues in contact with LEU 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285C GLU 3.4 8.8 + - - +
286C GLU* 3.3 10.9 + - - +
288C PHE* 1.3 78.8 - - + +
290C ILE* 1.3 65.6 + - + +
292C THR* 3.0 14.3 + - - +
293C GLU* 3.0 26.2 + - + +
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Residues in contact with ILE 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276C LYS* 4.2 22.2 - - + +
277C ILE* 5.6 2.5 - - + -
282C PHE* 3.7 39.9 - - + -
286C GLU* 3.0 24.6 + - + +
287C ASN* 3.3 15.7 + - - +
289C LEU* 1.3 74.9 - - + +
291C LEU* 1.3 58.6 + - - +
293C GLU* 3.6 6.0 - - - +
294C MET* 3.0 58.1 + - + +
501C 9MM 3.7 16.2 - - + -
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Residues in contact with LEU 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287C ASN 2.9 17.7 + - - +
288C PHE* 3.5 13.7 - - + +
289C LEU 3.2 0.2 - - - -
290C ILE* 1.3 77.2 - - - +
292C THR* 1.4 54.0 + - + +
294C MET* 3.4 2.2 + - - +
295C ALA* 2.8 39.8 + - + +
332C MET* 4.9 6.3 - - + -
455C LEU* 4.0 24.2 - - + -
458C TRP* 3.6 33.0 - - + -
473C TRP* 4.8 5.6 - - + -
501C 9MM 3.6 61.0 - - + +
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Residues in contact with THR 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288C PHE* 3.0 32.0 + - + +
289C LEU* 3.0 26.2 + - - +
291C LEU* 1.4 76.4 - - + +
293C GLU* 1.4 52.1 + - - +
295C ALA* 4.4 0.4 - - - -
296C THR* 2.7 39.2 + - - -
464C LYS 3.8 22.5 + - - +
465C PHE* 4.2 7.9 - - + -
466C THR* 5.2 9.9 - - - +
469C LEU* 3.4 21.9 - - + +
473C TRP* 4.9 3.1 - - + -
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Residues in contact with GLU 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268C ARG* 2.8 43.1 + - - -
289C LEU* 3.0 20.7 + - + +
290C ILE* 3.6 7.0 - - - +
292C THR* 1.4 77.0 + - - +
294C MET* 1.3 64.0 + - - +
296C THR* 3.4 6.4 + - - -
297C ASN* 3.0 25.6 + - - +
466C THR* 6.1 0.9 - - - -
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Residues in contact with MET 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268C ARG* 3.8 21.0 + - - +
273C ILE* 4.4 22.2 - - + +
276C LYS* 4.2 24.5 - - + +
277C ILE* 5.2 3.4 - - + -
290C ILE* 3.0 42.0 + - + +
291C LEU* 3.8 2.9 - - + +
293C GLU* 1.3 82.9 - - - +
295C ALA* 1.4 56.3 + - - +
297C ASN* 3.4 3.3 + - - +
298C HIS* 2.9 29.2 + - - +
501C 9MM 3.7 54.9 - - + +
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Residues in contact with ALA 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291C LEU* 2.8 22.8 + - + +
292C THR 3.9 2.2 - - - +
294C MET* 1.4 69.4 - - - +
296C THR* 1.4 64.9 + - - +
298C HIS* 3.4 2.6 + - - +
299C VAL* 3.1 27.7 + - - +
332C MET* 3.8 19.6 - - + +
469C LEU* 3.8 6.1 - - + -
473C TRP* 3.3 39.7 - - + -
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Residues in contact with THR 296 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292C THR 2.7 22.6 + - - -
293C GLU* 3.7 6.3 - - - -
295C ALA* 1.4 75.0 - - - +
297C ASN* 1.3 63.5 + - - +
299C VAL* 3.4 6.0 + - - +
300C GLN* 3.2 46.4 + - - +
466C THR* 3.1 37.0 + - + +
468C LEU* 4.1 11.1 - - + +
469C LEU* 3.3 11.0 - - - +
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Residues in contact with ASN 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268C ARG* 3.6 48.3 + - - +
293C GLU* 3.0 18.2 + - - +
294C MET 3.7 4.0 - - - +
296C THR* 1.3 75.6 - - - +
298C HIS* 1.3 63.3 + - - +
300C GLN* 3.3 17.0 + - - +
301C VAL* 3.0 40.1 + - - +
501C 9MM 4.2 6.9 - - - +
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Residues in contact with HIS 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267C GLN* 4.5 6.7 + - - -
294C MET 2.9 18.2 + - - +
295C ALA 3.6 5.6 + - - +
296C THR 3.3 0.2 - - - -
297C ASN* 1.3 78.9 + - - +
299C VAL* 1.4 57.9 + - - +
301C VAL* 3.4 6.2 + - + +
302C LEU* 2.8 46.8 + - + +
328C ALA* 3.9 8.1 + - - -
331C ALA* 3.8 16.3 + - + +
332C MET* 3.4 56.0 + - + +
335C ARG* 4.1 8.8 - - + +
501C 9MM 3.1 32.8 - + + +
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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
----------------------------------------------------------
295C ALA* 3.1 17.0 + - + +
296C THR 3.7 6.1 - - - +
297C ASN 3.3 0.2 - - - -
298C HIS* 1.4 75.1 - - - +
300C GLN* 1.3 60.0 + - - +
302C LEU* 3.2 9.4 + - + +
303C VAL* 2.9 39.7 + - + +
324C LEU* 6.2 0.7 - - + -
328C ALA* 5.0 7.6 - - + -
332C MET* 6.3 0.7 - - - -
468C LEU* 4.0 17.9 - - + -
469C LEU* 4.1 12.1 - - + -
