Contacts of the helix formed by residues 316 - 341 (chain C) in PDB entry 5Q0S
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 316 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314C THR 4.0 0.4 + - - -
315C LEU* 1.4 73.9 - - - +
317C HIS* 1.3 59.4 + - - +
318C GLU* 3.1 19.4 + - - +
319C ASP* 3.0 23.8 + - - +
320C GLN* 2.9 25.3 + - - +
403C LYS* 3.0 35.9 + - + -
404C ASP* 5.9 2.7 - - + -
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Residues in contact with HIS 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313C GLN 4.7 5.8 + - - -
315C LEU 3.7 13.0 - - - -
316C ASP* 1.3 73.9 + - - +
318C GLU* 1.3 69.3 + - + +
320C GLN* 3.4 24.1 + - - +
321C ILE* 3.3 28.7 + - + +
750D ARG* 6.0 4.4 - - + +
753D LEU* 5.1 0.5 - - - +
754D ASP* 4.2 25.2 + - - -
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Residues in contact with GLU 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C ASP* 3.1 10.7 + - - +
317C HIS* 1.3 81.6 - - + +
319C ASP* 1.3 60.9 + - - +
321C ILE* 3.5 10.3 + - - +
322C ALA* 3.2 24.8 + - - +
401C TYR 5.5 0.8 - - - +
403C LYS* 3.7 21.3 - - - +
750D ARG* 3.9 28.5 + - - -
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Residues in contact with ASP 319 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315C LEU* 5.1 6.3 - - + +
316C ASP* 3.0 27.6 + - + +
318C GLU* 1.3 75.1 - - - +
320C GLN* 1.3 57.9 + - - +
322C ALA* 3.3 1.3 + - - -
323C LEU* 3.0 37.8 + - + +
401C TYR 3.6 5.2 - - - +
402C ILE* 3.4 22.0 - - + +
403C LYS* 2.8 34.6 + - - +
404C ASP* 3.2 32.4 + - - +
408C VAL* 5.4 3.7 - - + +
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Residues in contact with GLN 320 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312C PHE* 2.9 63.0 + - + +
313C GLN* 3.4 23.0 + - - +
315C LEU* 3.3 20.8 + - + +
316C ASP 2.9 15.9 + - - +
317C HIS* 3.4 26.6 + - - +
318C GLU 3.3 0.2 - - - -
319C ASP* 1.3 75.8 - - - +
321C ILE* 1.4 60.8 + - - +
323C LEU* 3.6 1.5 + - - -
324C LEU* 3.3 21.5 + - - +
753D LEU* 4.0 26.6 - - + +
754D ASP* 4.8 3.8 - - - +
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Residues in contact with ILE 321 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317C HIS* 3.3 17.7 + - + +
318C GLU* 3.9 16.6 - - - +
319C ASP 3.3 0.2 - - - -
320C GLN* 1.4 73.4 - - - +
322C ALA* 1.4 58.0 + - - +
324C LEU* 3.3 8.0 + - - +
325C LYS* 2.8 35.8 + - + +
746D HIS* 3.6 35.4 - - + +
749D LEU* 4.3 16.2 - - + -
750D ARG* 3.4 47.8 - - + +
753D LEU* 4.0 17.0 - - + -
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Residues in contact with ALA 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318C GLU 3.2 14.3 + - - +
319C ASP* 3.3 9.6 + - - +
321C ILE* 1.4 76.8 - - - +
323C LEU* 1.4 55.4 + - - +
325C LYS* 3.6 6.5 + - - +
326C GLY* 2.9 26.9 + - - -
399C ARG* 4.2 5.6 - - - +
400C GLN 3.9 18.3 - - - +
401C TYR* 4.4 15.7 - - + +
402C ILE* 3.7 17.0 - - + -
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Residues in contact with LEU 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312C PHE* 3.7 17.3 - - + -
