Contacts of the helix formed by residues 334 - 367 (chain A) in PDB entry 4XH9
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 334 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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248A GLN* 4.3 24.2 - - - +
332A GLU 3.5 4.2 - - - +
333A HIS* 1.3 101.4 - - + +
335A ASP* 1.3 62.5 + - - +
336A VAL 3.1 1.0 + - - -
337A GLN* 3.5 8.0 + - + +
338A LEU* 3.4 25.8 + - + +
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Residues in contact with ASP 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ARG* 3.5 10.1 + - - +
248A GLN* 3.2 19.8 - - - +
249A ILE* 3.0 24.3 + - - +
250A GLY* 2.7 30.6 + - - -
329A THR* 3.9 11.9 - - + -
333A HIS* 3.0 25.3 + - + +
334A PRO* 1.3 75.0 - - - +
336A VAL* 1.3 57.8 + - - +
338A LEU* 3.7 5.4 - - - +
339A LEU* 2.7 44.8 + - + +
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Residues in contact with VAL 336 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A LEU* 3.8 16.7 - - + +
329A THR* 3.9 15.0 - - + +
330A PRO 3.1 30.7 - - - +
331A LYS* 3.7 16.6 - - + +
333A HIS 3.4 11.0 - - - +
334A PRO 3.1 0.4 - - - -
335A ASP* 1.3 79.4 - - - +
337A GLN* 1.3 63.6 + - + +
340A GLU* 3.1 44.3 + - - +
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Residues in contact with GLN 337 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A HIS 4.7 0.2 + - - -
334A PRO* 3.5 9.1 + - + +
335A ASP 3.3 0.2 - - - -
336A VAL* 1.3 80.0 - - + +
338A LEU* 1.3 65.7 + - + +
340A GLU* 3.5 23.2 + - - +
341A ASP* 3.1 34.6 + - - +
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Residues in contact with LEU 338 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A GLN* 3.3 30.3 - - - +
250A GLY* 3.6 15.3 - - - -
251A HIS* 3.7 22.2 - - + +
254A VAL* 3.5 22.9 - - + +
334A PRO* 3.4 19.0 + - + +
335A ASP* 3.3 7.5 + - - +
336A VAL 3.3 0.4 - - - -
337A GLN* 1.3 79.6 - - + +
339A LEU* 1.3 59.6 + - - +
341A ASP* 3.3 6.6 + - - +
342A ALA* 2.9 27.9 + - - +
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Residues in contact with LEU 339 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249A ILE* 4.2 11.0 - - + -
250A GLY* 4.4 5.2 - - - -
253A LEU* 3.7 29.2 - - + -
322A LEU* 4.5 14.6 - - + +
325A ILE* 3.7 17.5 - - + -
326A LEU* 3.6 45.5 - - + +
329A THR* 3.8 8.7 - - - +
335A ASP* 2.7 35.6 + - + +
338A LEU* 1.3 73.3 - - - +
340A GLU* 1.3 57.3 + - - +
342A ALA* 3.2 4.4 + - + +
343A ILE* 2.8 37.6 + - + +
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Residues in contact with GLU 340 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A LEU* 3.9 18.8 - - + +
336A VAL* 3.1 37.7 + - - +
337A GLN* 3.6 25.7 + - - +
338A LEU 3.2 0.4 - - - -
339A LEU* 1.3 78.1 - - - +
341A ASP* 1.3 61.6 + - - +
343A ILE* 3.4 10.6 + - + +
344A LEU* 3.2 26.4 + - - +
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Residues in contact with ASP 341 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A VAL* 4.4 10.5 - - + -
337A GLN* 3.1 31.5 + - - +
338A LEU* 3.6 11.6 - - + +
340A GLU* 1.3 73.0 - - - +
342A ALA* 1.3 61.0 + - - +
344A LEU* 3.2 18.3 + - - +
345A ILE* 2.9 36.7 + - + +
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Residues in contact with ALA 342 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250A GLY 4.8 0.2 - - - +
253A LEU* 4.1 15.3 - - + -
254A VAL* 4.2 6.7 - - + +
257A LEU* 3.4 26.0 - - + +
322A LEU* 3.8 9.9 - - + -
338A LEU 2.9 18.1 + - - +
339A LEU* 3.2 10.5 + - + +
341A ASP* 1.3 77.1 - - - +
343A ILE* 1.3 56.8 + - - +
