Contacts of the helix formed by residues 284 - 314 (chain C) in PDB entry 2CX9
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 PHE 284 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285B GLU* 3.3 26.7 - - + +
276C ALA* 3.2 32.3 - - + -
277C PHE* 3.8 27.6 - + + -
279C ARG* 3.4 28.5 - - + -
281C ILE* 3.4 36.1 - - + +
282C ALA 3.0 2.5 - - - +
283C GLU* 1.3 86.4 - - - +
285C GLU* 1.3 59.2 + - - +
286C GLY 4.3 0.7 - - - +
287C VAL* 2.9 11.3 + - + +
288C SER* 2.9 24.7 + - - -
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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
----------------------------------------------------------
377A LEU* 3.1 38.0 - - + +
284B PHE* 3.3 27.7 - - + +
285B GLU* 3.2 12.9 + - + +
286B GLY* 2.7 43.4 + - - +
283C GLU 5.1 3.6 - - - +
284C PHE* 1.3 68.6 - - - +
286C GLY* 1.3 66.3 + - - +
288C SER* 2.9 9.2 - - - -
289C PHE* 2.9 48.0 + - + +
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Residues in contact with GLY 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285B GLU* 2.7 24.3 + - - +
289B PHE* 3.5 30.3 - - - -
285C GLU* 1.3 73.6 - - - +
287C VAL* 1.3 59.3 + - - +
289C PHE* 4.8 1.1 - - - +
290C LYS* 3.2 34.1 + - - +
373D GLU* 5.0 4.5 - - - -
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Residues in contact with VAL 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271C ALA* 3.9 26.2 - - + -
281C ILE* 2.9 52.5 - - + +
282C ALA* 4.0 4.5 - - - -
284C PHE* 2.9 7.0 + - + +
286C GLY* 1.3 78.6 - - - +
288C SER* 1.3 67.9 + - - +
289C PHE 3.3 1.1 - - - -
290C LYS* 3.2 10.7 + - - +
291C LEU* 3.2 25.9 + - + +
343C ILE* 4.3 20.4 - - + -
373D GLU* 6.2 1.8 - - + -
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Residues in contact with SER 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A LEU* 4.1 10.3 - - - +
380A ALA* 3.6 25.3 - - - +
384A LEU* 5.6 1.3 - - - -
282C ALA 3.7 16.8 + - - -
283C GLU 5.2 0.2 - - - -
284C PHE 2.9 5.5 + - - -
285C GLU* 2.9 27.0 + - - +
287C VAL* 1.3 75.0 - - - +
289C PHE* 1.3 62.4 + - - +
291C LEU* 3.2 11.4 + - - +
292C ALA* 2.9 30.4 + - - +
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Residues in contact with PHE 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A GLU* 3.7 40.2 - - + -
376A LYS* 3.6 33.8 - - + +
377A LEU* 3.5 27.1 - - + -
286B GLY* 3.7 22.4 - - - -
290B LYS* 6.0 0.9 - - - -
285C GLU* 2.9 41.6 + - + +
286C GLY* 4.8 2.0 - - - +
288C SER* 1.3 81.0 - - - +
290C LYS* 1.3 58.2 + - + +
292C ALA* 3.4 5.5 + - - +
293C GLU* 3.0 44.2 + - - +
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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
----------------------------------------------------------
289B PHE* 5.9 1.4 - - - -
286C GLY 3.2 22.3 + - - +
287C VAL* 3.2 8.2 + - - +
289C PHE* 1.3 76.9 - - + +
291C LEU* 1.3 64.7 + - - +
293C GLU* 3.4 9.1 + - - +
294C ALA* 3.0 25.8 + - - +
339C GLU* 2.9 48.5 + - + +
342C GLN* 4.2 9.0 - - - +
343C ILE* 3.8 30.3 - - + -
366D ARG* 5.7 1.0 - - - +
373D GLU* 3.2 35.7 + - - +
376D LYS* 6.1 0.8 - - - +
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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
----------------------------------------------------------
380A ALA* 5.2 3.4 - - + -
383A LEU* 3.8 8.1 - - + +
384A LEU* 4.5 12.6 - - + -
264C LEU* 3.8 24.3 - - + +
267C ALA* 4.2 3.6 - - + -
268C LEU* 3.6 44.2 - - + +
271C ALA* 4.5 8.5 - - + -
282C ALA* 5.0 3.1 - - + -