315C LEU* 3.6 29.6 - - + -
319C ASP 3.0 19.8 + - - +
320C GLN 3.8 4.5 - - - +
321C ILE 3.3 0.2 - - - -
322C ALA* 1.4 71.5 - - - +
324C LEU* 1.3 56.7 + - - +
326C GLY 3.4 0.9 + - - -
327C SER* 2.8 38.9 + - - -
394C ILE* 3.4 19.9 - - + +
395C LEU* 4.2 6.5 - - + -
396C SER 3.3 26.5 - - - +
399C ARG* 4.4 7.1 + - + -
402C ILE* 3.7 16.6 - - + -
408C VAL* 3.9 21.8 - - + -
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Residues in contact with LEU 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299C VAL* 6.3 0.7 - - + -
302C LEU* 4.7 11.7 - - + +
303C VAL* 3.9 31.2 - - + +
306C THR* 3.8 35.2 - - + +
320C GLN 3.3 7.6 + - - +
321C ILE* 3.3 9.5 + - - +
323C LEU* 1.3 74.9 - - - +
325C LYS* 1.3 63.8 + - - +
327C SER* 3.6 4.4 + - - +
328C ALA* 3.1 30.5 + - + +
394C ILE* 5.2 0.9 - - + -
472C ILE* 4.5 3.3 - - + +
749D LEU* 4.2 18.6 - - + -
753D LEU* 3.8 41.1 - - + -
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Residues in contact with LYS 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321C ILE* 2.8 23.4 + - + +
322C ALA* 3.9 5.8 - - - +
324C LEU* 1.3 73.8 - - - +
326C GLY* 1.3 60.4 + - - +
327C SER 3.6 0.2 + - - -
328C ALA* 4.2 5.5 + - - +
329C VAL* 5.2 2.6 + - - +
401C TYR* 5.7 7.1 - - - -
448C ASN* 5.4 3.1 - - - +
471C GLU 3.4 23.6 - - - +
472C ILE* 4.0 27.8 - - - +
474C ASP* 2.7 32.8 + - - -
746D HIS* 3.4 28.7 + - + +
749D LEU* 4.1 14.1 - - + -
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Residues in contact with GLY 326 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322C ALA 2.9 19.1 + - - -
323C LEU 3.8 1.1 - - - -
324C LEU 3.3 0.2 - - - -
325C LYS* 1.3 78.1 - - - +
327C SER* 1.3 56.5 + - - +
329C VAL 5.5 0.4 - - - -
330C GLU* 4.0 0.9 - - - +
399C ARG* 3.3 34.0 + - - -
448C ASN* 3.4 22.7 + - - -
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Residues in contact with SER 327 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302C LEU* 4.7 3.5 - - - +
323C LEU 2.8 20.8 + - - -
324C LEU* 3.4 6.8 + - - +
326C GLY* 1.3 77.1 - - - +
328C ALA* 1.4 56.0 + - - +
329C VAL 3.4 2.9 - - - -
330C GLU* 3.2 5.0 + - - +
331C ALA* 2.9 33.4 + - - +
393C VAL* 3.9 6.2 - - - +
394C ILE* 3.6 35.9 - - - +
399C ARG* 3.7 18.4 - - - +
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Residues in contact with ALA 328 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298C HIS* 3.9 5.4 + - - -
299C VAL* 4.5 8.0 - - + +
302C LEU* 3.8 19.3 - - + -
324C LEU* 3.1 18.0 + - + +
325C LYS 4.2 4.6 + - - +
326C GLY 3.8 0.8 - - - -
327C SER* 1.4 75.2 + - - +
329C VAL* 1.3 62.8 + - + +
331C ALA* 3.9 1.9 - - - +
332C MET* 3.2 22.2 + - - +
472C ILE* 4.1 35.4 - - + +
473C TRP* 5.2 2.4 + - - +
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Residues in contact with VAL 329 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325C LYS 5.2 3.4 + - - +
326C GLY 5.4 0.6 + - - -
327C SER 3.4 0.4 - - - -
328C ALA* 1.3 73.0 - - + +
330C GLU* 1.3 68.1 + - - +
332C MET* 3.1 12.2 + - + +
