Contacts of the helix formed by residues 276 - 307 (chain A) in PDB entry 3OWO
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 PRO 276 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A ALA* 5.8 2.7 - - + -
274A ASN 4.8 0.4 - - - +
275A LEU* 1.3 95.9 - - + +
277A HIS* 1.3 68.6 + - - +
278A GLY 4.7 1.1 - - - +
279A VAL* 3.2 40.4 - - + +
280A CYS* 3.3 11.5 - - - -
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Residues in contact with HIS 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A THR* 5.0 5.4 - - - -
194A ASP* 3.4 20.2 - - - -
263A HIS* 3.3 14.1 - + - -
266A ALA* 5.3 3.1 - - + +
267A HIS* 3.6 26.4 + + - -
270A GLY* 5.8 2.5 - - - -
275A LEU 3.5 3.9 + - - -
276A PRO* 1.3 73.3 - - - +
278A GLY* 1.3 63.6 + - - +
280A CYS* 3.2 13.7 + - - +
281A ASN* 3.0 30.2 + - - +
384A FE2 2.3 29.7 - - - -
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Residues in contact with GLY 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A ALA* 3.5 31.6 - - - +
191A THR* 5.2 1.3 - - - -
194A ASP* 4.0 17.6 + - - -
276A PRO* 3.4 1.6 - - - +
277A HIS* 1.3 80.4 - - - +
279A VAL* 1.3 55.5 + - - +
281A ASN* 3.3 4.2 + - - +
282A ALA* 3.0 27.2 + - - +
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Residues in contact with VAL 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A GLY 5.4 1.1 - - - +
190A ALA* 3.6 23.8 - - + +
276A PRO* 3.2 46.6 - - + +
278A GLY* 1.3 69.3 - - - +
280A CYS* 1.3 66.3 + - - +
282A ALA* 3.5 7.0 - - - +
283A VAL* 3.2 28.6 + - - +
336A ILE* 4.6 11.4 - - + -
337A PRO* 4.9 11.4 - - + -
343A LEU* 4.6 16.6 - - + -
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Residues in contact with CYS 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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266A ALA* 3.9 21.5 - - + +
269A LEU* 3.8 27.5 - - + +
270A GLY* 3.9 9.0 - - - -
275A LEU* 3.5 30.5 - - - -
276A PRO 3.3 14.1 - - - -
277A HIS* 3.2 9.4 + - - +
279A VAL* 1.3 78.4 - - - +
281A ASN* 1.3 63.5 + - - +
283A VAL* 3.6 2.9 + - - +
284A LEU* 3.1 28.8 + - - +
340A LEU* 5.8 0.2 - - - -
343A LEU* 5.2 6.5 - - - -
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Residues in contact with ASN 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A ASP* 3.3 8.4 - - - +
197A THR* 3.8 14.1 - - - +
262A VAL* 3.1 25.9 + - - +
263A HIS* 3.2 22.4 + - - +
266A ALA* 3.1 22.4 - - - +
277A HIS* 3.0 39.9 + - - +
278A GLY 3.5 9.0 - - - +
279A VAL 3.2 0.2 - - - -
280A CYS* 1.3 80.3 - - - +
282A ALA* 1.3 56.9 + - - +
285A LEU* 2.9 33.4 + - - +
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Residues in contact with ALA 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A MET* 3.7 36.2 - - + +
197A THR* 4.9 1.3 - - - -
278A GLY 3.0 17.0 + - - +
279A VAL* 3.5 7.0 - - - +
281A ASN* 1.3 77.9 - - - +
283A VAL* 1.3 63.2 + - - +
285A LEU* 3.6 3.5 - - - +
286A PRO* 3.2 19.8 - - - +
331A ALA* 5.1 2.6 - - - +
336A ILE* 3.4 28.4 - - + +
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Residues in contact with VAL 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A VAL 3.2 13.0 + - - +
280A CYS* 4.2 2.7 - - - +
282A ALA* 1.3 75.7 - - - +
284A LEU* 1.3 60.3 + - - +
286A PRO* 3.4 8.0 - - - +
287A HIS* 3.1 20.6 + - + -
336A ILE* 3.8 5.2 - - + -
337A PRO* 3.3 45.3 - - + +
338A ALA 4.4 2.6 - - - +
339A ASN* 3.4 36.1 - - - +
340A LEU* 3.7 12.8 - - + +
343A LEU* 3.8 11.7 - - + -
382A ALA 4.7 2.2 - - - +
