Contacts of the helix formed by residues 369 - 400 (chain C) in PDB entry 6R7H
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 ASN 369 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365C GLU* 4.0 18.8 + - - -
367C TYR* 3.5 7.5 - - - +
368C ASN* 1.3 85.8 - - - +
370C PRO* 1.3 73.5 - - + +
371C ALA* 3.2 11.2 + - + +
372C MET* 3.2 21.9 + - + +
373C LEU* 4.1 1.9 + - - +
280F TYR* 5.0 1.0 - - - +
284F ASN* 4.3 4.2 + - - -
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Residues in contact with PRO 370 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368C ASN 3.8 0.4 - - - +
369C ASN* 1.3 88.6 - - + +
371C ALA* 1.3 61.2 + - + +
372C MET 3.2 0.4 + - - -
373C LEU* 3.4 16.3 + - + +
374C HIS* 3.3 27.1 + - + +
280F TYR* 3.7 44.4 - - + +
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Residues in contact with ALA 371 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369C ASN* 3.1 9.2 - - + -
370C PRO* 1.3 78.7 - - + +
372C MET* 1.3 63.9 + - - +
374C HIS* 3.5 15.2 + - + +
375C ASN* 3.4 18.5 + - - +
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Residues in contact with MET 372 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436A PHE* 4.9 18.2 - - + +
437A GLU* 6.4 0.2 - - - -
440A LEU* 4.6 13.2 - - + -
367C TYR* 3.6 46.7 - - + +
369C ASN* 3.2 16.5 + - + +
371C ALA* 1.3 75.8 - - - +
373C LEU* 1.3 63.6 + - - +
375C ASN* 3.3 28.2 + - - +
376C ILE* 3.4 38.5 + - + +
284F ASN* 4.1 19.7 - - - +
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Residues in contact with LEU 373 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369C ASN 4.1 1.2 + - - +
370C PRO* 3.4 15.3 + - + +
371C ALA 3.3 0.6 - - - -
372C MET* 1.3 78.7 - - - +
374C HIS* 1.3 69.0 + - + +
376C ILE* 3.4 7.5 + - + +
377C ASP* 3.2 42.2 + - - +
280F TYR* 5.5 11.4 - - + +
283F CYS* 3.7 46.4 - - + +
284F ASN* 4.4 17.3 - - - +
287F GLY* 5.1 6.7 - - - -
196H GLN* 4.1 22.9 - - + +
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Residues in contact with HIS 374 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370C PRO* 3.3 26.6 + - + +
371C ALA* 3.5 14.3 + - - +
372C MET 3.3 0.6 - - - -
373C LEU* 1.3 83.4 - - + +
375C ASN* 1.3 60.0 + - - +
377C ASP* 3.9 10.4 + - - +
378C GLN* 2.8 48.2 + - - +
199H ARG* 5.0 10.6 + - - +
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Residues in contact with ASN 375 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440A LEU* 3.9 28.9 - - - +
371C ALA 3.4 9.4 + - - +
372C MET* 3.3 24.5 + - - +
373C LEU 3.3 1.0 - - - -
374C HIS* 1.3 79.6 - - - +
376C ILE* 1.3 56.4 + - - +
378C GLN* 3.9 9.9 - - - +
379C GLU* 3.0 39.8 + - - +
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Residues in contact with ILE 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436A PHE* 6.1 0.4 - - + +
440A LEU* 4.3 19.3 - - + -
372C MET* 3.4 37.6 + - + +
373C LEU* 3.4 11.0 + - + +
374C HIS 3.3 0.2 - - - -
375C ASN* 1.3 76.2 - - - +
377C ASP* 1.3 61.5 + - - +
379C GLU* 3.4 3.2 + - + +
380C MET* 3.0 40.0 + - + +
284F ASN* 4.5 10.3 - - - +
287F GLY* 3.5 32.3 - - - +
288F LEU* 4.9 16.6 - - + +
291F TYR* 4.8 11.7 - - + -
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Residues in contact with ASP 377 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373C LEU* 3.2 36.3 + - - +
374C HIS* 3.9 9.0 + - - +
376C ILE* 1.3 81.0 - - - +
378C GLN* 1.3 62.5 + - + +
380C MET* 3.5 7.7 + - - +
381C LEU* 3.4 27.0 + - - +
287F GLY* 6.1 0.5 - - - -
196H GLN* 5.5 6.8 - - - +
199H ARG* 4.1 38.3 + - - +
