Contacts of the helix formed by residues 335 - 361 (chain H) in PDB entry 3AOH
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 H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H ILE* 3.2 43.5 - - + +
25H SER* 2.8 20.6 + - - -
138H SER* 4.6 5.8 - - - +
333H ILE* 3.4 7.1 + - + -
334H ARG* 1.3 77.6 - - - +
336H VAL* 1.3 69.7 + - - +
337H GLY 3.2 0.4 - - - -
338H GLU* 2.9 19.3 + - - +
339H LEU* 3.0 5.7 + - - +
461H VAL* 4.8 19.6 - - + +
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Residues in contact with VAL 336 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H ILE* 6.4 0.2 - - + -
22H GLN* 2.8 52.3 - - + +
25H SER* 3.9 5.4 - - - +
26H TYR* 3.7 17.0 - - + -
121H MET* 4.6 1.8 - - + -
127H PHE* 3.7 26.2 - - + -
136H ILE* 3.5 29.8 + - + +
138H SER* 5.1 1.8 + - - +
334H ARG 3.7 1.0 + - - -
335H THR* 1.3 69.7 - - + +
337H GLY* 1.3 58.0 + - - +
339H LEU* 2.5 34.8 + - - +
340H MET* 2.8 12.4 + - + -
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Residues in contact with GLY 337 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H SER* 2.6 24.5 + - - -
26H TYR* 4.3 5.8 - - - -
29H ALA* 3.5 29.6 - - - +
336H VAL* 1.3 73.6 - - - +
338H GLU* 1.3 51.8 + - - +
340H MET* 3.9 1.0 - - - +
341H THR* 2.7 38.9 + - - +
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Residues in contact with GLU 338 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H SER* 4.2 1.0 + - - -
265H ARG* 4.7 0.9 + - - -
332H ARG* 2.7 43.1 + - - +
333H ILE 3.6 0.9 - - - +
334H ARG* 2.4 74.3 + - - +
335H THR* 2.9 18.9 + - - +
337H GLY* 1.3 72.1 - - - -
339H LEU* 1.3 54.1 + - - +
341H THR* 2.6 28.6 - - + +
342H ASP* 2.7 21.5 + - + +
345H ARG* 6.1 2.7 - - - +
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Residues in contact with LEU 339 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136H ILE* 4.0 13.2 - - + -
137H VAL 3.8 20.9 - - - +
138H SER* 4.6 0.2 - - - -
139H GLN* 4.5 5.2 - - + +
334H ARG* 3.0 62.8 - - + +
335H THR 3.0 7.6 + - - +
336H VAL* 2.5 13.1 + - - +
338H GLU* 1.3 72.6 - - - +
340H MET* 1.3 61.4 + - - +
342H ASP* 3.1 18.7 - - + +
343H GLN* 3.3 5.7 + - - +
385H PHE* 3.6 36.0 - - + -
391H LEU* 4.4 16.2 - - + -
415H PRO* 6.1 0.4 - - + -
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Residues in contact with MET 340 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H TYR* 2.8 49.8 - - + +
29H ALA* 5.5 2.5 - - + -
30H LEU* 3.4 18.4 - - + -
44H ILE* 4.4 13.9 - - + -
118H ILE* 4.1 16.4 - - + -
336H VAL* 2.8 18.4 + - + +
337H GLY 3.9 2.7 - - - +
339H LEU* 1.3 70.6 - - - +
341H THR* 1.3 70.5 + - - +
342H ASP 3.0 1.6 + - - -
343H GLN* 3.2 5.1 + - - +
344H PHE* 2.9 30.9 + - - -
382H ILE* 5.7 4.2 - - + +
385H PHE* 4.0 11.4 - - + -
386H PHE* 3.4 32.8 - - + -
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Residues in contact with THR 341 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29H ALA* 5.6 2.7 - - - -
43H GLY* 3.3 30.6 + - - -
44H ILE* 4.0 3.7 + - - +
47H ALA* 4.4 1.0 - - - +
337H GLY 2.7 23.5 + - - +
338H GLU* 2.6 37.5 - - + +
340H MET* 1.3 76.7 - - - +
342H ASP* 1.3 64.7 + - - +
