Contacts of the helix formed by residues 357 - 390 (chain A) in PDB entry 5I73
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 CYS 357 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A TYR* 3.6 20.2 - - + -
137A LEU* 4.3 9.4 - - + +
138A ALA* 4.6 15.9 - - - +
141A GLN* 3.6 26.0 - - - +
355A ASN 3.9 9.2 - - - -
356A ASN* 1.3 77.5 + - - +
358A TYR* 1.3 67.1 + - - +
359A GLN 3.6 0.4 - - - -
360A ASP* 3.7 5.9 - - - +
361A ALA* 3.0 26.7 + - - +
528A MET* 3.9 19.1 - - - -
529A LEU* 4.2 14.0 - - + +
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Residues in contact with TYR 358 (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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134A TYR* 3.6 27.4 - + + -
356A ASN* 2.9 12.9 + - - +
357A CYS* 1.3 79.1 - - - +
359A GLN* 1.3 60.7 + - + +
361A ALA* 3.9 1.4 - - - +
362A LEU* 2.9 53.3 + - + +
529A LEU* 4.3 12.9 - - + +
531A PHE* 5.8 6.3 - + + -
537A TRP* 3.1 52.7 + + - -
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Residues in contact with GLN 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A ASN* 2.6 23.8 + - - +
358A TYR* 1.3 79.0 - - + +
360A ASP* 1.3 60.8 + - - +
362A LEU* 3.8 5.6 - - - +
363A VAL* 2.9 50.7 + - + +
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Residues in contact with ASP 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A LYS* 2.6 42.8 + - - -
89A LEU* 4.8 17.8 - - + +
137A LEU* 4.6 9.6 - - + -
141A GLN* 5.4 0.5 - - - +
355A ASN* 4.8 0.5 + - - -
356A ASN* 3.2 25.7 - - - +
357A CYS* 3.6 8.0 + - - +
358A TYR 3.2 0.2 - - - -
359A GLN* 1.3 82.8 - - - +
361A ALA* 1.3 63.1 + - - +
363A VAL* 3.9 1.4 - - - +
364A THR* 2.9 33.4 + - + +
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Residues in contact with ALA 361 (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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130A ILE* 5.7 4.3 - - + +
133A PHE* 3.5 24.7 - - + -
134A TYR* 4.2 20.4 - - + -
137A LEU* 3.8 10.0 - - + +
357A CYS 3.0 15.2 + - - +
358A TYR 3.9 2.0 - - - +
360A ASP* 1.3 78.9 - - - +
362A LEU* 1.3 62.6 + - - +
364A THR* 2.7 20.3 + - - -
365A SER* 2.8 19.2 + - - -
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Residues in contact with LEU 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A ILE* 5.5 11.2 - - + +
358A TYR* 2.9 46.9 + - + +
359A GLN* 3.8 5.6 - - - +
361A ALA* 1.3 77.1 - - - +
363A VAL* 1.3 71.4 + - + +
365A SER* 3.7 3.6 - - - -
366A VAL* 2.9 43.2 + - + +
537A TRP* 5.7 5.6 - - + -
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Residues in contact with VAL 363 (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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89A LEU* 5.3 9.4 - - + -
93A ILE* 5.3 4.0 - - + -
359A GLN* 2.9 40.6 + - + +
360A ASP* 3.9 3.4 - - - +
362A LEU* 1.3 82.3 - - + +
364A THR* 1.3 67.3 + - + +
366A VAL* 3.3 5.0 + - - +
367A VAL* 3.0 37.8 + - + +
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Residues in contact with THR 364 (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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89A LEU* 4.1 12.6 - - + +
92A VAL* 3.6 22.4 - - + -
93A ILE* 3.6 37.9 - - + +
96A ALA* 5.6 3.9 - - - +
133A PHE* 3.3 21.6 - - - -
137A LEU* 6.3 0.4 - - + -
360A ASP* 2.9 21.5 + - + +
361A ALA 2.7 22.7 + - - -
363A VAL* 1.3 73.9 - - - +
365A SER* 1.3 62.0 + - - +
367A VAL* 3.2 5.0 + - - +
368A ASN* 3.0 21.9 + - - +
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Residues in contact with SER 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A ILE* 3.6 32.1 - - - +
133A PHE* 3.7 23.0 - - - -
337A LEU* 4.1 17.9 - - - +
361A ALA 2.8 19.1 + - - -
362A LEU 3.7 3.1 - - - -
364A THR* 1.3 77.5 + - - +
366A VAL* 1.3 63.8 + - - +
368A ASN* 3.1 4.9 + - - +
369A CYS* 3.0 30.5 + - - -
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Residues in contact with VAL 366 (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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130A ILE* 6.3 1.1 - - + -
362A LEU* 2.9 39.4 + - + +