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Residues in contact with LEU 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A VAL* 3.6 12.6 - - + +
265A MET* 3.5 27.4 - - + -
266A ALA* 3.3 39.0 - - + +
269A LEU* 4.0 6.5 - - + -
280A CYS 3.1 12.5 + - - +
281A ASN 3.9 2.2 - - - +
283A VAL* 1.3 79.7 - - - +
285A LEU* 1.3 67.3 + - - +
287A HIS* 2.9 20.1 + - + +
288A VAL* 3.1 21.7 + - + +
340A LEU* 3.6 40.4 - - + -
379A PHE* 4.7 0.7 - - + -
382A ALA* 4.2 9.9 - - + -
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Residues in contact with LEU 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A MET* 4.4 7.9 - - + +
196A LEU* 4.3 11.9 - - + -
197A THR* 3.8 22.0 - - + +
200A PHE* 4.2 26.5 - - + -
201A GLU* 5.5 0.2 - - + -
262A VAL* 4.1 20.8 - - + +
281A ASN 2.9 22.4 + - - +
282A ALA 3.6 2.5 - - - +
284A LEU* 1.3 73.0 - - - +
286A PRO* 1.3 70.8 - - + +
288A VAL* 3.2 1.6 + - - +
289A LEU* 2.9 53.9 + - + +
327A VAL* 3.6 22.0 - - + -
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Residues in contact with PRO 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A ALA 3.2 13.9 - - - +
283A VAL* 3.4 11.2 - - - +
284A LEU 3.5 0.2 - - - -
285A LEU* 1.3 95.6 - - + +
287A HIS* 1.3 65.0 + - + +
289A LEU* 3.4 11.0 + - + +
290A ALA* 3.1 19.4 + - - +
324A ILE* 3.7 15.3 - - + +
327A VAL* 3.8 19.7 - - + -
328A ARG* 3.7 40.1 + - + +
331A ALA* 5.7 3.1 - - + -
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Residues in contact with HIS 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A VAL* 3.1 28.6 + - + +
284A LEU* 2.9 8.9 + - + +
286A PRO* 1.3 79.5 - - + +
288A VAL* 1.3 65.8 + - + +
290A ALA* 3.2 9.4 + - - +
291A TYR 3.2 15.4 + - - -
328A ARG* 5.8 4.7 + - - +
338A ALA 4.7 10.5 + - - -
339A ASN* 5.1 0.9 - - + +
378A LEU* 3.7 21.7 - - + +
381A SER* 3.5 28.1 + - - +
382A ALA* 3.7 33.1 + - + -
383A PHE 5.4 1.1 - - - -
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Residues in contact with VAL 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A GLU* 4.9 0.2 - - - +
261A TYR* 3.7 23.8 - - + +
262A VAL* 3.6 35.4 - - + +
265A MET* 3.9 26.7 - - + -
284A LEU* 3.1 17.6 + - + +
285A LEU 3.8 0.9 - - - +
287A HIS* 1.3 77.4 - - + +
289A LEU* 1.3 59.3 + - + +
291A TYR* 3.0 8.9 + - + +
292A ASN* 2.8 44.1 + - - +
366A ASN* 4.5 0.2 - - - +
378A LEU* 4.2 9.0 - - + -
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Residues in contact with LEU 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A PHE* 3.7 46.7 - - + -
201A GLU* 6.3 0.9 - - + -
204A SER* 5.1 3.8 - - - +
262A VAL* 5.5 3.4 - - + -
285A LEU* 2.9 51.0 + - + +
286A PRO* 3.6 7.2 - - + +
288A VAL* 1.3 78.4 - - + +
290A ALA* 1.3 56.6 + - - +
292A ASN* 3.3 9.4 + - + +
293A ALA* 2.8 30.1 + - - +
300A LEU* 3.5 21.0 - - + +
324A ILE* 3.7 21.3 - - + -
327A VAL* 4.2 10.8 - - + -
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Residues in contact with ALA 290 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A PRO 3.1 14.2 + - - +
287A HIS* 3.5 11.0 - - - +
289A LEU* 1.3 75.8 - - - +
291A TYR* 1.3 62.7 + - - +
293A ALA* 3.2 16.8 - - - +
294A SER* 4.2 1.9 + - - -
321A GLU* 5.4 2.9 - - - +
324A ILE* 3.5 15.2 - - + +
328A ARG* 4.9 10.8 - - - +
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Residues in contact with TYR 291 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261A TYR* 3.7 25.9 - + - -
287A HIS 3.2 9.2 + - - +
288A VAL* 3.0 9.2 + - + +
290A ALA* 1.3 80.6 - - - +
292A ASN* 1.3 77.8 + - - +
293A ALA 3.3 0.3 + - - -
294A SER* 3.3 6.9 + - - -
368A ARG* 2.8 75.3 + - + +
370A GLY* 3.3 19.4 + - - -
