Contacts of the helix formed by residues 78 - 106 (chain N) in PDB entry 2D2C
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 PHE 78 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76N VAL 2.7 5.5 + - - -
77N SER* 1.3 75.4 - - - +
79N GLY* 1.3 67.7 + - - +
80N TRP* 3.3 39.0 - + - +
81N LEU* 2.7 22.9 + - + +
82N ILE* 3.1 16.8 + - + +
257P TRP* 6.0 7.4 - + - -
36Q TYR* 5.8 3.1 - + - -
37Q PRO* 3.2 53.2 - - + +
40Q LYS* 4.9 8.1 - - + -
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Residues in contact with GLY 79 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72N ILE* 3.2 35.0 - - - -
76N VAL* 2.8 20.4 + - - -
77N SER 3.1 3.9 - - - -
78N PHE* 1.3 71.7 - - - +
80N TRP* 1.3 66.6 + - - +
81N LEU 2.6 0.9 + - - -
82N ILE* 2.7 12.4 + - - +
83N ARG 2.9 10.3 + - - -
41Q TYR* 4.4 9.2 - - - -
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Residues in contact with TRP 80 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72N ILE 3.8 6.1 + - - -
73N MET* 3.9 44.9 - - + +
76N VAL 4.7 1.3 - - - -
78N PHE* 3.4 46.2 - + - +
79N GLY* 1.3 69.3 - - - +
81N LEU* 1.3 96.8 + - + +
83N ARG* 4.4 0.2 - - - -
84N SER* 2.7 46.2 + - - +
55O SER 5.3 1.8 - - - -
56O VAL* 3.4 21.1 - - + -
59O PRO* 5.6 7.9 - - + -
254P ARG* 2.9 65.6 - - + +
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Residues in contact with LEU 81 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78N PHE* 2.7 26.1 + - + +
79N GLY 2.6 3.0 + - - -
80N TRP* 1.3 110.6 - - + +
82N ILE* 1.3 78.1 + - + +
84N SER* 3.6 1.5 - - - -
85N ILE* 2.9 50.3 + - + +
52O VAL* 5.0 8.5 - - + -
55O SER* 4.7 6.7 - - - -
56O VAL* 3.2 21.5 - - + -
37Q PRO* 6.3 4.3 - - + -
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Residues in contact with ILE 82 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50N THR* 3.5 41.7 - - + +
53N ALA* 4.3 9.6 - - + -
54N MET* 4.1 13.2 - - + -
72N ILE* 6.0 0.4 - - + -
78N PHE* 3.2 26.2 - - + +
79N GLY* 2.7 10.0 + - - +
81N LEU* 1.3 83.2 - - + +
83N ARG* 1.3 70.4 + - - +
85N ILE* 3.1 6.9 + - - +
86N HIS* 3.0 15.1 + - - +
37Q PRO* 6.2 0.9 - - + -
38Q LEU* 5.1 13.2 - - + +
41Q TYR* 3.8 32.5 - - + -
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Residues in contact with ARG 83 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54N MET* 4.6 8.9 - - - -
69N VAL* 3.7 24.9 - - - +
72N ILE* 4.8 8.9 - - + +
73N MET* 4.0 16.2 - - - +
79N GLY 2.9 10.2 + - - +
80N TRP* 3.6 6.7 - - - +
82N ILE* 1.3 82.2 - - - +
84N SER* 1.3 70.3 + - - +
86N HIS* 2.6 20.7 + - - +
87N ARG* 2.8 12.5 + - - +
139N PRO* 4.6 4.8 - - - +
141N ASP* 5.2 1.0 + - - -
301N HEM 3.3 65.8 + - - -
60O ALA* 2.7 41.9 - - + +
61O MET* 3.3 23.6 + - - -
62O VAL 5.7 0.2 - - - -
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Residues in contact with SER 84 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80N TRP* 2.7 31.6 + - - -
81N LEU* 3.6 1.3 - - - -
83N ARG* 1.3 76.0 - - - +
85N ILE* 1.3 64.4 + - - +
87N ARG* 2.8 9.6 + - - +
88N TRP* 2.7 25.6 + - - -
55O SER* 2.8 31.9 + - - -
59O PRO* 3.6 6.6 - - - +
60O ALA* 3.1 29.2 + - - +
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Residues in contact with ILE 85 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46N ILE* 3.4 28.7 - - + -
50N THR* 3.8 9.6 - - + -
81N LEU* 2.9 44.3 + - + +
82N ILE* 3.2 9.0 - - - +