333C PHE* 3.1 48.4 + - + -
448C ASN* 3.7 27.1 - - - +
451C HIS* 3.7 35.9 - - + +
472C ILE 5.3 2.0 - - - +
473C TRP* 3.5 34.8 - - + +
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Residues in contact with GLU 330 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326C GLY 4.1 1.6 - - - +
327C SER 3.2 8.4 + - - +
329C VAL* 1.3 75.7 - - - +
331C ALA* 1.3 57.5 + - - +
333C PHE* 3.3 3.1 + - - -
334C LEU* 3.0 26.5 + - - +
393C VAL* 3.6 15.3 - - + +
399C ARG* 2.9 41.2 + - - -
441C LEU 4.7 1.4 - - - +
444C LEU* 3.4 45.6 - - + +
445C ARG* 3.3 27.4 + - - +
448C ASN* 3.2 23.6 + - + +
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Residues in contact with ALA 331 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298C HIS* 3.8 4.9 + - + +
302C LEU* 3.8 32.5 - - + -
327C SER* 2.9 17.8 + - - +
328C ALA 3.9 5.4 - - - +
330C GLU* 1.3 72.5 - - - +
332C MET* 1.4 59.6 + - - +
334C LEU* 3.5 7.3 + - - +
335C ARG* 3.0 29.1 + - - +
390C THR* 4.4 15.7 + - + +
393C VAL* 4.4 8.6 - - + +
394C ILE* 5.3 1.3 - - + -
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Residues in contact with MET 332 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291C LEU* 4.9 0.7 - - - -
295C ALA* 4.8 1.8 - - + -
298C HIS* 3.4 19.5 - - + +
328C ALA 3.2 12.0 + - - +
329C VAL* 3.1 14.6 + - + +
331C ALA* 1.4 78.3 - - - +
333C PHE* 1.3 95.3 + - + +
335C ARG* 3.3 3.7 + - - +
336C SER* 2.9 32.1 + - - +
473C TRP* 4.4 21.3 - - + +
501C 9LJ 3.3 65.0 - - + -
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Residues in contact with PHE 333 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329C VAL* 3.1 38.9 + - + -
330C GLU* 3.8 6.7 - - - +
332C MET* 1.3 89.9 - - + +
334C LEU* 1.3 60.4 + - - +
336C SER* 3.4 3.3 + - - -
337C ALA* 2.9 29.8 + - - +
369C MET* 3.8 24.5 - - + -
372C PHE* 4.2 3.3 - - + -
373C TYR* 3.6 21.1 - + + -
444C LEU* 4.0 13.5 - - + -
447C PHE* 3.7 33.7 - + + -
451C HIS* 5.0 3.1 - - + -
454C MET* 3.6 24.9 - - + -
501C 9LJ 3.5 26.5 - + + -
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Residues in contact with LEU 334 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264C TYR* 5.6 1.1 - - - +
330C GLU 3.0 16.7 + - - +
331C ALA* 3.8 6.3 - - - +
332C MET 3.3 0.2 - - - -
333C PHE* 1.3 75.0 - - - +
335C ARG* 1.4 57.0 + - - +
337C ALA* 3.3 6.9 + - - +
338C GLU* 3.0 26.7 + - - +
372C PHE* 4.8 3.6 - - + -
376C ILE* 4.2 25.6 - - + -
386C TYR* 4.2 18.6 - - + +
389C LEU* 4.0 27.4 - - + -
390C THR* 3.4 41.1 - - + +
393C VAL* 4.7 2.7 - - + -
440C ARG* 6.1 0.2 - - + -
444C LEU* 3.9 23.0 - - + +
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Residues in contact with ARG 335 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264C TYR* 3.9 10.3 + - - +
265C ASN* 6.4 0.2 - - - +
267C GLN* 3.4 45.8 + - - +
268C ARG 3.0 26.1 + - - -
269C MET* 5.8 0.4 - - - +
270C PRO* 3.6 26.5 - - - +
298C HIS* 4.2 9.0 - - + +
331C ALA 3.0 18.8 + - - +
332C MET* 3.5 5.2 - - - +
334C LEU* 1.4 72.4 - - - +
336C SER* 1.3 58.2 + - - +