374A GLU* 2.9 39.7 + - + +
375A VAL* 5.4 0.6 - - + +
378A LEU* 3.8 30.7 - - + -
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Residues in contact with ASN 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A GLU* 5.5 1.2 + - - -
204A SER* 5.0 6.2 + - - +
288A VAL* 2.8 32.0 + - - +
289A LEU* 4.0 11.0 - - + +
291A TYR* 1.3 79.7 - - - +
293A ALA* 1.3 59.1 + - - +
294A SER 3.0 3.4 - - - -
295A VAL* 2.8 22.4 + - - +
296A VAL* 2.9 28.3 + - + +
300A LEU* 5.3 1.6 - - + -
366A ASN* 2.9 41.9 + - - -
367A PRO* 3.7 14.2 - - + +
368A ARG* 3.6 9.2 - - - +
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Residues in contact with ALA 293 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289A LEU 2.8 15.2 + - - +
290A ALA* 3.2 19.7 - - - +
291A TYR 3.2 0.4 - - - -
292A ASN* 1.3 76.5 - - - +
294A SER* 1.3 59.8 + - - +
295A VAL 3.0 1.4 + - - -
296A VAL 4.0 0.2 - - - -
297A ALA* 3.2 27.8 + - + +
300A LEU* 3.9 17.5 - - + -
320A ALA* 4.9 6.7 - - + -
321A GLU* 4.4 16.4 - - - +
324A ILE* 4.4 3.1 - - + -
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Residues in contact with SER 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A ALA 4.2 2.1 + - - -
291A TYR 3.3 4.0 + - - -
293A ALA* 1.3 78.4 - - - +
295A VAL* 1.3 64.5 + - - +
368A ARG* 3.1 40.1 + - - -
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Residues in contact with VAL 295 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292A ASN 2.8 5.8 + - - +
294A SER* 1.3 95.3 - - - +
296A VAL* 1.3 69.3 + - + +
297A ALA 3.7 2.5 + - - -
367A PRO* 4.0 18.2 - - + +
368A ARG* 4.0 25.6 - - + -
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Residues in contact with VAL 296 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A SER* 4.4 15.7 - - - +
292A ASN* 2.9 30.4 + - + +
293A ALA 4.1 0.9 - - - -
295A VAL* 1.3 87.6 - - + +
297A ALA* 1.3 63.2 + - - +
298A GLY 3.3 3.1 - - - +
299A ARG* 3.2 25.2 + - + +
300A LEU* 3.0 30.8 + - + +
367A PRO* 3.5 30.7 - - + -
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Residues in contact with ALA 297 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A ALA* 3.2 21.4 + - + +
295A VAL 3.7 2.0 + - - -
296A VAL* 1.3 74.8 - - - +
298A GLY* 1.3 66.0 + - - +
300A LEU* 3.1 5.1 + - - +
301A LYS* 3.1 18.0 + - - +
316A ASP* 3.7 26.6 - - + +
317A LYS* 4.3 11.7 - - + +
320A ALA* 3.6 16.8 - - + +
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Residues in contact with GLY 298 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296A VAL* 3.3 0.8 - - - +
297A ALA* 1.3 78.8 - - - +
299A ARG* 1.3 62.1 + - - +
301A LYS* 3.2 14.6 + - - +
302A ASP* 3.2 16.9 + - - +
316A ASP* 3.3 32.4 + - - +
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Residues in contact with ARG 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A TYR* 2.8 58.3 + - + +
204A SER* 4.6 5.3 - - - +
205A SER 5.6 0.6 + - - -
208A ALA* 4.0 8.7 - - - +
213A ASP* 2.5 43.6 + - - -
296A VAL* 3.2 28.8 + - + +
298A GLY* 1.3 72.0 - - - +
300A LEU* 1.3 67.1 + - - +
302A ASP* 3.0 23.8 + - - +
303A VAL* 3.2 10.4 + - - +
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Residues in contact with LEU 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A PHE* 4.0 13.9 - - + -
204A SER* 4.0 18.2 - - - +
289A LEU* 3.5 52.5 - - + +
292A ASN* 4.8 0.9 - - + -
293A ALA* 3.9 22.2 - - + +
296A VAL* 3.0 21.9 + - + +
297A ALA 3.1 6.5 + - - +
299A ARG* 1.3 77.4 - - - +
301A LYS* 1.3 61.8 + - - +
303A VAL* 3.2 9.4 + - + +
304A GLY 3.1 17.2 + - - -