83N ARG 2.9 2.6 + - - -
84N SER* 1.3 67.9 - - - +
86N HIS* 1.3 61.0 + - - +
88N TRP 2.7 3.3 + - - -
89N SER 2.4 32.4 + - - -
48O PHE* 4.2 23.6 - - + -
51O ILE* 3.2 28.3 - - + +
52O VAL* 4.4 3.6 - - + -
55O SER* 2.6 19.5 + - - +
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Residues in contact with HIS 86 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47N GLN* 2.6 32.8 + - + -
50N THR* 2.6 25.9 + - - +
51N GLY* 3.2 12.8 + - - -
54N MET* 3.4 17.0 - - + -
82N ILE 3.0 5.5 + - - +
83N ARG* 2.6 18.1 + - - +
85N ILE* 1.3 75.8 - - - +
87N ARG* 1.3 55.2 + - - -
90N ALA* 2.8 30.7 + - - +
301N HEM 2.3 84.9 + + + -
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Residues in contact with ARG 87 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83N ARG* 2.8 13.9 + - - +
84N SER* 2.8 14.3 + - - +
86N HIS* 1.3 83.4 - - - +
88N TRP* 1.3 104.0 + - - +
90N ALA* 3.2 4.9 - - - +
91N SER* 3.1 25.7 + - - +
301N HEM 3.2 29.6 - - + +
58O ASP* 3.9 2.2 + - - -
59O PRO 3.7 4.8 + - - -
60O ALA* 3.7 7.4 - - - +
61O MET* 3.1 38.4 - - + +
146P LYS* 2.9 32.9 - - - +
3R LEU* 6.2 1.4 - - - +
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Residues in contact with TRP 88 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84N SER* 2.7 22.4 + - - -
85N ILE 2.7 9.3 + - - +
87N ARG* 1.3 101.6 - - - +
89N SER* 1.3 69.8 + - - +
90N ALA 2.6 3.0 + - - -
91N SER* 3.0 5.6 + - - -
92N MET* 2.6 38.8 + - + +
51O ILE* 3.6 15.0 - - + -
54O LEU* 3.6 43.7 - - + -
55O SER* 3.6 14.6 - - - +
58O ASP* 3.5 36.4 + - + -
59O PRO 4.6 0.4 + - - -
2R ILE* 4.4 22.7 - - + -
3R LEU* 3.9 37.5 - - + -
6R VAL* 5.0 4.5 - - + -
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Residues in contact with SER 89 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43N CYS* 2.9 33.9 + - - +
46N ILE* 3.0 26.5 - - - +
47N GLN* 2.8 14.4 - - - -
85N ILE 2.4 16.3 + - - -
88N TRP* 1.3 72.2 - - - +
90N ALA* 1.3 49.0 + - - +
92N MET* 3.0 8.3 + - - +
93N MET* 2.6 37.4 + - - +
51O ILE* 3.4 16.1 - - - +
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Residues in contact with ALA 90 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47N GLN* 2.4 19.7 - - - +
86N HIS 2.8 17.4 + - - +
87N ARG* 3.2 7.2 - - - +
88N TRP 2.6 3.6 + - - -
89N SER* 1.3 70.0 - - - +
91N SER* 1.3 55.7 + - - +
92N MET 2.4 16.0 + - - -
93N MET* 2.7 12.3 + - - +
94N VAL* 3.1 16.0 + - - +
301N HEM 3.7 44.2 - - + -
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Residues in contact with SER 91 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87N ARG* 3.1 15.0 + - - +
88N TRP* 3.0 6.1 + - - -
90N ALA* 1.3 77.1 - - - +
92N MET* 1.3 61.4 + - - +
94N VAL* 4.0 12.0 - - - +
95N LEU* 4.0 13.2 + - - +
301N HEM 5.4 4.3 - - - +
78O GLU* 3.2 23.8 + - - +
80O TYR* 3.8 33.8 + - - -
3R LEU* 4.1 14.2 - - - +
7R PHE* 6.2 0.2 - - - -
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Residues in contact with MET 92 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43N CYS* 5.0 4.7 - - - -
88N TRP* 2.6 42.5 + - + +
89N SER* 3.1 9.6 - - - +
90N ALA 2.4 13.1 + - - -
91N SER* 1.3 70.5 - - - +
93N MET* 1.3 65.0 + - - +
94N VAL 3.1 1.1 - - - -
95N LEU* 2.9 27.3 + - + +
96N MET* 2.9 46.4 + - + +
50O CYS* 5.5 4.3 - - + -
51O ILE* 4.8 14.6 - - + -
54O LEU* 4.7 14.8 - - + -
3R LEU* 4.8 13.0 - - + -
6R VAL* 5.8 5.8 - - + +