472C ILE* 3.6 51.4 - - + -
473C TRP* 5.4 2.0 - - - +
749D LEU* 5.4 0.4 - - + -
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Residues in contact with GLN 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296C THR* 3.2 34.0 + - - +
297C ASN* 3.3 20.0 + - - +
299C VAL* 1.3 76.1 - - - +
301C VAL* 1.3 62.5 + - + +
303C VAL* 3.4 3.3 + - - +
304C GLU* 3.3 25.7 + - - +
468C LEU* 3.7 18.0 - - + +
752D LEU* 4.6 19.9 - - + +
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Residues in contact with VAL 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266C LYS* 4.4 14.6 - - + +
267C GLN* 3.6 40.6 - - + +
268C ARG 5.6 1.1 - - - +
297C ASN* 3.0 39.1 + - - +
298C HIS* 3.8 6.5 - - + +
300C GLN* 1.3 72.2 - - + +
302C LEU* 1.3 60.8 + - - +
304C GLU* 3.2 9.1 + - + +
305C PHE* 3.0 29.4 + - + +
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Residues in contact with LEU 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298C HIS* 2.8 32.0 + - + +
299C VAL* 3.2 8.0 + - + +
301C VAL* 1.3 76.6 - - - +
303C VAL* 1.3 53.4 + - - +
305C PHE* 3.3 8.9 + - + +
306C THR* 2.7 43.0 + - - +
324C LEU* 4.4 11.7 - - + -
327C SER* 4.7 4.3 - - - +
328C ALA* 3.6 36.1 - - + +
331C ALA* 3.7 22.9 - - + -
390C THR* 4.3 8.3 - - + -
394C ILE* 3.7 25.1 - - + -
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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
----------------------------------------------------------
299C VAL* 2.9 25.7 + - + +
300C GLN 3.8 5.2 - - - +
302C LEU* 1.3 73.9 - - - +
304C GLU* 1.4 59.7 + - - +
306C THR* 3.3 1.8 + - - -
307C LYS* 2.9 36.2 + - + +
324C LEU* 3.9 36.3 - - + -
749D LEU* 4.0 14.8 - - + +
752D LEU* 3.6 50.0 - - + +
753D LEU* 4.1 4.3 - - + +
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Residues in contact with GLU 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300C GLN 3.3 12.7 + - - +
301C VAL* 3.2 11.3 + - + +
303C VAL* 1.4 81.1 - - - +
305C PHE* 1.3 61.9 + - - +
307C LYS* 3.6 24.6 + - - +
308C LYS* 3.4 41.0 + - - +
752D LEU* 3.9 6.9 - - - +
755D LYS* 3.5 35.4 + - - +
756D ASP 5.4 2.6 - - - -
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Residues in contact with PHE 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C ILE* 3.7 17.5 - - + -
263C SER* 3.8 17.7 - - - +
264C TYR* 3.7 44.9 - + + -
267C GLN* 6.6 0.2 - - + -
301C VAL* 3.0 15.9 + - + +
302C LEU* 3.5 13.0 - - + +
304C GLU* 1.3 76.5 - - - +
306C THR* 1.3 58.5 + - - +
308C LYS* 3.2 16.9 + - - +
309C LEU* 3.3 33.6 + - + +
387C ALA 3.9 17.3 - - - -
390C THR* 4.1 9.9 - - + -
391C ALA* 4.0 11.7 - - + -
394C ILE* 3.7 31.2 - - + -
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Residues in contact with THR 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302C LEU* 2.7 24.4 + - - +
303C VAL 3.6 4.5 - - - -
305C PHE* 1.3 72.5 - - - +
307C LYS* 1.3 56.3 + - - +
309C LEU* 3.0 25.5 + - - +
312C PHE* 3.4 53.0 - - + +
324C LEU* 3.6 22.6 - - + +
394C ILE* 3.4 33.9 - - + +
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Residues in contact with LYS 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303C VAL* 2.9 22.3 + - + +
304C GLU* 3.8 25.4 + - - +
305C PHE 3.4 0.2 - - - -
306C THR* 1.3 73.9 - - - +
308C LYS* 1.3 60.7 + - + +
309C LEU 3.4 4.2 - - - +
312C PHE* 4.2 8.8 - - - +
313C GLN* 3.7 34.7 + - - +
752D LEU 2.7 27.8 + - - +
753D LEU* 3.2 37.2 - - + +
755D LYS* 3.6 6.9 - - - +
756D ASP* 3.1 34.6 - - - +
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Residues in contact with LYS 308 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C PHE* 3.0 36.3 - - + -
263C SER* 3.5 33.8 + - - +
266C LYS* 4.1 33.5 - - - +
304C GLU* 3.4 28.8 + - - +
305C PHE* 3.2 9.9 + - - +
306C THR 3.2 0.8 - - - -
307C LYS* 1.3 77.2 - - + +
309C LEU* 1.4 65.7 + - - +
310C PRO* 3.3 1.2 - - - +
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Residues in contact with LEU 309 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C ILE* 3.5 28.0 - - + -
305C PHE* 3.3 21.0 + - + +
306C THR* 3.0 27.4 + - + +
307C LYS 4.3 2.1 - - - +
308C LYS* 1.4 77.1 - - - +
310C PRO* 1.4 72.7 - - + +
311C GLY 3.2 0.7 + - - -
312C PHE* 3.0 23.6 + - + +
313C GLN 4.8 0.2 + - - -
391C ALA* 3.6 20.2 - - + +
394C ILE* 4.0 30.7 - - + -
395C LEU* 4.0 26.9 - - + -
415C LEU* 4.9 2.5 - - + -
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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