Contacts of the helix formed by residues 295 - 323 (chain G) in PDB entry 4HHM
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 ASP 295 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367E ALA 4.2 10.5 - - - +
369E GLY* 3.3 34.2 + - - +
371E ALA 5.7 0.4 - - - +
31G ARG* 3.9 9.4 - - - +
294G GLU* 1.3 75.7 - - - +
296G ILE* 1.3 68.3 + - + +
297G ASP* 2.7 39.7 + - - +
298G GLY* 2.9 21.1 + - - +
299G VAL* 3.0 11.3 + - - +
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Residues in contact with ILE 296 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G VAL 5.2 2.2 - - - +
31G ARG* 4.1 7.9 - - - +
32G PRO* 6.6 0.4 - - + -
34G LEU* 4.7 13.2 - - + -
295G ASP* 1.3 78.7 - - + +
297G ASP* 1.3 76.7 + - - +
299G VAL* 3.3 22.8 + - + +
300G TRP* 3.1 49.7 - - + +
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Residues in contact with ASP 297 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295G ASP* 2.7 22.7 + - - +
296G ILE* 1.3 80.4 - - - +
298G GLY* 1.3 64.7 + - - +
300G TRP* 3.2 13.4 + - - +
301G ALA* 3.0 22.1 + - - +
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Residues in contact with GLY 298 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371E ALA* 5.7 2.9 - - - -
373E GLU* 4.2 3.5 - - - +
374E ARG* 6.0 0.4 - - - -
294G GLU* 3.7 29.1 - - - +
295G ASP* 2.9 16.7 + - - -
297G ASP* 1.3 75.5 - - - +
299G VAL* 1.3 56.8 + - - +
301G ALA* 3.2 9.2 + - - +
302G SER* 2.9 31.8 + - - -
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Residues in contact with VAL 299 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G VAL* 3.2 44.6 - - + +
31G ARG* 3.2 44.0 - - - +
290G PRO* 4.0 13.9 - - + +
294G GLU* 5.0 0.2 - - + -
295G ASP 3.0 15.5 + - - +
296G ILE* 3.4 20.0 - - + +
297G ASP 3.1 0.4 - - - -
298G GLY* 1.3 76.8 - - - +
300G TRP* 1.3 64.5 + - + +
302G SER* 3.3 2.9 + - - -
303G ALA* 3.0 26.5 + - - +
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Residues in contact with TRP 300 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G VAL* 3.6 34.1 - - + -
34G LEU* 3.9 29.8 - - + -
38G GLU* 5.0 0.4 - - + -
39G ALA* 4.2 6.1 - - - -
42G ARG* 3.3 51.7 - - + +
43G LEU* 4.2 9.4 - - + -
46G LEU* 3.8 25.9 - - + +
296G ILE* 3.1 48.5 - - + +
297G ASP* 3.2 13.2 + - - +
299G VAL* 1.3 74.9 - - + +
301G ALA* 1.3 59.7 + - - +
303G ALA* 3.8 2.6 - - - +
304G ALA* 3.0 28.6 + - - +
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Residues in contact with ALA 301 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373E GLU* 5.1 1.8 - - - -
374E ARG* 4.4 32.1 - - + +
377E GLN* 5.5 5.0 - - - +
297G ASP 3.0 13.7 + - - +
298G GLY* 3.2 12.5 + - - +
300G TRP* 1.3 74.2 - - - +
302G SER* 1.3 66.8 + - - +
304G ALA* 3.3 8.4 + - - +
305G GLY* 3.0 17.7 + - - -
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Residues in contact with SER 302 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373E GLU* 3.1 30.1 + - - +
259G ARG* 3.6 19.7 + - - +
288G PHE* 3.5 20.5 - - - -
290G PRO* 4.0 14.3 - - - +
291G PRO* 4.7 0.3 - - - +
298G GLY 2.9 17.6 + - - -
299G VAL 3.6 4.7 - - - -
301G ALA* 1.3 76.3 - - - +
303G ALA* 1.3 55.5 + - - +
305G GLY* 2.8 21.0 + - - -
