Contacts of the helix formed by residues 335 - 361 (chain C) in PDB entry 6KQH
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 THR 335 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE* 3.6 36.6 - - + +
25C SER* 3.0 24.2 + - - -
138C SER* 3.8 11.9 - - - +
333C ILE* 3.6 11.8 + - + +
334C ARG* 1.3 77.7 - - - +
336C VAL* 1.3 67.9 + - - +
337C GLY 3.3 0.6 + - - -
338C GLU* 3.2 19.1 + - - +
339C LEU* 3.2 13.5 + - - +
461C VAL* 4.7 12.1 - - + +
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Residues in contact with VAL 336 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE 4.4 0.9 - - - +
22C GLN* 3.7 44.2 - - - +
25C SER* 3.8 6.1 - - - +
26C TYR* 3.8 21.1 - - + +
121C MET* 4.0 3.4 - - + -
127C PHE* 3.9 14.8 - - + -
136C ILE* 3.7 44.1 + - + +
138C SER* 4.7 3.6 + - - +
335C THR* 1.3 72.2 - - - +
337C GLY* 1.3 65.4 + - - +
339C LEU* 3.3 2.9 + - - +
340C MET* 2.9 24.5 + - + +
385C PHE* 4.6 1.7 - - + -
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Residues in contact with GLY 337 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C SER* 3.0 20.3 + - - -
26C TYR* 4.3 7.4 - - - -
29C ALA* 3.7 23.6 - - - -
336C VAL* 1.3 79.3 - - - +
338C GLU* 1.3 52.4 + - - +
340C MET* 3.8 2.1 - - - +
341C THR* 2.5 39.9 + - - -
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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
----------------------------------------------------------
25C SER* 4.4 1.6 + - - -
165C LEU* 4.0 11.8 - - - +
332C ARG* 3.0 39.8 + - - -
333C ILE 4.1 0.7 - - - +
334C ARG* 3.0 45.9 + - - +
335C THR* 3.2 17.7 + - - +
337C GLY* 1.3 75.0 - - - +
339C LEU* 1.3 57.4 + - - +
341C THR* 3.3 6.2 + - - -
342C ASP* 2.9 36.3 + - - +
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Residues in contact with LEU 339 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ILE* 4.0 17.3 - - + -
137C VAL 3.9 13.0 - - - +
139C GLN* 4.1 15.3 - - - +
334C ARG* 3.6 43.1 - - + +
335C THR 3.2 16.7 + - - +
336C VAL 3.9 1.1 - - - +
338C GLU* 1.3 72.7 - - - +
340C MET* 1.3 67.1 + - - +
342C ASP* 3.1 8.5 + - - +
343C GLN* 3.0 26.0 + - - +
385C PHE* 3.6 17.7 - - + -
391C LEU* 3.6 27.4 - - + -
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Residues in contact with MET 340 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C TYR* 3.9 22.9 - - + +
29C ALA* 4.0 14.6 - - + -
30C LEU* 4.4 5.2 - - + -
44C ILE* 3.6 30.7 - - + -
118C ILE* 4.7 9.9 - - - -
336C VAL* 2.9 17.7 + - + +
337C GLY 3.9 3.4 - - - +
339C LEU* 1.3 76.5 - - - +
341C THR* 1.3 72.4 + - - +
343C GLN* 3.4 2.0 + - - +
344C PHE* 2.9 35.8 + - - +
382C ILE* 5.4 5.7 - - + +
385C PHE* 3.6 18.2 - - + -
386C PHE* 3.7 30.1 - - + -
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Residues in contact with THR 341 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ALA* 4.1 7.3 - - - +
43C GLY* 3.3 37.3 - - - +
44C ILE* 4.1 4.9 - - - +
46C ALA* 5.4 1.8 - - + -
47C ALA* 4.6 6.9 - - + +
337C GLY 2.5 24.9 + - - -
338C GLU* 3.6 7.4 - - - -
339C LEU 3.2 0.2 - - - -