1101R BCR 6.5 0.4 - - + -
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Residues in contact with MET 93 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40N THR* 3.0 33.9 - - + +
41N LEU* 4.8 0.4 - - - -
43N CYS* 3.5 14.8 - - + +
44N PHE* 3.3 44.2 - - + -
89N SER 2.6 18.7 + - - +
90N ALA* 2.7 6.0 + - - +
92N MET* 1.3 72.3 - - - +
94N VAL* 1.3 54.1 + - + +
95N LEU 2.9 0.2 - - - -
96N MET* 3.0 2.8 + - - +
97N MET* 2.6 38.2 + - - +
128N THR* 3.8 31.9 - - + +
195N ILE* 4.6 6.7 - - + -
199N MET* 6.3 0.2 - - + -
301N HEM 3.9 24.5 - - + -
302N HEM 4.9 4.7 - - + -
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Residues in contact with VAL 94 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90N ALA 3.1 23.1 - - - +
91N SER* 4.0 11.4 - - - +
92N MET 3.1 0.2 - - - -
93N MET* 1.3 77.7 - - + +
95N LEU* 1.3 55.0 + - - +
97N MET* 3.9 22.4 - - + +
98N ILE* 2.9 31.8 + - + +
128N THR* 4.5 17.9 - - + +
129N VAL* 5.3 10.8 - - + -
301N HEM 5.2 7.6 - - + -
80O TYR* 4.0 34.5 - - + -
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Residues in contact with LEU 95 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91N SER 4.0 10.4 + - - +
92N MET* 2.9 31.2 + - + +
94N VAL* 1.3 77.2 - - - +
96N MET* 1.3 71.5 + - - +
97N MET 2.8 3.5 + - - -
98N ILE* 2.8 20.1 + - + +
99N LEU* 3.2 47.6 + - + +
80O TYR* 5.7 5.2 - - + -
3R LEU* 5.2 0.9 - - + -
6R VAL 4.5 3.8 - - - +
7R PHE* 3.1 48.5 - - + -
10R VAL* 4.4 9.2 - - + +
11R PHE* 4.5 2.7 - - + -
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Residues in contact with MET 96 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36N LEU* 3.4 21.3 - - + +
39N ILE* 3.6 28.0 - - + -
40N THR* 3.1 25.8 + - - +
43N CYS* 4.3 9.0 - - - -
92N MET* 2.9 38.1 + - + +
93N MET 3.5 6.3 - - - +
95N LEU* 1.3 80.2 - - - +
97N MET* 1.3 60.9 + - - +
99N LEU* 4.2 6.5 - - - -
100N HIS* 3.2 14.9 + - - +
47O THR* 4.2 14.6 - - + -
1101R BCR 4.4 34.1 - - + -
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Residues in contact with MET 97 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40N THR* 3.2 20.6 + - + -
93N MET 2.6 20.2 + - - +
94N VAL* 4.0 20.2 - - + +
95N LEU 2.8 0.6 + - - -
96N MET* 1.3 70.7 - - - +
98N ILE* 1.3 63.6 + - + +
100N HIS* 2.6 32.0 + - - +
101N VAL* 3.1 10.3 + - + +
125N ALA* 4.0 31.2 - - + +
128N THR* 3.8 37.9 - - + -
129N VAL* 4.7 4.5 - - + -
302N HEM 4.1 29.6 - - + -
1201O CLA 4.4 9.2 - - - +
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Residues in contact with ILE 98 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94N VAL* 2.9 30.5 - - + +
95N LEU* 2.8 16.2 + - + +
97N MET* 1.3 81.8 - - + +
99N LEU* 1.3 62.1 + - + +
101N VAL* 2.9 33.4 + - - +
102N PHE* 3.2 31.4 + - + -
80O TYR* 4.7 17.7 - - + -
1201O CLA 4.1 43.3 - - + +
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Residues in contact with LEU 99 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36N LEU* 3.5 29.7 - - + +
95N LEU* 3.2 43.5 - - + +
96N MET* 4.7 3.4 - - - -
97N MET 3.1 0.2 - - - -
98N ILE* 1.3 76.2 - - + +
100N HIS* 1.3 56.7 + - - +
101N VAL 2.9 5.2 - - - -
102N PHE* 2.7 44.1 + - + +
103N ARG* 2.8 14.4 + - - +
10R VAL 4.7 0.7 - - - +
11R PHE* 4.0 30.5 - - + -
14R LEU* 4.2 10.5 - - + -
1101R BCR 4.2 17.9 - - + -
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Residues in contact with HIS 100 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36N LEU* 3.4 19.3 - - + +
