Contacts of the helix formed by residues 42 - 71 (chain C) in PDB entry 3A68
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 VAL 42 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ARG* 3.6 2.7 + - - +
40C LYS* 4.0 4.4 + - - +
41C TYR* 1.3 80.6 - - - +
43C ASP* 1.3 64.5 + - - +
44C GLU* 3.9 5.6 - - + +
45C SER* 3.0 36.1 + - - +
46C GLU* 3.1 10.0 + - - +
157C ASN* 3.9 31.2 - - + +
159C ASP* 4.9 0.8 + - + -
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Residues in contact with ASP 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ARG* 2.9 25.1 + - - +
42C VAL* 1.3 75.2 - - - +
44C GLU* 1.3 57.0 + - - +
46C GLU* 3.3 12.5 + - - +
47C SER* 2.9 35.4 + - - +
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Residues in contact with GLU 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C VAL* 3.2 6.5 - - + +
43C ASP* 1.3 79.6 - - - +
45C SER* 1.3 57.6 + - - +
47C SER* 3.5 6.2 + - - -
48C ALA* 3.0 27.5 + - - +
153C VAL* 3.8 19.1 - - + +
156C LYS* 5.2 7.5 - - - +
157C ASN* 2.8 37.7 + - - +
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Residues in contact with SER 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C TYR* 3.9 16.8 - - - -
42C VAL* 3.0 24.1 + - - +
44C GLU* 1.3 77.0 - - - +
46C GLU* 1.3 65.9 + - - +
48C ALA* 3.1 6.2 + - - +
49C VAL* 2.9 27.2 + - - +
153C VAL* 4.5 4.5 - - - +
154C ALA* 4.8 0.7 - - - -
157C ASN* 3.9 13.7 + - - +
159C ASP* 4.1 8.9 + - - +
162C LEU* 3.7 25.6 - - - +
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Residues in contact with GLU 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ARG* 3.7 26.3 + - - +
41C TYR* 3.7 22.3 - - + -
42C VAL 3.1 8.1 + - - +
43C ASP* 3.5 17.0 - - - +
45C SER* 1.3 79.6 - - - +
47C SER* 1.3 64.5 + - - +
49C VAL 3.3 0.2 + - - -
50C ASN* 3.1 13.6 + - - +
102C GLN* 3.0 37.5 + - - +
107C GLY* 3.4 4.4 - - - -
108C LYS* 2.8 37.3 + - - +
110C LYS* 5.5 3.2 + - - -
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Residues in contact with SER 47 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C ASP* 2.9 20.2 + - - +
44C GLU* 3.8 7.6 - - - -
46C GLU* 1.3 80.0 + - - +
48C ALA* 1.3 56.1 + - - +
50C ASN* 3.2 10.5 + - - +
51C GLU* 2.9 27.2 + - - +
112C GLN* 5.4 0.3 + - - -
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Residues in contact with ALA 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C GLU 3.0 17.7 + - - +
45C SER* 3.6 3.6 - - - +
47C SER* 1.3 77.5 - - - +
49C VAL* 1.3 62.1 + - - +
51C GLU* 3.3 9.3 + - - +
52C GLN* 3.0 22.0 + - - +
150C LEU* 3.6 24.8 - - + +
153C VAL* 3.9 25.4 - - + -
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Residues in contact with VAL 49 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C TYR* 3.3 21.3 - - - +
45C SER 2.9 15.2 + - - +
46C GLU 3.7 4.7 - - - +
47C SER 3.2 0.2 - - - -
48C ALA* 1.3 77.5 - - - +
50C ASN* 1.3 56.8 + - - +
52C GLN* 3.2 5.7 + - - +
53C ILE* 2.9 30.3 + - + +
98C LEU* 3.9 32.9 - - + +
101C TYR* 4.7 4.3 - - + -
102C GLN* 3.8 19.3 - - + +
150C LEU* 4.2 11.2 - - + -
162C LEU* 4.0 26.0 - - + -
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Residues in contact with ASN 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C GLU* 3.1 17.4 + - - +
47C SER* 3.5 10.9 - - - +
49C VAL* 1.3 72.8 - - - +