345A ILE* 3.3 9.3 + - - +
346A ILE* 3.0 28.8 + - - +
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Residues in contact with ILE 343 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A PRO* 5.0 2.5 - - + +
322A LEU* 4.0 20.9 - - + +
323A LYS* 3.6 38.8 - - + +
326A LEU* 3.9 24.0 - - + -
339A LEU 2.8 21.5 + - - +
340A GLU* 3.6 7.2 - - + +
341A ASP 3.2 0.2 - - - -
342A ALA* 1.3 74.5 - - - +
344A LEU* 1.3 61.9 + - + +
346A ILE* 3.1 11.0 - - + +
347A GLN* 3.0 58.1 + - + +
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Residues in contact with LEU 344 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A GLU* 3.2 13.4 + - + +
341A ASP* 3.2 21.4 + - - +
343A ILE* 1.3 80.6 - - + +
345A ILE* 1.3 57.5 + - + +
347A GLN* 3.5 18.8 + - + +
348A GLY* 3.0 24.3 + - - -
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Residues in contact with ILE 345 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A VAL* 3.7 41.3 - - + +
257A LEU* 3.9 10.3 - - + -
258A PRO* 3.8 35.2 - - + -
341A ASP* 2.9 25.6 + - + +
342A ALA* 3.5 7.9 - - - +
343A ILE 3.2 0.2 - - - -
344A LEU* 1.3 78.3 - - + +
346A ILE* 1.3 59.0 + - - +
348A GLY* 3.1 3.7 + - - -
349A VAL* 3.0 32.9 + - + +
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Residues in contact with ILE 346 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A LEU* 4.0 14.1 - - + -
260A LEU* 3.7 25.4 - - + -
315A LEU* 4.4 1.3 - - + +
318A TYR* 3.9 25.4 - - + -
319A PRO* 3.9 26.7 - - + -
322A LEU* 4.0 11.2 - - + -
342A ALA 3.0 15.0 + - - +
343A ILE* 3.1 21.1 - - - +
345A ILE* 1.3 75.0 - - - +
347A GLN* 1.3 60.6 + - - +
349A VAL* 3.2 23.7 - - + +
350A LEU* 2.9 37.8 + - + +
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Residues in contact with GLN 347 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A PRO* 5.0 7.3 - - + +
323A LYS* 3.7 20.2 - - - +
343A ILE* 3.0 42.5 + - + +
344A LEU* 3.8 21.1 - - + +
346A ILE* 1.3 79.1 - - + +
348A GLY* 1.3 54.2 + - - +
350A LEU* 4.0 1.7 - - - +
351A SER* 2.7 38.9 + - - +
66B TYR* 3.9 18.3 + - - +
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Residues in contact with GLY 348 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A LEU 3.0 15.2 + - - -
345A ILE* 3.1 5.8 + - - -
347A GLN* 1.3 76.1 - - - +
349A VAL* 1.3 63.9 + - - +
351A SER* 3.5 5.9 + - - -
352A ASP* 3.2 22.5 + - - +
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Residues in contact with VAL 349 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A LEU 4.1 18.8 - - - +
258A PRO* 4.2 17.5 - - + +
260A LEU* 4.5 8.5 - - + -
261A ASN* 4.8 11.4 - - + +
315A LEU* 5.5 0.4 - - + -
345A ILE* 3.0 16.9 + - + +
346A ILE* 3.2 32.8 - - + +
348A GLY* 1.3 74.2 - - - +
350A LEU* 1.3 68.3 + - + +
352A ASP* 3.3 7.5 + - - +
353A ILE* 2.9 36.7 + - + +
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Residues in contact with LEU 350 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A LEU* 3.6 53.4 - - + +
316A VAL* 4.1 11.9 - - + +
319A PRO* 3.6 27.6 - - + -
346A ILE* 2.9 23.1 + - + +
349A VAL* 1.3 77.8 - - + +
351A SER* 1.3 54.9 + - - +
353A ILE* 3.3 8.6 + - + +
354A ASN* 2.7 35.5 + - - +
66B TYR* 3.6 36.3 - - + +
69B LEU* 4.4 8.9 - - + +
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Residues in contact with SER 351 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347A GLN* 2.7 24.5 + - - +
348A GLY* 3.7 6.2 - - - -
350A LEU* 1.3 76.2 - - - +
352A ASP* 1.3 57.3 + - - +
354A ASN* 3.3 7.8 + - - +
355A LEU* 2.9 39.0 + - - +