363A VAL* 3.7 5.4 - - - +
365A SER* 1.3 76.0 - - - +
367A VAL* 1.3 60.1 + - + +
369A CYS* 3.6 5.0 + - - +
370A MET* 2.9 41.9 + - + +
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Residues in contact with VAL 367 (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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93A ILE* 4.2 23.6 - - + -
289A TYR* 3.1 30.5 - - + +
363A VAL* 3.0 28.2 + - + +
364A THR* 3.4 7.9 - - - +
365A SER 3.1 0.2 - - - -
366A VAL* 1.3 77.0 - - + +
368A ASN* 1.3 55.6 + - - +
370A MET* 4.5 3.8 - - - -
371A THR* 2.4 42.3 + - - +
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Residues in contact with ASN 368 (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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93A ILE* 5.7 0.4 - - + +
96A ALA* 3.3 23.0 - - + +
97A VAL* 4.0 12.3 + - + +
101A ASN* 2.8 32.8 + - - +
121A TYR* 4.6 1.8 + - - -
336A SER* 2.4 29.8 + - - -
337A LEU* 3.6 17.6 - - + +
364A THR 3.0 13.1 + - - +
365A SER* 3.1 11.2 + - - +
367A VAL* 1.3 75.9 - - - +
369A CYS* 1.3 65.6 + - - +
371A THR* 3.7 0.9 - - - -
372A SER* 2.9 12.8 + - - -
707A NA 2.8 20.9 - - - -
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Residues in contact with CYS 369 (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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105A PHE* 5.2 1.0 - - - -
121A TYR* 3.8 36.8 + - + +
125A ALA* 5.6 4.5 - - - -
130A ILE* 6.2 1.6 - - - -
333A ILE* 3.9 18.8 - - - -
337A LEU* 4.8 2.2 - - - -
365A SER* 3.0 20.5 + - - +
366A VAL* 4.0 4.5 - - - +
368A ASN* 1.3 77.9 - - - +
370A MET* 1.3 70.0 + - + +
371A THR 3.1 1.3 - - - -
372A SER* 3.0 5.8 + - - -
373A PHE* 2.9 20.5 + - - +
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Residues in contact with MET 370 (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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366A VAL* 2.9 38.4 + - + +
367A VAL* 3.9 4.3 - - - +
369A CYS* 1.3 74.5 - - + +
371A THR* 1.3 56.9 + - - +
373A PHE* 2.7 46.7 + - + +
374A VAL* 2.9 22.1 + - + +
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Residues in contact with THR 371 (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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97A VAL* 4.1 18.6 - - + -
101A ASN* 5.2 3.6 - - + -
102A VAL* 6.5 0.9 - - + -
289A TYR* 2.5 47.9 + - + +
292A LEU* 4.5 11.0 - - + -
367A VAL* 2.4 27.5 + - - +
368A ASN* 3.7 6.5 - - - -
370A MET* 1.3 79.2 - - - +
372A SER* 1.3 52.6 + - - +
374A VAL* 3.2 10.8 - - + +
375A SER* 2.4 44.5 + - - +
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Residues in contact with SER 372 (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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101A ASN* 2.3 55.1 + - - +
105A PHE* 3.4 35.3 - - - +
106A PRO* 4.8 0.2 - - - +
121A TYR* 4.4 5.6 + - - -
332A GLN* 5.9 0.2 + - - -
336A SER* 5.5 0.3 - - - -
368A ASN 2.9 3.6 + - - -
369A CYS* 3.0 12.1 + - - -
371A THR* 1.3 79.1 - - - +
373A PHE* 1.3 57.6 + - - +
375A SER* 3.2 2.8 + - - -
376A GLY 2.9 24.3 + - - -
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Residues in contact with PHE 373 (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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105A PHE* 3.9 9.8 - + + -
118A LEU* 3.7 43.3 - - + -
312A TYR* 3.2 26.3 + + - -
313A LEU* 4.7 9.6 - - + -
369A CYS 2.9 10.7 + - - +
370A MET* 2.7 40.9 + - + +
372A SER* 1.3 72.1 - - - +
374A VAL* 1.3 67.5 + - + -
376A GLY 3.3 2.1 + - - -
377A PHE* 3.2 44.2 - + - -
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Residues in contact with VAL 374 (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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289A TYR* 5.8 4.3 - - + -
292A LEU* 5.0 8.3 - - + -
296A LEU* 4.8 11.1 - - + +
370A MET* 2.9 23.1 + - + +
371A THR* 3.2 21.1 - - + +
373A PHE* 1.3 80.2 - - + +
375A SER* 1.3 64.2 + - - +
376A GLY 3.1 0.4 - - - -
377A PHE* 3.0 15.4 + - + +
378A VAL* 2.9 32.7 + - + +