340C MET* 1.3 87.2 - - - +
342C ASP* 1.3 58.7 + - - +
344C PHE* 3.3 6.1 + - - +
345C ARG* 2.9 28.9 + - + +
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Residues in contact with ASP 342 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C LEU* 6.2 0.3 - - - +
166C PRO 4.1 11.8 - - - +
167C LYS* 5.6 2.1 - - - +
168C ARG* 5.6 2.2 - - - +
334C ARG* 3.0 35.0 + - - +
338C GLU* 2.9 17.2 + - - +
339C LEU* 3.1 10.1 + - - +
341C THR* 1.3 78.4 - - - +
343C GLN* 1.3 70.9 + - - +
345C ARG* 3.2 25.3 + - - +
346C VAL* 3.0 26.0 + - + +
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Residues in contact with GLN 343 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339C LEU 3.0 12.9 + - - +
340C MET 4.0 2.7 - - - +
342C ASP* 1.3 83.7 - - - +
344C PHE* 1.3 57.8 + - - +
346C VAL* 3.3 24.0 + - - +
347C GLY 3.0 23.6 + - - -
350C ARG* 5.7 2.0 - - - +
381C ALA* 3.6 25.0 + - - +
382C ILE* 5.3 2.0 - - - +
384C GLU* 5.4 5.5 + - - +
385C PHE* 3.7 44.5 - - + +
415C PRO* 5.9 3.1 - - - +
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Residues in contact with PHE 344 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ILE* 3.9 26.7 - - + -
47C ALA* 3.6 17.5 - - + -
48C PHE* 3.9 15.5 - + - -
94C LEU* 3.6 32.5 - - + -
118C ILE* 3.8 14.4 - - + -
340C MET* 2.9 23.6 + - - +
341C THR* 3.4 9.4 - - - +
342C ASP 3.2 0.2 - - - -
343C GLN* 1.3 75.1 - - - +
345C ARG* 1.3 58.8 + - - +
347C GLY 3.4 0.7 + - - -
348C LEU* 2.9 52.4 + - + +
378C LEU* 3.7 21.2 - - + +
382C ILE* 3.6 24.4 - - + +
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Residues in contact with ARG 345 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ALA* 4.0 22.0 - - + +
50C GLU* 3.2 34.3 - - + +
51C THR* 4.7 2.8 + - - +
166C PRO 5.5 0.6 + - - -
167C LYS* 3.8 20.0 + - - +
168C ARG* 3.1 39.1 - - - +
341C THR* 2.9 13.8 + - + +
342C ASP* 3.2 38.9 + - - +
344C PHE* 1.3 75.6 - - - +
346C VAL* 1.3 76.0 + - - +
348C LEU* 3.3 3.8 + - - +
349C ALA* 2.9 30.8 + - + +
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Residues in contact with VAL 346 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C LYS* 6.3 3.8 - - + -
342C ASP* 3.0 17.5 + - + +
343C GLN* 3.5 26.5 - - - +
344C PHE 3.2 0.2 - - - -
345C ARG* 1.3 94.8 - - - +
347C GLY* 1.3 64.5 + - - +
349C ALA* 3.1 8.7 + - - +
350C ARG* 3.0 56.0 + - + +
381C ALA* 5.1 1.1 - - + -
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Residues in contact with GLY 347 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343C GLN 3.0 11.9 + - - -
344C PHE 3.8 2.2 - - - -
346C VAL* 1.3 78.3 - - - +
348C LEU* 1.3 55.2 + - - +
350C ARG* 3.3 8.4 + - - +
351C LEU* 2.9 26.7 + - - +
377C PRO 4.2 2.9 - - - -
378C LEU* 3.8 23.6 + - - -
381C ALA* 3.6 21.0 - - - +
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Residues in contact with LEU 348 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ALA* 3.5 26.2 - - + +
48C PHE* 3.6 25.8 - - + +
51C THR* 3.2 36.8 - - + +
52C PHE* 5.1 0.9 - - + -
115C LEU* 5.0 0.9 - - + -
344C PHE* 2.9 32.5 + - + +