306G CYS* 3.1 8.8 + - - -
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Residues in contact with ALA 303 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G PHE* 3.3 26.9 - - + -
18G VAL* 3.7 25.1 - - + -
43G LEU* 4.4 2.2 - - + -
46G LEU* 4.0 15.0 - - + -
288G PHE* 3.5 14.3 - - + -
299G VAL 3.0 17.4 + - - +
300G TRP* 3.8 7.2 - - + +
302G SER* 1.3 75.7 - - - +
304G ALA* 1.3 62.3 + - - +
306G CYS* 3.2 10.6 + - - +
307G MET* 3.7 2.8 + - - +
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Residues in contact with ALA 304 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5G PRO* 5.6 1.9 - - - +
46G LEU* 4.1 19.9 - - + +
300G TRP 3.0 18.8 + - - +
301G ALA* 3.5 7.6 - - - +
303G ALA* 1.3 77.1 - - - +
305G GLY* 1.3 61.6 + - - +
307G MET* 3.7 10.8 + - + +
308G ARG* 3.1 25.1 + - - +
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Residues in contact with GLY 305 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377E GLN* 3.8 26.5 - - - -
259G ARG* 4.2 4.7 - - - -
301G ALA 3.0 8.7 + - - -
302G SER 2.8 10.2 + - - -
304G ALA* 1.3 76.9 - - - +
306G CYS* 1.3 65.7 + - - +
308G ARG* 4.4 1.8 - - - -
309G ASN* 2.9 32.5 + - - +
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Residues in contact with CYS 306 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G PHE* 4.0 0.7 - - + -
259G ARG* 3.7 13.4 - - - +
260G PHE* 3.5 33.4 - - - -
286G PHE* 3.4 43.7 - - + -
288G PHE* 3.8 33.9 - - - -
302G SER 3.1 6.8 + - - -
303G ALA 3.2 8.2 + - - +
305G GLY* 1.3 78.8 - - - +
307G MET* 1.3 61.3 + - - +
309G ASN* 3.5 0.5 + - - +
310G TYR* 3.2 15.2 + - - +
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Residues in contact with MET 307 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5G PRO* 3.6 23.3 - - + -
11G PHE* 3.5 42.3 - - + -
13G PHE* 3.6 32.5 - - + -
46G LEU* 3.5 45.8 - - + +
48G ALA* 4.2 11.4 - - + +
286G PHE* 3.8 7.6 - - + -
303G ALA 3.7 6.3 + - - +
304G ALA* 3.7 7.7 + - + +
305G GLY 3.3 0.2 - - - -
306G CYS* 1.3 72.7 - - - +
308G ARG* 1.3 66.6 + - - +
310G TYR* 3.3 3.1 + - - +
311G LEU* 3.0 29.5 + - - +
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Residues in contact with ARG 308 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377E GLN* 3.6 22.2 - - - +
381E ASP* 2.8 25.1 + - - -
386E ALA* 3.2 24.7 + - - +
387E ARG* 5.3 2.0 - - - +
2G ASN 3.2 27.3 + - - +
3G TYR* 3.9 34.8 + - + +
5G PRO* 5.3 1.7 - - + +
304G ALA 3.1 19.5 + - - +
305G GLY* 4.0 4.0 - - - +
307G MET* 1.3 77.1 - - - +
309G ASN* 1.3 64.8 + - - +
311G LEU* 3.2 2.5 + - - +
312G ILE* 2.9 35.5 + - + +
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Residues in contact with ASN 309 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377E GLN* 3.0 34.1 + - - -
380E MET* 3.2 27.7 - - - +
384E LEU* 4.6 3.3 - - + +
259G ARG* 4.0 4.3 + - - -
260G PHE* 3.0 27.3 - - + +
261G GLY* 3.9 15.9 - - - -
265G LEU* 6.4 0.2 - - + -
305G GLY 2.9 19.0 + - - +
306G CYS 3.9 1.1 - - - +
308G ARG* 1.3 78.2 + - - +
310G TYR* 1.3 63.2 + - - +
312G ILE* 3.4 10.7 + - - +
313G LEU* 3.0 33.0 + - + +
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Residues in contact with TYR 310 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G PHE* 3.7 25.4 - + + -