344H PHE* 3.3 10.4 - - - +
345H ARG* 2.9 54.7 + - - +
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Residues in contact with ASP 342 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166H PRO* 4.0 18.3 - - - +
265H ARG* 4.2 5.7 + - - -
334H ARG* 2.5 33.5 + - - +
338H GLU* 2.7 20.5 + - + +
339H LEU* 3.1 11.7 - - + +
340H MET 3.0 0.2 - - - -
341H THR* 1.3 77.3 - - - +
343H GLN* 1.3 69.2 + - - +
345H ARG* 2.9 33.3 - - - +
346H VAL* 3.0 20.4 - - - +
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Residues in contact with GLN 343 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339H LEU 3.3 6.0 + - - +
340H MET 3.2 6.7 + - - +
342H ASP* 1.3 82.9 + - - +
344H PHE* 1.3 57.6 + - - +
346H VAL* 2.8 21.1 + - + +
347H GLY* 2.8 26.0 + - - -
350H ARG* 5.4 7.0 + - - +
381H ALA* 4.1 31.9 - - + +
382H ILE* 4.9 4.5 - - + -
384H GLU* 5.0 6.4 - - - +
385H PHE* 3.9 39.9 + - + +
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Residues in contact with PHE 344 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44H ILE* 3.4 55.6 - - + -
47H ALA* 4.4 5.4 - - + -
48H PHE* 4.7 10.1 - + - -
94H LEU* 3.9 24.9 - - + -
118H ILE* 4.8 7.9 - - + -
340H MET* 2.9 19.1 + - - +
341H THR* 3.3 13.2 - - - +
342H ASP 3.1 0.2 - - - -
343H GLN* 1.3 75.2 - - - +
345H ARG* 1.3 58.7 + - - +
347H GLY* 2.9 5.5 + - - -
348H LEU* 2.8 51.3 + - + +
378H LEU* 3.3 33.7 - - + +
382H ILE* 4.2 20.1 - - + +
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Residues in contact with ARG 345 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43H GLY* 4.7 7.9 + - - +
46H ALA* 5.6 2.0 - - - +
47H ALA* 3.6 31.7 - - + +
51H THR* 5.1 6.8 - - + +
265H ARG* 5.4 7.1 - - - +
266H ARG* 4.5 19.1 + - - +
267H TYR* 4.6 11.7 - - - +
268H ASP 5.7 0.2 - - - +
338H GLU* 6.1 2.2 - - - +
341H THR* 2.9 43.8 + - - +
342H ASP* 2.9 24.6 + - - +
344H PHE* 1.3 74.4 - - - +
346H VAL* 1.3 60.4 + - + +
348H LEU* 3.6 14.7 - - + +
349H ALA* 3.0 27.2 + - - +
----------------------------------------------------------
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Residues in contact with VAL 346 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166H PRO* 5.8 3.6 - - + -
342H ASP* 3.0 29.6 - - - +
343H GLN* 2.8 30.8 + - + +
345H ARG* 1.3 77.9 - - + +
347H GLY* 1.3 56.8 + - - +
349H ALA* 3.5 5.2 + - - +
350H ARG* 3.1 58.0 + - + +
381H ALA* 5.3 0.4 - - + -
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Residues in contact with GLY 347 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343H GLN 2.8 10.3 + - - -
344H PHE 2.9 0.2 + - - -
346H VAL* 1.3 77.0 - - - +
348H LEU* 1.3 66.4 + - - +
350H ARG* 3.1 8.2 + - - +
351H LEU* 2.8 23.4 + - - +
377H PRO* 4.5 2.5 - - - +
378H LEU* 3.0 26.7 - - - +
381H ALA* 4.0 15.0 - - - +
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Residues in contact with LEU 348 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47H ALA 3.7 23.3 - - - +
48H PHE* 4.4 18.6 - - + -
51H THR* 3.6 18.1 + - - +
115H LEU* 6.0 0.2 - - + -
344H PHE* 2.8 49.6 + - + +
345H ARG* 3.8 9.9 - - - +
347H GLY* 1.3 71.1 - - - +
349H ALA* 1.3 58.4 + - - +