345C ARG* 3.6 4.0 - - - +
347C GLY* 1.3 75.0 - - - +
349C ALA* 1.3 60.6 + - - +
351C LEU* 3.2 17.8 + - + +
352C ALA 2.9 22.5 + - - -
378C LEU* 3.7 34.1 - - + -
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Residues in contact with ALA 349 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C THR* 4.2 4.7 + - - +
345C ARG* 2.9 20.0 + - + +
346C VAL* 3.1 6.9 + - - +
348C LEU* 1.3 75.2 - - - +
350C ARG* 1.3 57.8 + - + +
352C ALA* 3.1 8.8 + - - +
353C ARG* 3.0 27.5 + - - +
356C ARG* 5.0 1.0 + - - -
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Residues in contact with ARG 350 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343C GLN* 5.7 2.0 - - - +
346C VAL* 3.0 39.9 + - + +
347C GLY* 3.6 10.5 - - - +
348C LEU 3.3 0.2 - - - -
349C ALA* 1.3 76.9 - - + +
351C LEU* 1.3 60.4 + - - +
353C ARG* 3.3 10.7 + - - +
354C GLY* 3.0 19.6 + - - -
377C PRO* 3.8 26.2 + - + +
380C ALA* 5.7 1.4 - - - +
381C ALA* 4.2 16.6 - - - +
384C GLU* 3.9 24.0 + - - -
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Residues in contact with LEU 351 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C THR* 5.1 0.2 - - + -
52C PHE* 4.3 25.4 - - + -
54C ILE* 5.0 0.7 - - + -
115C LEU* 4.1 15.9 - - + -
347C GLY 2.9 14.9 + - - +
348C LEU* 3.4 19.7 - - + +
350C ARG* 1.3 76.3 - - - +
352C ALA* 1.3 59.8 + - - +
354C GLY* 3.3 3.0 + - - -
355C VAL* 2.9 45.2 + - + +
358C ARG* 4.9 1.5 + - - +
373C VAL* 3.7 29.2 - - + -
374C ASN 3.9 14.5 + - - +
375C SER* 4.3 5.2 - - - -
377C PRO* 4.0 12.9 - - + +
378C LEU* 4.6 15.5 - - + -
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Residues in contact with ALA 352 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C THR* 3.6 21.1 - - + +
54C ILE* 3.6 20.1 - - + +
348C LEU 2.9 13.4 + - - +
349C ALA* 3.1 11.4 + - - +
351C LEU* 1.3 74.6 - - - +
353C ARG* 1.3 65.0 + - - +
355C VAL* 3.1 2.4 + - - +
356C ARG* 3.0 45.4 + - - +
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Residues in contact with ARG 353 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349C ALA 3.0 13.0 + - - +
350C ARG* 3.3 11.4 + - - +
352C ALA* 1.3 76.9 - - - +
354C GLY* 1.3 58.7 + - - +
356C ARG* 3.4 13.1 + - - +
357C GLU* 2.9 62.3 + - - +
200F LYS 4.0 10.9 + - - -
201F LYS* 4.6 1.8 + - - +
203F THR* 2.9 33.2 + - - -
9H G 4.9 13.3 + - - -
10H A 4.5 17.2 + - - +
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Residues in contact with GLY 354 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350C ARG 3.0 13.6 + - - -
351C LEU* 3.6 3.1 - - - -
352C ALA 3.2 0.2 - - - -
353C ARG* 1.3 79.6 - - - +
355C VAL* 1.3 55.6 + - - +
357C GLU* 3.3 11.7 + - - +
358C ARG* 2.9 57.9 + - - -
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Residues in contact with VAL 355 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C PHE* 5.8 0.2 - - + -
54C ILE* 3.7 28.5 - - + -
66C LEU* 3.8 21.1 - - + -
351C LEU* 2.9 28.1 + - + +
352C ALA 3.1 7.4 + - - +
354C GLY* 1.3 77.1 - - - +
356C ARG* 1.3 58.0 + - - +
358C ARG* 3.2 3.5 + - - +