287C VAL* 3.2 26.2 + - + +
288C SER* 3.2 12.3 + - - +
290C LYS* 1.3 81.7 - - - +
292C ALA* 1.3 57.5 + - - +
294C ALA* 3.8 1.6 - - - +
295C ALA* 2.9 31.5 + - - +
343C ILE* 3.9 19.5 - - + -
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Residues in contact with ALA 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327A LEU* 5.4 1.1 - - - -
376A LYS* 3.4 41.5 - - + +
379A ILE* 3.8 22.6 - - + +
380A ALA 4.3 1.3 - - - +
383A LEU* 4.2 2.6 - - - +
288C SER 2.9 13.6 + - - +
289C PHE 3.7 4.0 - - - +
291C LEU* 1.3 77.2 - - - +
293C GLU* 1.3 60.9 + - - +
295C ALA* 3.3 1.7 + - - +
296C THR* 2.9 31.7 + - - -
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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
----------------------------------------------------------
327A LEU* 5.3 6.1 - - + -
376A LYS* 2.8 39.2 + - + +
289C PHE* 3.0 30.2 + - - +
290C LYS* 3.7 7.9 - - - +
292C ALA* 1.3 75.5 - - - +
294C ALA* 1.3 62.6 + - - +
296C THR* 3.7 4.6 - - - -
297C GLU* 3.0 39.0 + - - +
335C LYS* 3.6 23.8 + - - +
339C GLU* 5.6 1.7 - - - +
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Residues in contact with ALA 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264C LEU* 4.0 17.9 - - + -
290C LYS 3.0 17.4 + - - +
291C LEU 3.8 3.1 - - - +
293C GLU* 1.3 76.4 - - - +
295C ALA* 1.3 63.5 + - - +
297C GLU* 3.3 5.5 + - - +
298C LEU* 2.9 29.3 + - - +
332C ALA 6.0 0.4 - - - -
335C LYS* 6.1 1.8 - - - +
336C ALA* 3.9 30.7 - - + +
339C GLU* 5.9 3.4 - - + -
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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
----------------------------------------------------------
324A GLN* 3.8 12.6 - - - +
379A ILE* 4.7 0.4 - - + -
383A LEU* 3.5 29.2 - - + -
264C LEU* 3.6 19.0 - - + +
291C LEU 2.9 19.4 + - - +
292C ALA 3.6 3.6 - - - +
294C ALA* 1.3 75.8 - - - +
296C THR* 1.3 63.3 + - - +
298C LEU* 3.4 2.4 + - - +
299C GLU* 3.0 26.5 + - - +
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Residues in contact with THR 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A LEU* 4.4 3.9 - - + +
324A GLN* 3.3 54.8 + - + +
327A LEU* 4.1 10.7 - - + +
328A PHE* 3.9 22.4 - - + -
379A ILE* 3.8 10.2 - - - +
292C ALA 2.9 17.4 + - - -
293C GLU* 3.7 5.6 - - - -
295C ALA* 1.3 77.2 - - - +
297C GLU* 1.3 64.7 + - + +
299C GLU* 3.2 5.0 + - - +
300C ALA* 3.1 20.8 + - - +
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Residues in contact with GLU 297 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328A PHE* 4.1 13.9 - - + -
293C GLU* 3.0 25.5 + - - +
294C ALA* 4.0 4.6 - - - +
296C THR* 1.3 74.4 - - - +
298C LEU* 1.3 61.6 + - + +
300C ALA* 3.1 3.2 + - - -
301C ALA* 2.8 25.9 + - - +
328C PHE* 3.3 29.5 - - + -
332C ALA* 3.8 27.3 - - + +
335C LYS* 3.3 37.4 + - - +
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Residues in contact with LEU 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257C VAL* 4.3 22.5 - - + +
260C GLY* 3.4 43.7 - - - +
261C GLN* 3.6 20.2 - - - +
264C LEU* 4.0 17.5 - - + -
294C ALA* 2.9 21.8 + - - +
295C ALA* 3.9 3.4 - - - +
297C GLU* 1.3 76.6 - - + +
299C GLU* 1.3 57.6 + - - +
301C ALA* 3.2 8.7 + - + +
302C ARG* 2.9 33.8 + - - +
329C ALA 5.2 0.4 - - - +
332C ALA 4.7 2.9 - - - +
333C ALA* 4.2 20.6 - - + +
336C ALA* 4.3 9.6 - - + -
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Residues in contact with GLU 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A LEU* 4.5 8.0 - - + +