246G LEU* 3.9 25.4 - - + -
260G PHE* 3.5 27.5 - + + -
272G VAL* 3.8 23.6 - - + +
275G LEU* 3.7 18.7 - - + +
276G GLU* 2.6 31.6 + - - -
284G ARG* 2.8 29.8 + - + -
286G PHE* 4.4 0.9 - - + -
306G CYS 3.2 13.7 + - - +
307G MET 3.6 8.1 - - - +
308G ARG 3.2 0.6 - - - -
309G ASN* 1.3 77.6 - - - +
311G LEU* 1.3 58.9 + - + +
313G LEU* 3.4 3.6 + - - +
314G LYS* 2.8 33.7 + - + +
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Residues in contact with LEU 311 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3G TYR* 3.1 47.3 - - + +
4G GLN 4.0 2.0 - - - +
5G PRO* 3.7 26.2 - - + -
9G ASP* 4.0 22.9 - - - +
11G PHE* 4.0 9.2 - - + -
307G MET 3.0 20.8 + - - +
308G ARG 3.7 3.6 - - - +
310G TYR* 1.3 75.4 - - + +
312G ILE* 1.3 66.2 + - - +
314G LYS* 3.2 19.0 + - + +
315G GLU* 3.0 23.9 + - - +
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Residues in contact with ILE 312 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381E ASP* 3.8 16.6 - - - +
384E LEU* 3.8 31.0 - - + -
386E ALA* 3.5 22.0 - - + -
3G TYR* 3.7 29.4 - - + -
308G ARG* 2.9 33.3 + - + +
309G ASN* 3.8 7.6 - - - +
311G LEU* 1.3 76.5 - - - +
313G LEU* 1.3 64.1 + - + +
315G GLU* 3.4 2.3 + - - +
316G ARG* 3.1 56.9 + - + +
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Residues in contact with LEU 313 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384E LEU* 4.8 8.1 - - + -
260G PHE* 4.0 8.5 - - + -
261G GLY* 5.1 0.9 - - - -
265G LEU* 4.4 14.1 - - + -
268G ALA* 3.7 31.2 - - + -
269G PHE* 4.0 14.7 - - + +
272G VAL* 3.7 31.2 - - + -
309G ASN* 3.0 27.4 + - + +
310G TYR 3.8 0.2 - - - +
312G ILE* 1.3 73.7 - - + +
314G LYS* 1.3 66.4 + - - +
316G ARG* 3.2 4.5 + - - +
317G ALA* 2.9 27.4 + - - +
383G LEU* 3.5 31.2 - - + -
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Residues in contact with LYS 314 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G ASP* 4.7 12.3 + - - -
272G VAL* 3.5 15.9 - - + +
276G GLU* 3.4 38.0 + - + +
310G TYR* 2.8 25.4 + - + +
311G LEU* 3.2 19.9 + - + +
313G LEU* 1.3 78.0 - - - +
315G GLU* 1.3 63.8 + - - +
317G ALA* 4.0 1.8 - - - +
318G ALA* 3.1 26.1 + - + +
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Residues in contact with GLU 315 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2G ASN* 5.2 3.1 - - - +
3G TYR* 2.7 37.7 + - + -
311G LEU 3.0 12.3 + - - +
312G ILE 3.6 7.6 - - - +
314G LYS* 1.3 78.8 - - - +
316G ARG* 1.3 72.1 + - - +
318G ALA* 3.5 5.4 + - - +
319G ALA* 3.1 28.9 + - + +
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Residues in contact with ARG 316 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384E LEU* 2.6 35.7 + - - +
385E GLY 3.5 14.8 + - - -
386E ALA* 4.1 4.6 - - - +
3G TYR* 3.4 20.2 + - - -
269G PHE* 3.9 6.7 - - + -
312G ILE* 3.1 25.4 + - + +
313G LEU* 3.2 6.5 + - - +
315G GLU* 1.3 90.7 + - - +
317G ALA* 1.3 60.0 + - - +
319G ALA* 3.7 7.2 + - - +
320G PHE* 3.1 25.1 + - - +
382G HIS* 3.2 29.0 + - - +
383G LEU* 3.0 32.1 + - + +
385G GLY* 4.1 10.1 - - - +
----------------------------------------------------------