320A ALA* 3.8 17.7 - - + +
323A THR* 3.4 11.7 + - - +
324A ILE* 4.3 8.1 - - + -
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Residues in contact with LYS 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A ALA 3.1 11.5 + - - +
298A GLY 3.3 10.8 - - - +
299A ARG 3.1 0.2 - - - -
300A LEU* 1.3 75.7 - - - +
302A ASP* 1.3 68.9 + - - +
304A GLY* 3.0 1.9 + - - -
305A VAL* 2.9 28.0 + - + +
311A ILE* 3.4 31.9 - - + +
312A ALA* 3.0 22.4 + - - +
314A LEU 2.8 25.0 + - - +
315A GLY 4.3 2.5 - - - +
316A ASP* 3.3 29.1 + - - +
319A GLY* 4.3 2.0 - - - -
320A ALA* 4.3 11.4 - - - +
323A THR* 4.1 7.2 - - - -
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Residues in contact with ASP 302 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A TYR* 2.6 35.5 + - + +
217A LEU* 3.9 11.1 - - + +
298A GLY 3.5 12.2 - - - +
299A ARG* 3.0 17.8 + - - +
301A LYS* 1.3 79.8 - - - +
303A VAL* 1.3 62.6 + - - +
305A VAL* 3.3 7.9 + - - +
306A ALA* 3.0 22.2 + - - +
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Residues in contact with VAL 303 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A ALA 5.6 1.1 - - - +
200A PHE* 3.5 45.8 - - + -
203A TYR* 3.7 25.8 - - + -
204A SER* 6.1 0.4 - - - +
217A LEU* 3.8 13.0 - - + -
220A ALA* 3.7 25.8 - - + -
299A ARG 3.5 14.1 - - - +
300A LEU* 3.2 9.2 + - + +
301A LYS 3.1 0.6 - - - -
302A ASP* 1.3 74.7 - - - +
304A GLY* 1.3 60.3 + - - +
306A ALA* 3.1 2.3 + - - +
307A MET* 2.8 35.9 + - - +
----------------------------------------------------------
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Residues in contact with GLY 304 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A LEU 3.1 7.5 + - - -
301A LYS 3.0 5.1 + - - -
303A VAL* 1.3 76.9 - - - +
305A VAL* 1.3 61.1 + - - +
307A MET* 3.1 9.3 + - - -
309A LEU* 3.0 30.9 + - - +
311A ILE* 3.9 8.3 - - - -
323A THR* 3.0 30.0 + - - +
----------------------------------------------------------
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Residues in contact with VAL 305 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A LYS* 2.9 28.4 + - + +
302A ASP* 3.6 9.9 - - - +
304A GLY* 1.3 75.3 - - - +
306A ALA* 1.3 64.4 + - - +
308A GLY* 3.0 14.4 + - - -
309A LEU 4.1 10.2 + - - +
311A ILE* 3.8 18.6 - - + +
312A ALA* 4.4 21.8 - - + +
----------------------------------------------------------
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Residues in contact with ALA 306 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A LEU* 3.7 41.5 - - + +
220A ALA* 4.9 1.3 - - + -
221A SER* 3.2 28.7 + - - +
225A LYS* 3.7 4.0 + - - -
302A ASP 3.0 13.8 + - - +
303A VAL* 3.1 8.0 + - - +
305A VAL* 1.3 77.8 - - - +
307A MET* 1.3 58.3 + - - +
308A GLY 3.0 5.0 + - - -
----------------------------------------------------------
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Residues in contact with MET 307 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A LEU* 4.5 23.1 - - + -
200A PHE* 4.1 27.6 - - - -
220A ALA* 3.7 22.2 - - + +
221A SER* 4.3 1.1 - - - +
224A ALA* 3.4 34.8 - - + +
225A LYS* 4.3 4.8 + - - +
303A VAL* 2.8 19.8 + - - +
304A GLY* 3.1 7.6 + - - +
306A ALA* 1.3 77.1 - - - +
308A GLY* 1.3 58.6 + - - +
309A LEU* 3.4 17.9 - - + +
323A THR* 4.5 9.4 - - - +
326A ALA* 5.0 10.3 - - + +
327A VAL* 4.7 8.7 - - + -
330A LEU* 4.7 9.4 - - + -
----------------------------------------------------------
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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