307A LYS* 2.5 39.8 + - - +
324A GLN* 4.0 18.4 - - - +
295C ALA 3.0 13.9 + - - +
296C THR* 3.3 13.0 - - - +
298C LEU* 1.3 78.9 - - - +
300C ALA* 1.3 60.2 + - - +
302C ARG* 3.3 28.7 + - - +
303C LEU* 3.2 35.0 + - - +
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Residues in contact with ALA 300 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A ALA* 3.8 20.2 - - + +
304A LEU* 4.2 22.4 - - + +
328A PHE* 4.6 3.1 - - + -
296C THR 3.1 12.6 + - - +
297C GLU* 3.5 8.5 - - - +
299C GLU* 1.3 74.7 - - - +
301C ALA* 1.3 66.7 + - - +
303C LEU* 3.4 5.7 + - - +
304C LEU* 3.1 27.9 + - - +
328C PHE* 3.8 17.0 - - + -
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Residues in contact with ALA 301 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257C VAL* 3.7 14.3 - - + +
297C GLU 2.8 14.1 + - - +
298C LEU* 3.4 14.6 - - + +
300C ALA* 1.3 77.0 - - - +
302C ARG* 1.3 61.5 + - - +
304C LEU* 3.2 7.5 + - - +
305C TYR* 3.2 22.0 + - - +
325C ALA 5.0 0.7 - - - +
328C PHE* 3.7 13.4 - - + -
329C ALA* 3.7 33.1 - - - +
332C ALA* 4.9 1.1 - - + -
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Residues in contact with ARG 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C PHE 5.7 1.6 - - - -
73C ARG* 4.5 14.4 - - - +
76C GLU* 2.9 34.1 + - - +
257C VAL* 3.3 16.8 - - + +
261C GLN* 3.0 31.7 + - - +
298C LEU 2.9 16.6 + - - +
299C GLU* 3.3 31.6 + - - +
300C ALA 3.2 0.2 - - - -
301C ALA* 1.3 74.7 - - - +
303C LEU* 1.3 67.7 + - + +
305C TYR* 3.3 25.7 + - + +
306C LEU* 3.0 40.3 + - + +
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Residues in contact with LEU 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A TRP* 5.5 0.9 - - + -
303A LEU* 3.7 50.1 - - + +
304A LEU* 3.9 22.7 - - + -
307A LYS* 4.4 11.7 - - + +
4C TRP* 3.9 12.7 - - + -
5C PHE* 3.6 32.1 - - + +
299C GLU* 3.2 19.4 + - - +
300C ALA* 3.8 6.1 - - - +
302C ARG* 1.3 78.4 - - + +
304C LEU* 1.3 58.4 + - - +
306C LEU* 3.4 10.3 + - + +
307C LYS* 2.9 30.1 + - - +
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Residues in contact with LEU 304 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296A THR* 4.4 7.9 - - + +
299A GLU* 4.2 11.9 - - + -
300A ALA* 4.0 26.2 - - + +
303A LEU* 3.7 19.1 - - + -
300C ALA 3.1 18.3 + - - +
301C ALA* 3.5 8.1 - - - +
302C ARG 3.1 0.2 - - - -
303C LEU* 1.3 78.8 - - - +
305C TYR* 1.3 57.1 + - - +
307C LYS* 3.4 9.9 + - + +
308C ALA* 3.0 26.3 + - - +
321C GLU* 4.4 3.0 - - - +
324C GLN* 4.1 18.8 - - + +
325C ALA* 3.7 14.6 - - + +
328C PHE* 3.7 35.4 - - + -
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Residues in contact with TYR 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ALA* 3.4 31.4 - - + -
73C ARG* 3.7 21.6 - - - +
76C GLU* 2.5 31.4 + - - +
250C ILE* 4.0 9.0 - - + +
253C ALA* 3.9 23.8 - - + -
254C ALA* 3.8 28.9 - - + -
257C VAL* 4.1 9.4 - - + -
301C ALA 3.2 8.1 + - - +
302C ARG* 3.7 33.7 - - + +
304C LEU* 1.3 76.5 - - - +
306C LEU* 1.3 80.3 + - + +
308C ALA* 3.7 3.7 - - - +
309C ALA* 2.9 27.8 + - + +
325C ALA* 3.7 7.8 - - + +
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Residues in contact with LEU 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C TRP* 3.7 15.4 - - + +
5C PHE* 3.8 21.1 - - - +
69C ARG* 4.3 18.7 - - + +
73C ARG* 3.4 44.9 - - + +
302C ARG* 3.0 39.7 + - + +
303C LEU* 3.7 12.3 - - + +
305C TYR* 1.3 97.9 - - + +
307C LYS* 1.3 58.4 + - - +
309C ALA* 3.3 5.0 + - - +
310C GLU* 2.8 30.8 + - - +