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Residues in contact with SER 375 (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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101A ASN 3.6 18.0 + - - -
102A VAL* 4.0 15.3 - - - +
106A PRO* 4.3 2.2 - - - -
292A LEU* 3.4 23.9 - - - +
371A THR* 2.4 27.9 + - - +
372A SER 3.3 5.6 - - - -
374A VAL* 1.3 77.7 - - - +
376A GLY* 1.3 56.4 + - - +
378A VAL* 3.2 11.4 + - - +
379A ILE* 2.9 34.5 + - - +
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Residues in contact with GLY 376 (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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106A PRO* 3.5 20.1 - - - +
312A TYR* 3.4 27.6 - - - -
372A SER 2.9 10.7 + - - -
373A PHE 3.3 0.4 + - - -
374A VAL 3.1 0.6 - - - -
375A SER* 1.3 76.5 - - - +
377A PHE* 1.3 56.8 + - - +
379A ILE* 3.4 0.7 + - - +
380A PHE* 2.9 35.3 + - - +
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Residues in contact with PHE 377 (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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296A LEU* 4.0 17.0 - - + -
309A VAL* 3.8 35.4 - - + -
312A TYR* 4.0 12.1 - + - -
313A LEU* 3.8 20.9 - - + -
373A PHE* 3.2 58.3 - + - -
374A VAL* 3.0 15.7 + - + +
376A GLY* 1.3 73.0 - - - +
378A VAL* 1.3 56.7 + - - +
380A PHE* 4.5 1.8 - - - +
381A THR* 2.6 43.9 + - + +
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Residues in contact with VAL 378 (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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292A LEU* 3.3 51.4 - - + +
295A LEU* 3.7 28.9 - - + +
296A LEU* 3.8 17.9 - - + +
374A VAL* 2.9 23.2 + - + +
375A SER 3.2 7.6 + - - +
377A PHE* 1.3 74.7 - - - +
379A ILE* 1.3 64.0 + - + +
381A THR* 3.2 14.4 + - - -
382A VAL* 3.3 15.9 - - - +
410A TYR* 3.4 8.4 + - + +
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Residues in contact with ILE 379 (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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102A VAL* 3.4 30.1 - - + +
103A TRP* 4.8 1.3 - - - -
106A PRO* 4.3 9.4 - - + -
375A SER 2.9 20.2 + - - +
376A GLY 3.8 3.1 - - - +
378A VAL* 1.3 82.0 - - + +
380A PHE* 1.3 68.6 + - + +
382A VAL* 3.2 6.6 + - - +
383A LEU* 2.9 38.9 + - + +
405A LEU* 3.9 22.2 - - + -
406A LEU* 3.7 25.8 - - + -
410A TYR* 3.6 21.5 - - + -
427A PHE* 5.4 1.8 - - + -
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Residues in contact with PHE 380 (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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106A PRO* 3.3 37.2 - - + -
107A TYR* 4.3 4.3 - + - -
110A ALA* 3.5 21.5 - - + -
305A ALA 3.9 0.7 - - - +
308A GLY* 3.2 46.7 - - - +
309A VAL* 4.3 2.9 - - - +
311A PHE* 3.6 25.4 - + - -
312A TYR* 3.4 19.7 - + + -
376A GLY 2.9 25.9 + - - +
377A PHE* 4.6 1.6 - - - +
379A ILE* 1.3 79.1 - - + +
381A THR* 1.3 60.9 + - - +
383A LEU* 4.0 15.9 - - + -
384A GLY* 2.9 20.0 + - - -
394A VAL* 4.4 11.7 - - + -
398A ALA* 5.2 6.3 - - + -
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Residues in contact with THR 381 (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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295A LEU 4.6 1.0 + - - -
296A LEU* 4.8 9.2 + - + +
299A GLY* 3.4 33.8 - - - +
300A ALA* 4.4 8.7 - - + +
305A ALA* 3.3 21.1 - - + +
309A VAL* 3.9 19.5 - - + -
377A PHE* 2.6 31.0 + - + +
378A VAL* 3.2 11.6 + - - -
380A PHE* 1.3 75.3 - - - +
382A VAL* 1.3 60.2 + - - +
384A GLY 3.3 0.5 + - - -
385A TYR* 2.9 24.1 + - - +
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Residues in contact with VAL 382 (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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295A LEU* 4.5 3.8 - - + +
298A ARG* 6.1 0.9 - - + -
299A GLY* 4.2 14.1 - - - +
302A LEU* 4.3 12.3 - - + -
378A VAL 3.3 10.8 - - - +
379A ILE 3.2 1.4 + - - +
381A THR* 1.3 81.7 - - - +
383A LEU* 1.3 58.3 + - + +
385A TYR* 3.3 9.3 + - + +
386A MET* 2.9 25.6 + - - +
410A TYR* 3.2 49.6 - - + +
413A ALA* 3.6 28.0 - - + +
414A ILE 5.3 0.2 - - - +