66B TYR* 3.8 12.8 + - - -
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Residues in contact with ASP 352 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261A ASN* 4.7 3.5 + - - -
264A ARG* 2.4 47.9 + - - +
348A GLY 3.2 15.4 + - - +
349A VAL* 3.6 8.1 - - - +
350A LEU 3.2 0.2 - - - -
351A SER* 1.3 77.5 - - - +
353A ILE* 1.3 59.4 + - - +
355A LEU* 3.4 8.1 + - - +
356A LYS* 3.0 27.4 + - - +
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Residues in contact with ILE 353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A LEU 3.9 21.1 - - - +
261A ASN* 5.2 0.9 - - - -
263A TYR* 4.5 0.4 - - + -
264A ARG* 3.6 33.7 - - + +
267A CYS* 3.9 29.6 - - + -
315A LEU* 3.8 29.2 - - + -
349A VAL* 2.9 26.7 + - + +
350A LEU* 3.8 9.2 - - + +
352A ASP* 1.3 72.4 - - - +
354A ASN* 1.3 65.9 + - - +
356A LYS* 3.5 3.5 + - - +
357A LYS* 3.0 23.9 + - - +
69B LEU* 4.1 15.9 - - + -
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Residues in contact with ASN 354 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A LEU 2.7 22.1 + - - +
351A SER* 3.4 5.9 + - - +
352A ASP 3.3 0.2 - - - -
353A ILE* 1.3 74.1 - - - +
355A LEU* 1.3 73.5 + - - +
357A LYS* 3.5 1.2 + - - +
358A GLY 3.1 16.5 + - - -
65B ASP 5.1 1.0 + - - -
66B TYR* 3.3 27.9 - - + +
67B ASP* 4.3 5.1 - - - +
68B ARG* 3.0 50.4 + - - +
69B LEU* 3.1 25.5 + - + +
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Residues in contact with LEU 355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351A SER* 2.9 25.9 + - - +
352A ASP* 3.8 8.1 - - - +
353A ILE 3.3 0.2 - - - -
354A ASN* 1.3 85.6 - - - +
356A LYS* 1.3 60.6 + - - +
358A GLY* 3.1 3.5 + - - +
359A GLU* 2.8 37.4 + - + +
385A LYS 4.8 0.5 - - - +
386A VAL* 6.4 1.8 - - + -
68B ARG* 5.3 4.0 - - + +
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Residues in contact with LYS 356 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264A ARG* 3.7 40.4 + - + +
265A GLY* 5.6 3.0 - - - -
268A SER* 4.0 17.3 + - - -
352A ASP 3.0 18.0 + - - +
353A ILE* 4.1 3.8 - - - +
355A LEU* 1.3 72.9 - - - +
357A LYS* 1.3 61.9 + - - +
359A GLU* 3.1 27.3 + - - +
360A SER* 2.8 53.4 + - - +
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Residues in contact with LYS 357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A CYS 3.7 22.7 - - - +
268A SER* 4.1 15.7 - - - +
271A LEU* 4.8 14.9 - - + +
353A ILE 3.0 18.6 + - - +
354A ASN 3.6 3.8 - - - +
356A LYS* 1.3 76.2 - - - +
358A GLY* 1.3 58.8 + - - +
360A SER* 3.3 2.4 + - - -
361A GLU* 2.7 56.7 + - - +
68B ARG* 2.8 33.1 + - + +
69B LEU* 3.8 15.5 - - + -
71B PRO* 5.2 6.9 - - - +
72B LEU* 4.0 29.7 - - + +
----------------------------------------------------------
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Residues in contact with GLY 358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A ASN 3.1 14.7 + - - -
355A LEU* 3.1 4.4 + - - -
357A LYS* 1.3 78.6 - - - +
359A GLU* 1.3 55.5 + - - +
361A GLU* 3.8 5.9 - - - +
362A CYS* 2.9 29.8 + - - +
385A LYS 3.7 6.8 - - - +
386A VAL* 5.3 1.6 - - - -
387A LEU* 4.7 5.5 + - - +
68B ARG* 4.2 22.9 - - - -
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Residues in contact with GLU 359 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A LEU* 2.8 24.8 + - + +
356A LYS* 3.1 31.3 + - + +
358A GLY* 1.3 74.4 - - - +
360A SER* 1.3 58.4 + - - +
362A CYS* 3.3 3.3 - - - +
363A GLN* 2.8 29.7 + - - +
385A LYS* 3.4 52.4 - - + +
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Residues in contact with SER 360 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A SER* 3.2 39.5 + - - -