338C GLU* 2.8 47.4 + - - +
339C ILE* 3.0 41.6 + - - +
342C LYS* 5.8 0.4 - - - +
383C GLN* 5.9 0.8 - - - +
390C THR* 5.8 0.2 + - - -
501C 9LJ 3.8 23.5 - - + -
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Residues in contact with SER 336 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332C MET 2.9 19.3 + - - -
333C PHE* 3.7 4.7 - - - -
335C ARG* 1.3 73.4 - - - +
337C ALA* 1.4 57.4 + - - +
339C ILE* 3.5 2.1 + - - -
340C PHE* 2.9 30.1 + - - +
373C TYR* 3.4 23.8 - - - -
501C 9LJ 3.1 59.2 + - - -
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Residues in contact with ALA 337 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333C PHE 2.9 14.3 + - - +
334C LEU* 3.3 10.7 + - + +
336C SER* 1.4 72.9 - - - +
338C GLU* 1.3 60.9 + - - +
340C PHE* 3.5 1.6 + - - +
341C ASN* 2.7 33.5 + - - +
372C PHE* 4.0 12.3 - - + -
373C TYR* 3.6 27.3 - - + -
376C ILE* 3.8 22.9 - - + -
----------------------------------------------------------
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Residues in contact with GLU 338 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264C TYR* 2.6 29.0 + - - -
334C LEU 3.0 10.9 + - - +
335C ARG* 2.8 33.0 + - - +
337C ALA* 1.3 72.2 - - - +
339C ILE* 1.4 65.0 + - - +
341C ASN* 3.0 14.4 + - - +
342C LYS* 3.3 28.0 + - - +
383C GLN* 3.5 27.7 - - - +
386C TYR* 3.5 49.6 + - + +
----------------------------------------------------------
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Residues in contact with ILE 339 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270C PRO* 3.8 33.7 - - + +
273C ILE* 3.7 16.6 - - + -
274C THR* 3.7 19.9 - - + +
335C ARG* 3.0 36.7 + - - +
336C SER* 3.8 4.3 - - - +
337C ALA 3.5 0.2 - - - -
338C GLU* 1.4 72.4 - - - +
340C PHE* 1.3 63.6 + - - +
342C LYS* 3.2 25.4 + - - +
344C LEU* 5.9 1.0 - - - +
352C LEU* 5.1 0.3 - - - +
501C 9LJ 3.4 61.2 - - + -
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Residues in contact with PHE 340 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336C SER 2.9 14.9 + - - +
337C ALA 3.7 4.9 - - - +
338C GLU 3.3 0.2 - - - -
339C ILE* 1.3 76.8 - - - +
341C ASN* 1.3 68.7 + - - +
342C LYS 3.3 6.3 + - - +
344C LEU* 5.8 0.2 - - - +
349C SER* 4.0 24.8 + - - -
352C LEU* 3.7 22.4 - - + +
353C GLU* 3.7 32.8 - - + -
370C PHE* 3.6 25.4 - + - -
373C TYR* 3.6 28.9 - + + -
374C LYS* 3.9 27.8 - - + -
501C 9LJ 3.2 16.3 - - - -
----------------------------------------------------------
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Residues in contact with ASN 341 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337C ALA 2.7 24.0 + - - +
338C GLU 3.0 8.1 + - - +
340C PHE* 1.3 84.7 - - - +
342C LYS* 1.3 60.8 + - - +
343C LYS* 3.5 2.8 + - - -
373C TYR* 2.7 28.0 + - - +
374C LYS* 4.6 2.4 - - - +
376C ILE* 3.6 7.1 - - - +
377C GLY* 3.3 31.7 - - - +
386C TYR* 4.2 9.6 - - - +
----------------------------------------------------------
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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