37N GLY* 3.1 22.7 + - - -
40N THR* 3.9 4.9 - - - +
96N MET 3.2 7.3 + - - +
97N MET 2.6 19.6 + - - +
99N LEU* 1.3 74.6 - - - +
101N VAL* 1.3 58.5 + - - -
103N ARG* 3.3 18.2 + - - +
104N VAL* 3.2 22.7 + - - +
302N HEM 2.0 99.0 + + + -
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Residues in contact with VAL 101 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97N MET* 3.5 13.7 - - + +
98N ILE* 3.0 19.3 - - - +
99N LEU 2.9 0.4 - - - -
100N HIS* 1.3 77.1 - - - +
102N PHE* 1.3 66.5 + - - +
104N VAL* 2.9 8.8 + - + +
105N TYR* 2.8 27.9 + - + +
118N TRP* 5.6 0.7 - - - +
302N HEM 3.7 42.2 - - + -
108O LEU* 5.8 3.1 - - + -
1201O CLA 3.1 41.3 - - + +
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Residues in contact with PHE 102 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98N ILE* 3.6 21.1 - - + -
99N LEU* 2.7 34.3 + - + +
101N VAL* 1.3 72.0 - - - +
103N ARG* 1.3 65.8 + - - +
104N VAL 2.7 1.6 + - - -
105N TYR* 4.7 2.5 - - + +
106N LEU* 2.8 44.6 + - + +
133O PHE* 3.9 23.3 - + - -
137O THR* 5.1 4.5 - - + -
1201O CLA 3.3 30.3 - + + -
11R PHE* 3.7 30.7 - + - -
14R LEU* 5.4 4.3 - - + -
15R PHE* 3.7 23.6 - + + -
18R ILE* 5.3 3.8 - - + -
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Residues in contact with ARG 103 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33N PHE* 5.7 2.7 - - + -
34N TYR* 3.3 46.9 + - + +
36N LEU* 4.8 8.2 - - + +
37N GLY 4.6 2.4 - - - +
99N LEU 2.8 14.6 + - - +
100N HIS* 3.3 39.6 + - - +
102N PHE* 1.3 71.8 - - - +
104N VAL* 1.3 68.9 + - - +
106N LEU* 3.8 3.8 - - - -
107N THR* 2.7 40.0 + - - -
302N HEM 2.9 54.4 + - - +
18R ILE* 5.4 7.6 - - - +
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Residues in contact with VAL 104 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100N HIS 3.2 15.7 + - - +
101N VAL* 2.9 10.0 + - - +
102N PHE 2.7 1.0 + - - -
103N ARG* 1.3 83.6 - - - +
105N TYR* 1.3 58.9 + - + +
106N LEU 2.5 1.8 + - - -
107N THR* 2.5 35.7 + - - -
108N GLY 3.3 6.3 + - - -
109N GLY 4.7 3.4 - - - +
110N PHE* 3.8 10.5 - - + -
118N TRP* 3.7 20.2 - - + +
302N HEM 3.3 60.6 - - + -
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Residues in contact with TYR 105 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101N VAL* 2.8 17.4 + - + +
102N PHE* 4.1 2.9 - - - +
104N VAL* 1.3 83.2 - - + +
106N LEU* 1.3 81.2 + - + +
107N THR 3.2 3.5 + - - -
108N GLY* 3.8 7.4 + - - -
110N PHE* 4.1 18.2 - + + -
118N TRP* 5.9 1.6 - - - +
111O VAL* 4.5 23.6 - - + -
115O GLU* 5.2 5.8 - - + -
125O ARG 5.8 2.2 - - - -
129O ALA* 2.4 44.7 + - + +
130O THR* 4.6 6.5 - - - -
133O PHE* 4.1 9.2 - + + -
1201O CLA 3.1 45.7 - - + +
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Residues in contact with LEU 106 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102N PHE* 2.8 30.5 + - + +
103N ARG* 3.8 3.1 - - - +
104N VAL 2.5 8.4 + - - -
105N TYR* 1.3 99.7 - - + +
107N THR* 1.3 60.1 + - - -
124O PHE* 4.5 17.8 - - - +
125O ARG* 5.6 3.4 - - - +
130O THR* 5.2 7.0 - - + +
133O PHE* 3.3 33.4 - - + -
134O LEU* 5.7 0.9 - - + -
15R PHE* 4.7 7.0 - - + -
18R ILE* 4.3 21.8 - - + -
19R ALA* 5.9 3.6 - - + +
23R ILE* 5.4 7.9 - - + +
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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