417A MET* 5.3 7.0 - - + -
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Residues in contact with LEU 383 (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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379A ILE* 2.9 38.5 + - + +
380A PHE* 4.0 17.0 - - + -
382A VAL* 1.3 76.1 - - + +
384A GLY* 1.3 60.5 + - - +
386A MET* 3.5 5.2 - - + +
387A ALA* 2.9 27.7 + - - +
394A VAL* 4.0 12.1 - - + +
397A VAL* 4.1 7.9 - - + +
398A ALA* 3.7 31.2 - - + -
405A LEU* 4.4 16.2 - - + +
409A THR* 3.8 28.7 - - + -
410A TYR* 4.4 15.7 - - + +
413A ALA* 6.0 0.4 - - + -
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Residues in contact with GLY 384 (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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304A GLY 2.8 20.3 - - - +
305A ALA* 4.2 1.6 - - - -
307A ARG* 4.5 1.7 - - - +
308A GLY* 3.5 22.0 - - - -
380A PHE 2.9 20.2 + - - -
381A THR 3.7 1.6 - - - -
382A VAL 3.2 0.2 - - - -
383A LEU* 1.3 75.6 - - - +
385A TYR* 1.3 59.7 + - - +
387A ALA* 3.4 5.6 + - - +
388A GLU 2.9 21.5 + - - -
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Residues in contact with TYR 385 (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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302A LEU* 3.6 39.7 - - + -
303A PRO* 3.7 46.9 - - + +
304A GLY 3.8 0.8 + - - -
305A ALA* 3.9 0.6 - - + +
381A THR 2.9 14.4 + - - +
382A VAL 3.3 9.4 + - - +
384A GLY* 1.3 77.5 - - - +
386A MET* 1.3 59.5 + - - +
388A GLU* 3.4 2.2 + - + +
389A MET* 2.9 62.6 + - + +
413A ALA* 4.2 24.5 - - + -
416A ASN* 3.4 19.7 + - - +
417A MET* 4.5 3.5 - - + +
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Residues in contact with MET 386 (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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382A VAL 2.9 16.6 + - - +
383A LEU* 3.5 10.5 - - - +
384A GLY 3.2 0.2 - - - -
385A TYR* 1.3 77.8 - - - +
387A ALA* 1.3 59.9 + - - +
389A MET* 3.3 29.0 + - + +
390A ARG* 3.0 49.8 + - + +
397A VAL* 3.8 22.2 - - + -
409A THR* 4.1 13.7 - - + +
412A GLU* 4.0 36.3 - - + +
413A ALA* 3.7 27.6 - - + +
416A ASN* 5.1 0.7 - - - +
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Residues in contact with ALA 387 (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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307A ARG* 4.9 4.5 - - - -
383A LEU 2.9 17.0 + - - +
384A GLY* 3.8 4.9 - - - +
386A MET* 1.3 73.9 - - - +
388A GLU* 1.3 63.9 + - - +
390A ARG* 3.4 4.7 - - - +
391A ASN* 3.2 8.1 + - - -
392A GLU* 2.7 44.5 + - - +
394A VAL* 4.2 27.4 - - + -
397A VAL* 4.3 7.6 - - + +
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Residues in contact with GLU 388 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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303A PRO* 3.6 15.0 - - + +
304A GLY* 3.6 25.6 - - - +
306A TRP* 4.9 1.0 + - - -
307A ARG* 2.4 46.0 + - - +
384A GLY 2.9 18.8 + - - +
385A TYR* 3.5 5.6 - - + +
387A ALA* 1.3 79.4 - - - +
389A MET* 1.3 59.9 + - - +
390A ARG 3.4 5.9 + - - +
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Residues in contact with MET 389 (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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212A TYR* 5.3 21.5 + - + -
385A TYR* 2.9 48.7 + - + +
386A MET* 3.3 33.6 + - + +
388A GLU* 1.3 76.5 - - - +
390A ARG* 1.3 64.7 + - + +
416A ASN* 3.9 26.2 - - + +
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Residues in contact with ARG 390 (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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212A TYR* 5.0 11.7 - - + +
386A MET* 3.0 41.4 + - + +
387A ALA* 3.4 5.4 + - - +
388A GLU 3.2 5.7 - - - +
389A MET* 1.3 86.3 - - + +
391A ASN* 1.3 75.5 - - - +
392A GLU 5.9 0.2 - - - +
396A GLU* 4.7 8.9 + - - +
397A VAL* 3.3 42.2 + - - +
409A THR* 5.6 1.4 + - - +
412A GLU* 5.9 0.4 + - - -
----------------------------------------------------------
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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