Contacts of the helix formed by residues 315 - 342 (chain A) in PDB entry 2AAT
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 LEU 315 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A SER* 3.8 19.9 - - - +
63A LYS* 3.8 39.0 - - + +
64A ALA* 5.1 6.5 - - + -
67A TYR* 6.2 2.2 - - + -
308A THR* 5.1 7.2 - - + -
309A ILE* 3.3 22.5 - - - +
312A ASN* 3.4 32.5 + - + +
314A ALA* 1.3 76.0 - - + +
316A ARG* 1.3 63.3 + - - +
317A ALA 3.1 1.1 - - - -
318A ILE* 3.1 25.3 + - + +
319A TRP 3.3 14.2 + - - -
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Residues in contact with ARG 316 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A CYS* 4.8 6.7 - - - +
92A GLU* 4.7 12.3 + - - +
93A LEU* 5.8 6.5 - - - +
309A ILE* 2.8 22.9 + - + +
310A LEU* 2.2 62.7 + - + +
312A ASN 2.2 34.6 + - - +
313A ASP* 4.2 4.5 - - - -
315A LEU* 1.3 69.6 - - - +
317A ALA* 1.3 56.2 + - - +
319A TRP* 3.8 6.6 - - - +
320A GLU* 2.8 60.3 + - - +
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Residues in contact with ALA 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A ASP 2.8 22.6 + - - +
314A ALA* 3.3 9.4 - - - +
316A ARG* 1.3 78.4 - - - +
318A ILE* 1.3 62.6 + - - +
320A GLU* 4.0 5.5 - - - +
321A GLN* 3.5 17.7 + - - +
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Residues in contact with ILE 318 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A THR* 4.2 12.3 - - + +
60A SER* 4.1 5.2 - - - +
63A LYS* 4.8 15.9 - - + +
314A ALA* 2.7 30.1 - - + +
315A LEU* 3.1 35.6 + - + +
317A ALA* 1.3 75.3 - - - +
319A TRP* 1.3 63.6 + - - +
321A GLN* 3.0 5.6 + - - +
322A GLU* 3.0 38.5 + - - +
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Residues in contact with TRP 319 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A LEU* 4.0 11.0 - - + +
60A SER* 3.3 21.4 - - - +
93A LEU* 5.6 9.9 - - + -
233A LEU* 5.1 12.1 - - + -
259A ASN* 3.3 35.1 + - - -
260A PHE* 3.1 62.7 - + - +
309A ILE* 3.2 28.3 - - + -
310A LEU* 4.4 15.5 - - + -
315A LEU 3.3 2.7 + - - +
316A ARG* 3.8 7.2 - - - +
318A ILE* 1.3 75.1 - - - +
320A GLU* 1.3 91.8 + - + +
322A GLU* 2.9 5.5 + - - +
323A LEU* 2.8 43.3 + - + +
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Residues in contact with GLU 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A LEU* 4.4 21.8 - - - +
234A GLU* 5.6 1.4 - - - +
316A ARG* 2.8 52.8 + - - +
317A ALA* 4.8 4.5 - - - +
318A ILE 3.4 0.2 - - - -
319A TRP* 1.3 90.5 - - + +
321A GLN* 1.3 59.3 + - - +
323A LEU* 4.1 4.6 - - + +
324A THR* 2.9 26.3 + - - -
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Residues in contact with GLN 321 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A ALA 3.5 14.6 + - - +
318A ILE* 3.0 6.8 + - - +
320A GLU* 1.3 75.4 - - - +
322A GLU* 1.3 57.8 + - - +
324A THR* 3.2 14.0 + - + -
325A ASP* 2.4 65.9 + - - +
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Residues in contact with GLU 322 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A LEU* 2.3 50.3 - - + +
59A THR* 2.6 26.9 - - - +
60A SER* 3.3 25.5 + - - +
318A ILE* 3.0 24.5 + - - +
319A TRP* 2.9 6.1 + - + +
321A GLN* 1.3 81.4 - - - +
323A LEU* 1.3 61.6 + - - +
325A ASP* 3.3 7.2 + - - +
326A MET* 3.1 30.0 + - + +
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Residues in contact with LEU 323 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A GLY 2.8 28.5 - - - +
229A PHE* 3.9 18.2 - - + -
233A LEU* 4.4 9.0 - - + -
259A ASN* 3.5 41.7 - - - +
319A TRP* 2.8 35.4 + - + +
320A GLU* 4.1 8.3 - - + +
322A GLU* 1.3 73.7 - - - +
324A THR* 1.3 52.4 + - - +
326A MET* 3.1 21.0 + - + +
327A ARG* 2.8 40.5 + - - +
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Residues in contact with THR 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320A GLU* 2.9 16.4 + - - +
321A GLN* 3.3 25.1 - - + +
323A LEU* 1.3 76.8 - - - +
325A ASP* 1.3 64.6 + - - +