356A LYS* 2.8 32.1 + - - +
357A LYS 3.7 3.1 - - - -
359A GLU* 1.3 73.6 - - - +
361A GLU* 1.3 61.6 + - - +
363A GLN* 3.3 5.6 + - - +
364A TYR* 2.8 30.1 + - - +
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Residues in contact with GLU 361 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A LEU* 4.6 21.9 - - + +
357A LYS* 2.7 50.4 + - - +
358A GLY* 3.8 7.6 - - - +
360A SER* 1.3 75.6 - - - +
362A CYS* 1.3 63.2 + - - +
364A TYR* 3.2 7.0 - - - +
365A TYR* 3.2 46.9 + - + -
387A LEU* 4.6 8.1 - - + -
390A HIS* 2.9 30.4 + - - +
68B ARG* 5.4 4.7 - - - -
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Residues in contact with CYS 362 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A GLY 2.9 19.7 + - - +
359A GLU* 3.3 5.8 - - - +
361A GLU* 1.3 77.9 - - - +
363A GLN* 1.3 57.9 + - - +
365A TYR* 3.3 2.6 + - - +
366A ILE* 3.0 32.9 + - - +
384A SER* 3.4 30.7 - - - +
385A LYS* 3.7 13.7 - - - +
386A VAL 3.8 5.2 - - - -
387A LEU* 4.1 13.0 - - - +
406A PHE* 3.5 33.4 - - - -
----------------------------------------------------------
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Residues in contact with GLN 363 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A GLU 2.8 19.3 + - - +
360A SER* 3.9 6.1 - - - +
362A CYS* 1.3 71.7 - - - +
364A TYR* 1.3 66.0 + - - +
366A ILE* 3.7 24.7 - - - +
367A ASP* 2.5 69.9 + - - +
382A GLU 4.5 7.6 - - - +
384A SER 5.2 2.1 - - - +
----------------------------------------------------------
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Residues in contact with TYR 364 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A LEU* 4.1 18.6 - - + -
272A ALA* 4.2 28.7 - - + -
275A ALA* 3.5 23.7 - - + +
360A SER 2.8 19.0 + - - +
361A GLU* 3.2 10.1 - - - +
363A GLN* 1.3 79.4 - - - +
365A TYR* 1.3 94.6 + + - +
367A ASP* 3.7 7.3 + - - +
368A LYS* 3.1 60.2 + - + +
----------------------------------------------------------
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Residues in contact with TYR 365 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A LEU* 4.6 8.2 - - + +
361A GLU* 3.2 36.4 + - + +
362A CYS 4.1 2.2 - - - +
364A TYR* 1.3 100.1 - + - +
366A ILE* 1.3 67.0 + - - +
367A ASP 3.2 0.7 - - - -
368A LYS* 3.0 15.2 + - + +
369A LEU* 3.3 16.9 + - - +
387A LEU* 3.8 14.8 - - + -
390A HIS* 3.4 33.6 - + - -
402A TYR* 4.2 5.2 + - - -
404A PHE* 3.4 35.9 - + + -
406A PHE* 5.4 2.9 - - + -
424A TYR* 3.5 31.1 - + - -
----------------------------------------------------------
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Residues in contact with ILE 366 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A CYS* 3.0 31.3 + - - +
363A GLN* 3.3 24.9 + - - +
365A TYR* 1.3 77.0 - - - +
367A ASP* 1.3 61.1 + - - +
368A LYS 3.2 1.0 + - - -
369A LEU* 3.2 25.0 + - - +
371A TYR* 5.5 0.7 - - - -
381A ILE* 3.2 28.9 - - + +
382A GLU* 4.2 36.3 - - + +
384A SER 3.9 17.9 - - - +
406A PHE* 3.9 19.0 - - + -
----------------------------------------------------------
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Residues in contact with ASP 367 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A GLN* 2.5 53.3 + - - +
364A TYR* 4.0 6.4 - - - +
366A ILE* 1.3 76.3 - - - +
368A LYS* 1.3 61.4 + - + +
369A LEU 3.4 4.5 + - - +
----------------------------------------------------------
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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