51C GLU* 1.3 65.8 + - - +
53C ILE* 3.3 15.4 + - - +
54C ASN* 3.2 17.0 + - - +
102C GLN* 3.0 18.5 + - - +
108C LYS 3.0 19.2 + - - -
109C VAL* 3.4 4.5 - - - -
110C LYS* 3.0 47.3 + - + +
112C GLN* 3.8 14.3 + - - +
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Residues in contact with GLU 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C SER 2.9 14.4 + - - +
48C ALA* 3.5 11.9 - - - +
49C VAL 3.3 0.2 - - - -
50C ASN* 1.3 76.1 - - - +
52C GLN* 1.3 57.9 + - - +
54C ASN* 3.2 4.7 + - - +
55C VAL* 3.0 33.3 + - + +
112C GLN* 3.7 24.4 + - - +
146C LYS* 5.0 9.9 + - + +
14S ILE* 5.5 4.4 + - - -
15S PHE* 3.7 26.3 + - - +
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Residues in contact with GLN 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ALA 3.0 13.3 + - - +
49C VAL 3.2 6.9 + - - +
51C GLU* 1.3 74.4 - - - +
53C ILE* 1.3 67.2 + - - +
55C VAL* 3.1 20.3 + - - +
56C GLU* 2.8 49.5 + - - +
98C LEU* 3.6 20.0 - - + -
143C THR* 3.9 4.6 + - - +
146C LYS* 3.4 28.2 - - - +
147C LEU* 3.4 30.5 - - + +
150C LEU* 3.9 17.8 - - + +
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Residues in contact with ILE 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C VAL* 2.9 24.7 + - + +
50C ASN* 3.5 27.4 - - - +
52C GLN* 1.3 75.7 - - - +
54C ASN* 1.3 59.3 - - - +
56C GLU* 3.3 3.8 + - - +
57C TYR* 3.0 28.3 + - + +
95C ALA* 3.9 9.7 - - + +
98C LEU* 3.5 29.1 - - + +
99C MET* 3.7 38.6 - - + +
102C GLN* 4.8 0.2 - - + -
109C VAL* 4.3 8.7 - - + -
110C LYS 5.9 1.1 - - - +
111C LEU* 3.8 29.2 - - + -
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Residues in contact with ASN 54 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C ASN 3.2 8.0 + - - +
51C GLU* 3.5 9.6 + - - +
52C GLN 3.2 0.6 - - - -
53C ILE* 1.3 79.0 - - - +
55C VAL* 1.3 58.5 + - - +
57C TYR* 3.9 4.2 - - - +
58C ASN* 2.9 32.5 + - - +
111C LEU* 6.4 0.4 - - - -
112C GLN* 3.5 46.0 + - + +
113C SER 3.1 25.5 + - - +
114C ILE* 4.3 5.2 - - - +
61O TYR* 4.2 4.5 + - - -
14S ILE* 5.6 0.2 - - - +
15S PHE* 4.0 30.7 + - - +
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Residues in contact with VAL 55 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLU* 3.0 33.3 + - + +
52C GLN* 3.1 36.1 + - - +
54C ASN* 1.3 76.3 - - - +
56C GLU* 1.3 63.8 + - - +
58C ASN* 3.3 4.2 + - - +
59C VAL* 3.0 22.4 + - + +
143C THR* 4.3 18.6 - - + +
146C LYS* 4.2 28.0 - - + -
15S PHE* 4.0 27.8 - - + -
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Residues in contact with GLU 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLN* 2.8 39.6 + - - +
53C ILE 3.8 3.4 - - - +
55C VAL* 1.3 75.9 - - - +
57C TYR* 1.3 57.2 + - - +
59C VAL* 3.3 3.8 + - - +
60C SER* 3.0 27.4 + - - -
91C GLU* 3.1 16.8 - - - +
94C HIS* 3.6 13.4 - - + +
95C ALA* 3.8 18.6 - - + +
98C LEU* 3.8 17.3 - - + -
143C THR* 3.5 12.6 - - - +
147C LEU* 3.9 11.8 - - - +
170C TYR* 4.3 4.4 - - - -
214C CA 2.4 28.3 - - - -
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Residues in contact with TYR 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C ILE* 3.0 15.5 + - + +
54C ASN* 3.9 7.0 - - - +
56C GLU* 1.3 76.7 - - - +
58C ASN* 1.3 64.5 + - - +
60C SER* 3.3 13.0 + - - -
61C TYR* 3.0 22.1 + + + +
92C ARG* 3.8 24.8 + - + -
95C ALA* 3.8 21.7 - - + +
99C MET* 4.5 1.8 - - - -