359C MET* 2.9 32.9 + - + +
372C LEU* 3.7 27.4 - - + +
373C VAL* 4.0 23.3 - - + -
374C ASN 5.4 0.2 - - - +
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Residues in contact with ARG 356 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C THR 5.5 0.4 + - - -
54C ILE* 3.6 27.8 - - + +
55C GLU 3.7 13.1 - - - +
56C GLU* 5.0 7.6 - - - +
265C ARG* 5.0 10.9 - - - +
349C ALA 5.0 1.0 + - - -
352C ALA* 3.0 40.8 + - - +
353C ARG* 3.9 9.5 - - - +
355C VAL* 1.3 76.3 - - - +
357C GLU* 1.3 62.2 + - - +
359C MET* 3.0 35.6 + - + +
360C LEU* 3.0 18.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 357 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353C ARG* 2.9 50.8 + - - +
354C GLY* 3.5 9.1 - - - +
356C ARG* 1.3 76.1 - - - +
358C ARG* 1.3 68.2 + - - +
360C LEU* 3.5 8.6 + - - +
361C MET* 3.4 25.5 + - + +
201F LYS* 2.8 37.3 - - + +
203F THR 4.8 4.2 - - - +
205F ARG* 5.7 3.1 + - - -
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Residues in contact with ARG 358 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351C LEU* 4.9 1.6 + - - +
354C GLY* 2.9 42.5 + - - +
355C VAL 3.6 5.1 - - - +
357C GLU* 1.3 81.7 - - - +
359C MET* 1.3 59.2 + - - +
360C LEU 3.3 0.2 - - - -
361C MET* 2.7 28.0 - - - +
367C LEU* 4.4 4.7 - - + +
371C LYS 3.7 19.3 + - - +
372C LEU* 3.3 28.9 + - + +
374C ASN* 3.2 46.8 + - - +
377C PRO* 6.1 1.4 - - - +
276F ARG* 6.0 1.8 - - - +
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Residues in contact with MET 359 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ILE* 3.9 13.5 - - + +
55C GLU 3.3 29.4 - - - +
56C GLU 3.4 16.5 - - - +
63C GLY 3.2 29.8 - - - +
64C LEU 3.9 9.6 - - - +
65C VAL 4.8 0.7 - - - -
66C LEU* 5.1 4.3 - - - -
100C LEU* 5.8 0.2 - - - -
355C VAL* 2.9 19.0 + - + +
356C ARG* 3.0 26.2 + - + +
358C ARG* 1.3 75.5 - - - +
360C LEU* 1.3 64.5 + - - +
361C MET 4.4 1.1 - - - +
364C GLU* 3.0 24.1 - - - +
367C LEU* 4.7 6.1 - - - +
372C LEU* 3.9 26.0 - - + -
----------------------------------------------------------
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Residues in contact with LEU 360 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLU 4.4 16.6 - - - +
356C ARG 3.0 13.1 + - - +
357C GLU* 3.5 11.0 + - - +
358C ARG 3.3 0.2 - - - -
359C MET* 1.3 80.9 - - - +
361C MET* 1.3 66.7 + - + +
362C GLY 4.0 2.1 + - - +
364C GLU* 4.2 7.0 - - - +
200F LYS* 5.5 7.9 - - - +
201F LYS* 4.1 26.9 - - + +
----------------------------------------------------------
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Residues in contact with MET 361 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357C GLU* 3.4 17.6 + - + +
358C ARG* 2.7 27.9 - - - +
359C MET 4.4 0.9 - - - +
360C LEU* 1.3 82.1 - - + +
362C GLY* 1.3 61.8 + - - +
367C LEU* 5.4 3.1 - - - +
201F LYS* 3.7 29.6 - - + -
202F TYR* 4.6 8.1 - - + +
244F ARG* 3.4 38.8 - - - +
----------------------------------------------------------
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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