200H LEU* 5.5 6.8 - - - +
203H TYR* 3.8 15.0 + - - +
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Residues in contact with GLN 378 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374C HIS* 2.8 43.9 + - - +
375C ASN* 4.0 10.3 - - - +
377C ASP* 1.3 78.2 - - + +
379C GLU* 1.3 61.0 + - - +
381C LEU* 3.4 28.1 + - + +
382C LYS* 4.1 9.7 + - - +
199H ARG* 5.6 6.5 - - - +
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Residues in contact with GLU 379 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440A LEU* 4.7 13.3 - - + +
444A LYS* 4.3 27.1 + - - +
447A GLN* 3.5 21.1 + - - +
375C ASN* 3.0 31.2 + - - +
376C ILE* 3.9 5.8 - - - +
378C GLN* 1.3 77.6 - - - +
380C MET* 1.3 61.8 + - - +
381C LEU 3.2 0.6 + - - -
382C LYS* 3.5 17.2 + - - +
383C CYS 3.7 0.2 + - - -
291F TYR* 3.4 37.1 + - + +
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Residues in contact with MET 380 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376C ILE* 3.0 24.9 + - + +
377C ASP* 3.5 5.8 + - - +
378C GLN 3.3 0.4 - - - -
379C GLU* 1.3 75.8 - - - +
381C LEU* 1.3 63.8 + - - +
382C LYS 3.2 0.2 - - - -
383C CYS* 3.4 14.7 + - - +
384C ILE* 3.4 19.8 + - - +
287F GLY* 4.4 7.2 - - - +
290F ALA* 3.8 27.1 - - + -
291F TYR* 3.9 26.9 - - + -
294F THR* 3.3 27.4 - - + +
203H TYR* 3.5 49.8 + - + +
207H LEU* 6.2 0.7 - - + -
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Residues in contact with LEU 381 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377C ASP 3.4 17.4 + - - +
378C GLN* 3.6 20.6 - - + +
379C GLU 3.2 1.0 - - - -
380C MET* 1.3 78.7 - - - +
382C LYS* 1.3 63.1 + - + +
384C ILE* 3.3 31.0 - - + +
385C GLU* 3.6 13.0 + - - +
199H ARG* 4.7 24.2 - - + +
202H ASP* 5.7 0.7 - - - +
203H TYR* 4.1 12.1 - - + +
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Residues in contact with LYS 382 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A GLN* 3.2 27.2 - - - +
451A LYS* 4.4 18.3 + - - +
164C VAL* 3.9 27.2 - - - +
165C ASP* 5.6 1.2 + - - +
378C GLN 4.1 12.3 - - - +
379C GLU* 3.5 11.3 + - - +
380C MET 3.2 0.6 - - - -
381C LEU* 1.3 81.7 - - + +
383C CYS* 1.3 58.4 + - - +
384C ILE 3.5 0.2 - - - -
385C GLU* 3.6 16.5 + - - +
386C LEU* 3.2 21.3 + - - +
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Residues in contact with CYS 383 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A PHE* 6.3 0.2 - - - -
447A GLN* 3.4 22.1 - - - +
379C GLU 3.7 4.2 + - - +
380C MET* 3.4 9.5 + - - +
382C LYS* 1.3 77.7 - - - +
384C ILE* 1.3 64.5 + - - +
386C LEU* 3.5 3.5 + - - +
387C ASP* 3.3 22.3 + - - +
291F TYR* 4.4 9.0 - - + -
294F THR* 3.7 31.9 - - + +
295F ILE* 3.7 30.3 - - - -
298F THR* 3.9 9.9 + - - -
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Residues in contact with ILE 384 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380C MET 3.4 11.6 + - - +
381C LEU* 3.3 34.5 - - + +
383C CYS* 1.3 76.3 - - - +
385C GLU* 1.3 61.5 + - + +
387C ASP 4.1 0.4 - - - -
388C GLU* 3.4 11.1 + - - +
294F THR* 4.1 11.7 - - + -
202H ASP* 3.7 16.2 - - - +
203H TYR* 3.7 34.3 - - + -
206H PHE* 3.3 55.9 - - + -
207H LEU* 5.7 0.2 - - + -
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Residues in contact with GLU 385 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451A LYS* 6.2 1.1 - - - +
135C THR* 5.2 5.4 - - - +
381C LEU 3.7 14.8 - - - +
382C LYS* 3.6 17.0 + - - +
383C CYS 3.2 0.4 - - - -
384C ILE* 1.3 81.4 - - + +
386C LEU* 1.3 63.2 + - - +
387C ASP 3.3 0.4 - - - -
388C GLU* 3.3 6.3 + - + +