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Residues in contact with LYS 307 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A PHE* 3.7 49.5 - - + -
299A GLU* 2.9 34.8 + - - +
303A LEU* 4.2 19.6 - - + +
4C TRP* 3.8 3.9 - - + -
303C LEU 2.9 17.8 + - - +
304C LEU* 3.5 11.2 - - + +
305C TYR 3.2 0.2 - - - -
306C LEU* 1.3 75.0 - - - +
308C ALA* 1.3 66.4 + - - +
310C GLU* 3.0 3.6 + - - +
311C LEU* 3.0 29.5 + - + +
321C GLU* 3.8 28.9 + - + +
324C GLN* 5.1 1.4 - - - +
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Residues in contact with ALA 308 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250C ILE* 3.7 23.9 - - + +
304C LEU 3.0 16.6 + - - +
305C TYR* 3.7 8.1 - - - +
307C LYS* 1.3 75.5 - - - +
309C ALA* 1.3 62.3 + - - +
311C LEU* 3.3 6.0 + - - +
312C LYS* 3.1 23.0 + - - +
318C PHE* 4.1 4.3 - - + +
321C GLU* 3.7 35.9 - - - +
322C ALA* 4.0 2.5 - - + -
325C ALA* 4.5 0.7 - - + -
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Residues in contact with ALA 309 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C THR* 3.9 12.5 - - + +
69C ARG* 3.6 31.6 - - - +
72C ALA* 4.9 2.5 - - + -
250C ILE* 3.8 15.0 - - + +
305C TYR 2.9 18.4 + - - +
306C LEU* 3.5 6.3 - - - +
308C ALA* 1.3 76.8 - - - +
310C GLU* 1.3 62.9 + - - +
312C LYS* 3.4 2.1 + - - +
313C ASP* 3.1 30.5 + - - +
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Residues in contact with GLU 310 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A LEU 4.3 12.1 - - - +
5A PHE* 3.7 19.3 - - + -
4C TRP* 2.8 33.6 + - - +
69C ARG* 3.2 26.1 + - - +
306C LEU 2.8 12.1 + - - +
307C LYS 3.0 8.9 + - - +
309C ALA* 1.3 76.8 - - - +
311C LEU* 1.3 62.9 + - - +
313C ASP* 3.5 11.3 + - - +
314C ALA* 3.1 23.7 + - + +
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Residues in contact with LEU 311 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A PHE* 4.0 22.2 - - + -
6A GLU* 4.3 12.6 - - - +
307C LYS* 3.0 24.9 + - - +
308C ALA 3.6 5.4 - - - +
310C GLU* 1.3 74.3 - - - +
312C LYS* 1.3 66.1 + - - +
314C ALA* 2.9 15.8 + - + +
316C ARG* 3.1 44.6 + - + +
317C PRO 3.8 10.5 - - - +
318C PHE* 3.8 9.0 - - + -
321C GLU* 3.4 45.5 - - + +
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Residues in contact with LYS 312 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 4.3 16.7 - - - +
68C THR* 2.7 38.6 + - + +
247C GLY* 4.5 14.1 - - - -
250C ILE* 4.1 4.9 - - + -
308C ALA 3.1 14.4 + - - +
309C ALA 3.7 5.2 - - - +
310C GLU 3.4 0.2 - - - -
311C LEU* 1.3 78.9 - - - +
313C ASP* 1.3 62.0 + - - +
315C GLY* 3.2 13.2 + - - -
316C ARG 4.4 0.7 - - - -
318C PHE* 3.5 48.5 - - + -
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Residues in contact with ASP 313 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C LEU 5.3 0.2 - - - +
67C SER* 3.7 13.0 - - - -
68C THR* 2.8 44.2 + - - -
69C ARG* 3.3 12.5 + - - +
309C ALA 3.1 18.2 + - - +
310C GLU* 3.8 11.6 - - - +
312C LYS* 1.3 77.3 + - - +
314C ALA* 1.3 58.3 + - - +
315C GLY* 3.1 3.6 + - - -
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Residues in contact with ALA 314 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310C GLU* 3.1 14.0 + - + +
311C LEU* 2.9 13.6 + - + +
313C ASP* 1.3 75.5 - - - +
315C GLY* 1.3 62.6 + - - +
316C ARG* 3.2 21.7 + - + +
----------------------------------------------------------
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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