327A ARG* 3.2 26.9 + - - +
328A GLN* 2.9 27.2 + - + +
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Residues in contact with ASP 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 4.6 1.8 - - - +
321A GLN* 2.4 53.2 + - - +
322A GLU* 3.5 10.1 - - - +
324A THR* 1.3 74.5 - - - +
326A MET* 1.3 62.6 - - - +
327A ARG 3.3 0.2 - - - -
328A GLN* 2.7 36.6 + - - +
329A ARG* 3.4 9.8 + - + +
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Residues in contact with MET 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 3.1 69.9 + - + -
58A LEU* 4.7 21.3 - - + -
229A PHE* 3.4 19.3 - - + -
258A ALA 4.3 16.6 - - - +
259A ASN 4.6 3.4 - - - +
322A GLU* 3.1 16.4 + - + +
323A LEU* 3.2 33.2 - - + +
325A ASP* 1.3 80.2 - - - +
327A ARG* 1.3 62.2 + - - +
329A ARG* 3.8 2.8 + - - +
330A ILE* 4.0 7.4 - - - +
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Residues in contact with ARG 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A GLY 4.0 6.3 + - - -
229A PHE* 3.3 48.5 - - - +
230A ALA* 4.3 1.3 - - - +
231A ARG 4.4 2.5 - - - +
232A GLY* 2.5 49.5 + - - +
233A LEU* 5.8 0.4 - - - +
323A LEU* 2.8 25.6 + - - +
324A THR* 3.6 29.8 + - - +
325A ASP 3.0 0.2 - - - -
326A MET* 1.3 75.1 - - - +
328A GLN* 1.3 69.0 + - - +
329A ARG 2.5 3.3 + - - -
330A ILE* 2.7 21.7 + - + +
331A GLN* 3.4 29.2 + - + +
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Residues in contact with GLN 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324A THR* 2.9 13.4 + - + +
325A ASP* 2.7 24.6 + - - +
327A ARG* 1.3 69.1 - - - +
329A ARG* 1.3 49.6 + - + +
331A GLN* 3.3 6.7 + - - +
332A ARG* 2.5 59.8 + - + +
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Residues in contact with ARG 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 3.1 29.9 + - + +
49A LYS 4.3 6.3 + - - -
50A ASP* 2.9 14.3 - - - +
51A GLU* 2.4 62.0 - - - +
325A ASP* 3.7 9.6 - - + +
326A MET 4.1 2.5 - - - +
327A ARG 2.5 4.9 + - - -
328A GLN* 1.3 71.1 - - + +
330A ILE* 1.3 57.3 + - + +
332A ARG* 4.1 7.2 - - + -
333A MET* 2.6 58.2 - - + +
389A VAL 5.4 1.0 - - - +
390A ALA* 4.9 3.5 + - - -
392A MET 3.4 23.2 + - - -
393A THR* 3.4 11.5 + - - +
394A PRO* 4.6 1.0 - - - +
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Residues in contact with ILE 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 4.0 30.3 - - + -
229A PHE* 4.6 21.5 - - + +
230A ALA* 5.3 2.2 - - - -
326A MET 4.0 7.9 - - - +
327A ARG* 2.7 11.3 + - + +
329A ARG* 1.3 74.0 - - - +
331A GLN* 1.3 71.2 - - + +
333A MET* 4.6 0.4 - - - -
334A ARG* 2.9 33.8 - - - +
357A ASN* 5.5 1.3 - - + -
358A GLY* 2.9 35.2 - - - +
359A MET* 3.7 27.6 - - + +
389A VAL* 5.1 8.5 - - + -
390A ALA* 4.5 7.6 - - + +
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Residues in contact with GLN 331 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A ALA 5.8 0.5 - - - -
231A ARG* 4.9 4.9 + - - -
232A GLY* 4.7 2.4 + - - -
327A ARG* 3.4 34.9 + - + +
328A GLN* 3.3 9.5 + - - +
330A ILE* 1.3 89.4 - - + +
332A ARG* 1.3 62.8 - - - +
334A ARG* 3.7 3.2 - - - +
335A GLN* 3.7 13.7 + - - +
354A ILE* 4.7 5.7 - - - +
355A LYS* 3.4 32.2 + - - +
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Residues in contact with ARG 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A GLU* 6.3 1.4 - - - +
328A GLN* 2.5 45.5 + - + +
329A ARG* 4.1 8.5 - - + -
331A GLN* 1.3 69.0 - - - +
333A MET* 1.3 74.9 + - + +
334A ARG 3.1 1.1 - - - -
335A GLN* 3.0 30.2 + - - +
336A LEU* 3.2 37.4 - - - +
394A PRO* 5.5 11.7 - - - +
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Residues in contact with MET 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A ARG* 2.6 54.5 + - + +
330A ILE* 4.6 0.7 - - - -
332A ARG* 1.3 85.1 - - + +
334A ARG* 1.3 62.1 + - - +
336A LEU* 2.8 45.2 - - + +
337A PHE* 3.4 6.9 + - - +
389A VAL* 4.6 9.4 - - + +
392A MET* 3.1 50.3 - - + +