351H LEU* 3.2 17.6 + - + +
352H ALA* 2.8 30.2 + - - +
378H LEU* 3.3 33.0 - - + -
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Residues in contact with ALA 349 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51H THR* 4.9 11.2 - - + +
266H ARG* 5.5 3.6 - - - +
345H ARG 3.0 17.7 + - - +
346H VAL* 3.6 7.4 - - + +
348H LEU* 1.3 76.5 - - - +
350H ARG* 1.3 59.5 + - + +
352H ALA* 3.1 7.9 + - - +
353H ARG* 2.8 38.4 + - - +
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Residues in contact with ARG 350 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343H GLN* 5.4 6.5 + - - +
346H VAL* 3.1 40.1 + - + +
347H GLY* 3.1 5.4 + - - +
349H ALA* 1.3 78.8 - - + +
351H LEU* 1.3 60.7 + - - +
353H ARG* 3.3 39.9 + - - +
354H GLY* 3.7 3.1 + - - -
374H ASN* 5.6 0.2 + - - -
377H PRO* 4.1 26.1 + - + +
380H ALA* 6.1 1.2 - - - +
381H ALA* 4.3 25.9 - - - +
384H GLU* 5.0 6.7 + - - -
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Residues in contact with LEU 351 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115H LEU* 3.1 36.1 - - + -
347H GLY 2.8 12.8 + - - +
348H LEU* 3.4 20.4 - - + +
350H ARG* 1.3 74.5 - - - +
352H ALA* 1.3 66.2 + - - +
353H ARG 2.9 5.3 + - - -
354H GLY* 3.1 12.0 + - - -
355H VAL* 3.2 9.6 + - + -
372H LEU 4.1 12.1 - - - +
373H VAL* 4.4 7.0 - - + -
374H ASN* 3.4 35.0 - - - +
377H PRO* 4.1 14.3 - - + +
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Residues in contact with ALA 352 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51H THR* 4.8 16.6 - - + +
54H ILE* 4.4 8.9 - - + +
348H LEU 2.8 20.6 + - - +
349H ALA* 3.5 8.3 - - - +
351H LEU* 1.3 76.0 - - + +
353H ARG* 1.3 62.0 + - - +
355H VAL* 2.7 30.0 + - + +
356H ARG* 3.4 15.7 + - - +
----------------------------------------------------------
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Residues in contact with ARG 353 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168H ARG* 5.3 9.3 - - - +
349H ALA* 2.8 17.8 + - - +
350H ARG* 3.3 39.1 - - - +
351H LEU 2.9 0.4 - - - -
352H ALA* 1.3 79.8 - - - +
354H GLY* 1.3 60.6 + - - +
356H ARG* 3.8 12.3 + - - +
357H GLU* 3.9 18.2 + - - +
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Residues in contact with GLY 354 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350H ARG 3.7 3.8 + - - -
351H LEU 3.1 6.5 + - - -
353H ARG* 1.3 75.8 - - - +
355H VAL* 1.3 63.4 + - - +
356H ARG 3.2 0.7 - - - -
357H GLU* 3.2 13.4 + - - +
358H ARG* 2.8 51.7 + - - -
374H ASN* 5.1 0.7 - - - -
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Residues in contact with VAL 355 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54H ILE* 3.9 19.2 - - + +
66H LEU* 4.5 11.0 - - + -
351H LEU* 3.2 9.3 + - + +
352H ALA* 2.7 44.4 - - + +
354H GLY* 1.3 75.3 - - - +
356H ARG* 1.3 63.9 + - - +
358H ARG* 3.5 7.2 + - - +
359H MET* 3.5 17.8 + - - +
372H LEU* 3.2 56.6 + - + +
373H VAL* 5.8 0.7 - - + -
374H ASN* 5.0 0.2 + - - -
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Residues in contact with ARG 356 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54H ILE* 3.6 30.8 - - + +