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Residues in contact with ALA 317 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269G PHE* 3.5 22.6 - - + -
272G VAL 5.0 0.4 - - - -
273G ASP* 3.6 38.4 - - + +
276G GLU* 6.2 1.8 - - + -
313G LEU 2.9 16.6 + - - +
314G LYS* 4.0 3.8 - - - +
316G ARG* 1.3 74.4 - - - +
318G ALA* 1.3 67.1 + - - +
320G PHE* 3.1 3.1 + - - +
321G ARG* 2.9 27.8 + - - +
----------------------------------------------------------
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Residues in contact with ALA 318 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276G GLU* 6.6 0.2 - - + -
314G LYS* 3.1 20.4 + - + +
315G GLU* 3.7 5.6 - - - +
317G ALA* 1.3 77.6 - - - +
319G ALA* 1.3 57.1 + - - +
321G ARG* 3.4 6.8 + - - +
322G ALA* 3.0 30.6 + - - +
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Residues in contact with ALA 319 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315G GLU* 3.1 19.3 + - + +
316G ARG* 3.8 7.6 - - - +
318G ALA* 1.3 74.7 - - - +
320G PHE* 1.3 66.2 + - - +
322G ALA* 3.7 4.6 - - - +
323G ASP* 2.9 27.2 + - - +
382G HIS* 3.6 18.9 - - + +
----------------------------------------------------------
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Residues in contact with PHE 320 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269G PHE* 4.4 11.4 - + + -
270G TRP* 4.3 6.1 - + - -
273G ASP* 4.6 2.9 - - - -
316G ARG 3.1 16.3 + - - +
317G ALA* 3.1 10.5 + - - +
319G ALA* 1.3 79.0 - - - +
321G ARG* 1.3 97.8 + - + +
322G ALA 3.4 0.3 + - - -
323G ASP 3.4 1.0 + - - -
326G VAL* 3.0 62.1 - - + +
330G LEU* 5.0 0.4 - - + -
375G LEU* 4.1 11.2 - - + -
378G LEU 4.1 0.2 - - - -
379G ALA* 3.6 39.0 - - + -
382G HIS* 3.7 19.2 + + + -
147H ALA* 3.9 23.8 - - + -
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Residues in contact with ARG 321 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270G TRP* 4.1 14.6 - - - -
273G ASP* 2.7 43.7 + - - +
277G SER* 5.6 10.0 - - - -
317G ALA 2.9 15.0 + - - +
318G ALA* 3.8 6.1 - - - +
320G PHE* 1.3 94.0 - - + +
322G ALA* 1.3 56.7 + - - +
323G ASP 3.5 0.2 - - - -
326G VAL* 4.6 2.8 - - - +
327G GLN* 3.2 23.3 - - - +
330G LEU* 4.2 30.6 - - - +
146H GLY 5.2 1.6 + - - -
147H ALA* 4.4 10.5 + - - +
150H ASP* 5.9 0.8 + - - -
----------------------------------------------------------
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Residues in contact with ALA 322 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318G ALA 3.0 17.4 + - - +
319G ALA* 4.0 4.9 - - - +
321G ARG* 1.3 76.7 - - - +
323G ASP* 1.3 63.9 + - - +
324G PRO* 3.3 9.4 - - - +
327G GLN* 3.7 12.4 + - - +
----------------------------------------------------------
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Residues in contact with ASP 323 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319G ALA 2.9 17.2 + - - +
320G PHE 3.4 6.0 + - - +
322G ALA* 1.3 76.9 - - - +
324G PRO* 1.3 73.6 - - - +
325G GLU* 2.7 21.2 + - - +
326G VAL* 2.9 21.5 + - + +
327G GLN* 3.1 12.7 + - - +
382G HIS* 3.0 16.1 + - + +
387G ARG* 2.9 37.7 + - - -
----------------------------------------------------------
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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