389C ARG* 3.1 47.3 + - + +
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Residues in contact with LEU 386 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A GLN* 3.6 21.1 - - + +
450A ALA* 3.7 25.6 - - + -
451A LYS* 3.7 35.8 - - + +
454A MET* 3.7 33.4 - - + -
167C MET* 5.1 1.8 - - + -
382C LYS 3.2 17.3 + - - +
383C CYS* 3.5 5.3 + - - +
385C GLU* 1.3 76.7 - - - +
387C ASP* 1.3 61.1 + - - +
389C ARG* 3.5 9.1 + - - +
390C LEU* 3.2 26.0 + - + +
298F THR* 4.3 12.1 - - + -
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Residues in contact with ASP 387 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383C CYS 3.3 6.4 + - - +
385C GLU 3.3 0.4 - - - -
386C LEU* 1.3 77.8 - - - +
388C GLU* 1.3 64.0 + - - +
390C LEU* 3.4 4.0 + - - +
391C LYS* 3.2 40.9 + - - +
297F LYS* 3.4 11.3 + - - +
298F THR* 3.4 39.6 - - - +
301F THR* 3.1 24.2 + - - -
206H PHE* 3.2 33.3 - - + -
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Residues in contact with GLU 388 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384C ILE 3.4 16.5 + - - +
385C GLU* 3.3 8.4 + - + +
386C LEU 3.3 0.4 - - - -
387C ASP* 1.3 79.4 + - - +
389C ARG* 1.3 62.5 + - + +
391C LYS* 3.4 28.3 + - - +
392C ALA* 3.5 11.3 + - - +
198G TYR* 2.7 32.3 + - - -
206H PHE* 4.5 5.2 - - + -
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Residues in contact with ARG 389 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451A LYS* 6.0 0.9 - - - +
454A MET* 4.3 10.1 - - + +
135C THR* 3.7 34.8 + - - +
137C GLN* 6.0 1.4 - - - +
167C MET* 3.6 29.2 + - - +
168C ASP* 2.8 39.1 + - - +
385C GLU* 3.1 38.2 + - + +
386C LEU* 3.9 9.9 - - - +
387C ASP 3.3 0.2 - - - -
388C GLU* 1.3 77.7 - - + +
390C LEU* 1.3 60.5 + - - +
392C ALA* 3.5 7.5 + - - +
393C MET* 3.3 27.8 + - - +
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Residues in contact with LEU 390 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450A ALA* 5.8 1.6 - - + +
453A MET* 5.2 1.6 - - + -
454A MET* 4.0 28.3 - - + -
386C LEU* 3.2 21.5 + - + +
387C ASP* 3.8 5.4 - - - +
388C GLU 3.3 0.2 - - - -
389C ARG* 1.3 74.5 - - - +
391C LYS* 1.3 60.6 + - - +
393C MET* 3.5 19.7 + - + +
394C ASP* 3.0 28.9 + - - +
298F THR* 3.8 37.2 - - + +
301F THR* 4.1 14.8 - - + +
302F MET* 4.1 25.6 - - + +
305F PHE* 4.5 16.9 - - + +
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Residues in contact with LYS 391 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387C ASP* 3.2 33.4 + - - +
388C GLU* 3.7 26.3 + - - +
389C ARG 3.2 0.4 - - - -
390C LEU* 1.3 77.6 - - - +
392C ALA* 1.3 62.4 + - - +
394C ASP* 3.9 3.0 - - - +
395C GLN* 3.2 40.9 + - - +
297F LYS* 3.9 20.6 - - - +
301F THR* 3.8 21.5 - - + -
198G TYR* 5.0 4.4 + - - -
202G HIS* 4.5 14.8 + - + +
206H PHE* 4.6 11.3 + - - -
209H ASN* 4.2 20.6 + - - -
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Residues in contact with ALA 392 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388C GLU 3.5 8.2 + - - +
389C ARG* 3.5 10.2 + - - +
390C LEU 3.3 0.2 - - - -
391C LYS* 1.3 78.0 - - - +
393C MET* 1.3 63.4 + - + +
395C GLN* 3.6 10.0 + - - +
396C GLU* 3.4 20.4 + - - +
----------------------------------------------------------
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Residues in contact with MET 393 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454A MET* 3.7 44.4 - - + +
457A ALA* 6.0 0.9 - - + -
461A ARG* 5.2 14.1 - - - +
168C ASP* 3.8 17.7 - - - +
389C ARG* 3.3 21.4 + - - +
390C LEU* 3.5 10.3 + - + +
391C LYS 3.4 0.4 - - - -