55H GLU 3.9 23.8 + - - +
56H GLU* 4.1 18.9 - - + +
352H ALA* 3.4 15.8 + - - +
353H ARG* 4.1 7.1 - - - +
354H GLY 3.2 0.4 - - - -
355H VAL* 1.3 79.6 - - - +
357H GLU* 1.3 65.6 + - + +
359H MET* 3.1 15.5 + - - +
360H LEU* 3.4 19.5 - - + +
----------------------------------------------------------
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Residues in contact with GLU 357 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353H ARG* 3.9 15.7 + - - +
354H GLY* 3.2 15.8 + - - +
356H ARG* 1.3 81.5 - - + +
358H ARG* 1.3 60.5 + - - +
359H MET 3.1 3.5 + - - -
360H LEU* 3.5 16.5 + - + +
361H MET* 3.4 20.1 + - - +
73Z VAL* 6.1 0.2 - - - +
----------------------------------------------------------
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Residues in contact with ARG 358 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354H GLY* 2.8 50.9 + - - +
355H VAL* 3.8 8.3 - - - +
356H ARG 3.2 0.4 - - - -
357H GLU* 1.3 81.4 - - - +
359H MET* 1.3 59.0 + - - +
360H LEU 3.4 0.7 - - - -
361H MET* 4.0 30.9 - - + +
362H GLY* 4.0 9.9 + - - -
367H LEU* 4.4 1.6 - - - +
370H ALA 5.3 2.4 + - - -
371H LYS* 3.2 38.9 + - + +
372H LEU* 3.7 13.5 + - + +
373H VAL 4.7 2.0 - - - -
374H ASN* 3.0 51.0 + - - +
1314N LYS* 4.5 13.0 - - + +
1315N ASP 5.2 9.9 + - - -
1316N GLY* 5.5 2.8 - - - -
1317N ASP* 5.7 3.0 - - - +
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Residues in contact with MET 359 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54H ILE* 6.4 2.0 - - + -
56H GLU* 3.2 56.3 - - + +
65H VAL 5.7 7.0 - - - +
100H LEU* 5.6 8.5 - - + -
101H ILE 6.1 0.7 - - - +
102H HIS* 6.1 2.9 - - - +
103H LYS* 6.3 3.4 - - + -
355H VAL 3.5 9.7 + - - +
356H ARG* 3.1 16.3 + - - +
358H ARG* 1.3 78.4 - - - +
360H LEU* 1.3 61.4 + - - +
362H GLY* 3.9 9.6 + - - -
367H LEU* 5.2 8.3 - - + +
372H LEU* 4.9 13.9 - - + -
9Z LYS* 6.2 2.9 - - - +
----------------------------------------------------------
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Residues in contact with LEU 360 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56H GLU* 3.8 32.3 - - + +
356H ARG* 3.4 24.5 - - + +
357H GLU* 3.7 13.7 - - + +
359H MET* 1.3 79.4 - - - +
361H MET* 1.3 56.8 + - - +
362H GLY 2.8 15.5 + - - +
12Z TYR* 5.3 0.2 - - - -
72Z ALA 4.6 0.7 - - - -
73Z VAL* 4.0 19.3 - - + -
74Z ILE* 2.8 63.6 - - + +
76Z GLU* 5.9 0.9 - - + +
----------------------------------------------------------
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Residues in contact with MET 361 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357H GLU 3.4 14.3 + - - +
358H ARG* 4.0 21.1 - - + +
360H LEU* 1.3 78.2 - - - +
362H GLY* 1.3 63.0 + - - +
363H SER* 3.6 3.8 + - - -
371H LYS* 4.2 23.5 + - + +
1129N THR* 4.6 14.6 - - + +
1314N LYS* 2.8 41.7 - - - +
12Z TYR* 4.7 7.6 + - - -
69Z LEU 5.2 4.0 - - - +
70Z SER 5.0 12.1 - - - +
71Z ARG* 5.8 3.4 - - - -
72Z ALA 4.0 15.3 - - - +
73Z VAL* 5.5 0.6 - - - +
----------------------------------------------------------
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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