393A THR* 3.8 14.1 - - - +
394A PRO* 4.5 4.0 - - - -
397A MET* 4.5 7.0 - - - -
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Residues in contact with ARG 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A ILE 2.9 25.3 + - - +
331A GLN 3.7 5.1 + - - +
332A ARG 3.1 0.8 - - - -
333A MET* 1.3 79.8 - - - +
335A GLN* 1.3 63.1 + - - +
337A PHE 4.0 2.8 + - - -
338A VAL 4.0 0.9 + - - -
353A ILE* 3.1 66.9 - - + +
354A ILE* 3.4 15.6 - - - +
356A GLN 3.5 14.3 + - - -
357A ASN* 3.7 3.7 + - - +
358A GLY 3.3 16.9 + - - -
360A PHE 2.3 46.7 + - - +
361A SER* 2.4 26.1 + - - -
389A VAL* 3.1 37.0 - - + +
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Residues in contact with GLN 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331A GLN 3.7 4.1 + - - +
332A ARG* 3.0 20.2 + - - +
334A ARG* 1.3 75.5 - - - +
336A LEU* 1.3 59.1 + - + +
338A VAL* 2.9 26.5 + - - +
339A ASN* 3.2 17.0 + - + +
354A ILE* 2.8 26.0 - - + +
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Residues in contact with LEU 336 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A ARG* 3.2 54.7 - - - +
333A MET* 2.8 34.8 - - + +
335A GLN* 1.3 76.6 - - + +
337A PHE* 1.3 69.5 + - - +
338A VAL 2.7 2.5 + - - -
339A ASN* 3.0 8.1 + - - +
340A THR* 2.8 24.7 + - + +
394A PRO* 6.1 3.1 - - + -
397A MET* 4.2 18.4 - - + -
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Residues in contact with PHE 337 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A MET 3.4 3.0 + - - +
334A ARG 4.2 0.7 - - - +
335A GLN 3.5 0.2 - - - -
336A LEU* 1.3 81.3 - - - +
338A VAL* 1.3 66.8 + - + +
340A THR* 3.6 2.9 + - - -
341A LEU* 3.3 40.2 + - + +
350A PHE* 3.3 33.9 - + - -
353A ILE* 3.6 32.8 - - + -
363A SER* 5.5 6.3 - - - -
387A VAL* 6.0 0.7 - - + -
392A MET* 2.8 47.3 - - + -
397A MET* 3.6 28.4 - - + +
400A LEU* 4.7 14.1 - - + -
404A ILE* 4.5 12.8 - - + -
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Residues in contact with VAL 338 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A ARG 4.0 0.2 + - - -
335A GLN 2.9 5.0 + - - +
336A LEU 2.7 2.4 + - - -
337A PHE* 1.3 89.2 - - + +
339A ASN* 1.3 64.8 + - - +
341A LEU* 3.3 6.5 + - - +
342A GLN* 3.0 19.3 + - + +
350A PHE* 3.0 49.1 - - + +
351A SER* 4.4 2.0 - - - +
353A ILE* 4.1 4.7 - - + -
354A ILE* 3.1 39.3 - - + -
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Residues in contact with ASN 339 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A GLN* 3.2 15.1 + - + +
336A LEU* 3.0 9.5 + - - +
338A VAL* 1.3 69.4 - - - +
340A THR* 1.3 59.3 + - - +
342A GLN* 2.7 47.0 + - + +
343A GLU* 2.9 39.1 + - - +
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Residues in contact with THR 340 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A LEU* 2.8 25.9 + - - +
337A PHE 3.7 1.8 - - - -
338A VAL 3.2 0.2 - - - -
339A ASN* 1.3 76.1 + - - +
341A LEU* 1.3 56.0 + - - +
343A GLU* 3.0 37.0 + - - +
344A LYS* 3.2 8.2 + - + +
397A MET* 4.0 23.1 - - + +
398A ALA* 4.7 7.9 - - + +
401A CYS* 3.2 32.8 - - + -
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Residues in contact with LEU 341 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A PHE* 3.3 31.8 + - + +
338A VAL* 3.3 6.8 + - - +
339A ASN 3.2 0.4 - - - -
340A THR* 1.3 69.0 - - - +
342A GLN* 1.3 57.5 + - - +
343A GLU 2.9 9.1 + - - -
344A LYS 3.3 20.4 + - - +
345A GLY* 4.2 15.5 - - - +
346A ALA* 3.5 13.2 + - - +
350A PHE* 3.3 48.0 - - + -
401A CYS* 3.1 45.5 - - + +
404A ILE* 3.9 15.0 - - + -
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Residues in contact with GLN 342 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A VAL* 3.0 11.7 + - + +
339A ASN* 2.7 43.4 + - - +
341A LEU* 1.3 70.5 - - - +
343A GLU* 1.3 56.1 - - + +
344A LYS 3.8 1.1 - - - -
346A ALA* 5.4 4.8 - - - +
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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