392C ALA* 1.3 75.9 - - + +
394C ASP* 1.3 63.1 + - - +
396C GLU* 3.4 11.1 + - - +
397C ILE* 3.4 27.7 + - - +
305F PHE* 3.8 33.7 - - + -
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Residues in contact with ASP 394 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390C LEU 3.0 19.0 + - - +
391C LYS* 3.5 7.8 + - - +
392C ALA 3.3 0.2 - - - -
393C MET* 1.3 78.3 - - - +
395C GLN* 1.3 55.9 + - + +
397C ILE* 3.6 4.0 + - - +
398C THR* 2.6 37.5 + - - -
301F THR* 4.1 9.4 - - + +
304F GLN* 3.2 47.7 + - - +
305F PHE* 3.2 15.5 + - + +
308F LYS* 4.5 8.4 + - - +
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Residues in contact with GLN 395 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391C LYS* 3.2 31.7 + - - +
392C ALA* 4.0 7.7 - - - +
393C MET 3.3 0.4 - - - -
394C ASP* 1.3 79.1 - - + +
396C GLU* 1.3 64.0 + - - +
397C ILE 3.4 0.2 - - - -
398C THR* 3.5 7.5 + - - -
399C VAL* 3.3 27.5 + - - +
205G THR* 3.4 39.4 + - - +
206G GLN* 5.8 0.9 - - - -
209G VAL* 3.7 27.5 - - + +
----------------------------------------------------------
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Residues in contact with GLU 396 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461A ARG* 3.6 35.1 + - - -
392C ALA 3.4 11.7 + - - +
393C MET* 3.7 13.3 - - - +
394C ASP 3.3 0.4 - - - -
395C GLN* 1.3 76.8 - - - +
397C ILE* 1.3 67.0 + - + +
399C VAL* 3.3 15.0 + - - +
400C ASN* 3.2 30.9 + - - +
313F TYR* 5.9 0.9 - - - -
----------------------------------------------------------
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Residues in contact with ILE 397 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461A ARG* 3.9 19.7 - - - +
393C MET 3.4 16.5 + - - +
394C ASP* 4.1 5.4 - - - +
395C GLN 3.4 0.4 - - - -
396C GLU* 1.3 83.5 - - + +
398C THR* 1.3 57.9 + - - +
399C VAL 3.3 0.2 + - - -
400C ASN* 2.9 29.2 + - + +
402C GLN* 4.0 9.7 - - - +
305F PHE* 4.0 17.5 - - + -
308F LYS* 3.4 41.7 - - + +
309F PHE* 4.0 4.7 - - + -
312F LEU* 5.2 4.7 - - + +
313F TYR* 3.7 34.5 - - + +
----------------------------------------------------------
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Residues in contact with THR 398 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394C ASP* 2.6 30.8 + - - -
395C GLN* 3.8 8.7 - - - -
396C GLU 3.3 0.8 - - - -
397C ILE* 1.3 77.0 - - - +
399C VAL* 1.3 63.4 + - - +
400C ASN 3.7 4.0 - - - +
402C GLN* 4.6 8.4 - - - +
308F LYS* 4.4 17.7 - - - +
209G VAL* 5.4 4.7 - - - +
210G GLU* 6.0 1.6 - - + -
213G VAL* 3.4 37.6 - - + +
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Residues in contact with VAL 399 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395C GLN 3.3 16.3 + - - +
396C GLU* 3.6 10.1 - - - +
397C ILE 3.2 1.0 - - - -
398C THR* 1.3 77.3 - - - +
400C ASN* 1.3 70.7 + - - +
401C PRO* 3.6 3.5 - - - +
209G VAL* 3.9 12.6 - - + +
212G GLU* 3.4 43.3 - - + +
213G VAL* 5.0 12.6 - - - +
----------------------------------------------------------
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Residues in contact with ASN 400 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396C GLU* 3.2 31.5 + - - +
397C ILE* 2.9 24.4 + - + +
398C THR* 3.7 4.9 - - - +
399C VAL* 1.3 81.9 - - - +
401C PRO* 1.3 76.7 - - + +
402C GLN* 3.6 5.0 + - - +
312F LEU* 5.0 8.5 - - + -
313F TYR* 4.4 16.2 + - + +
213G VAL* 6.2 0.2 - - - -
----------------------------------------------------------
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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