111C LEU* 4.4 16.2 - - + -
114C ILE* 3.6 21.9 - - + +
57O TYR* 5.4 12.1 - + - -
60O SER* 5.0 2.3 + - - -
61O TYR* 3.5 38.4 - + - +
64O HIS* 2.6 41.0 + + - +
88O SER* 4.6 1.6 + - - -
114O ILE* 6.4 0.2 - - + -
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Residues in contact with ASN 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ASN* 2.9 21.7 + - - +
55C VAL 3.3 4.9 - - - +
57C TYR* 1.3 77.9 - - - +
59C VAL* 1.3 64.6 + - - +
61C TYR* 3.0 9.0 + - - +
62C VAL* 2.9 24.2 + - - +
114C ILE* 4.5 16.0 - - + +
115C VAL* 4.0 15.4 + - - +
15S PHE* 2.9 26.0 + - + +
17S PRO* 2.8 49.3 - - - +
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Residues in contact with VAL 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C VAL* 3.0 19.9 + - + +
56C GLU* 3.7 2.7 - - - +
58C ASN* 1.3 80.8 - - - +
60C SER* 1.3 63.3 + - - +
62C VAL* 3.3 6.8 + - - +
63C TYR* 2.9 51.0 + - + +
91C GLU* 3.4 23.1 - - - +
139C LEU* 4.6 18.8 - - + +
140C GLU* 4.1 5.2 - - - +
143C THR* 3.4 24.5 - - + +
15S PHE* 5.1 3.8 - - + -
17S PRO* 6.1 0.4 - - + -
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Residues in contact with SER 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLU 3.0 10.2 + - - -
57C TYR* 3.4 16.3 - - - -
58C ASN 3.2 0.2 - - - -
59C VAL* 1.3 77.2 - - - +
61C TYR* 1.3 57.0 + - - +
63C TYR 3.4 0.2 + - - -
64C HIS* 3.0 15.1 + - - +
88C SER* 2.7 44.1 + - - +
91C GLU* 3.5 25.0 - - - +
92C ARG* 3.7 18.8 + - - +
57O TYR* 5.0 2.5 + - - -
92O ARG* 4.5 4.7 + - - -
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Residues in contact with TYR 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C TYR* 3.0 12.9 + + + +
58C ASN* 3.0 10.2 + - - +
60C SER* 1.3 74.6 - - - +
62C VAL* 1.3 66.8 + - + +
64C HIS* 3.1 5.9 + - - +
65C ALA* 3.0 18.5 + - - +
114C ILE* 3.5 28.7 - - + -
115C VAL 3.8 4.7 - - - -
117C PRO* 3.6 31.9 - - + -
53O ILE* 6.0 0.2 - - - +
54O ASN* 4.2 4.3 + - - -
57O TYR* 3.6 48.7 - + - +
111O LEU* 3.6 28.2 - - + +
112O GLN 2.7 32.5 + - - -
114O ILE* 3.8 18.6 - - + +
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Residues in contact with VAL 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C ASN* 2.9 20.8 + - - +
59C VAL* 3.7 6.7 - - - +
61C TYR* 1.3 77.0 - - + +
63C TYR* 1.3 63.5 + - - +
65C ALA* 3.1 5.2 + - - +
66C MET* 3.0 32.5 + - + +
117C PRO* 4.2 12.3 - - + -
121C PHE* 5.1 0.4 - - + -
139C LEU* 3.4 28.3 - - + -
17S PRO* 4.0 22.7 - - + -
18S PHE* 3.7 37.5 - - + -
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Residues in contact with TYR 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C VAL* 2.9 35.7 + - + +
60C SER 3.8 2.2 - - - +
62C VAL* 1.3 76.1 - - - +
64C HIS* 1.3 58.7 + - - +
66C MET* 3.2 14.5 + - + +
67C PHE* 2.9 26.2 + - - +
83C PHE* 5.7 1.3 - + - -
84C PHE* 3.6 38.3 - + - +
87C SER* 3.7 21.1 - - - -
88C SER* 3.7 8.1 - - - +
91C GLU* 3.6 19.5 - - + -
136C ALA* 3.6 31.8 + - + +
139C LEU* 4.4 9.7 - - + +
140C GLU* 2.6 41.4 + - - +
181C ILE* 4.1 3.9 - - + +
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Residues in contact with HIS 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C SER 3.0 12.5 + - - +
61C TYR* 3.1 9.8 + - - +
63C TYR* 1.3 76.7 - - - +
65C ALA* 1.3 58.1 + - - +
67C PHE* 3.3 15.4 + + + +
68C ALA* 3.0 27.2 + - - +
85C LYS* 5.1 2.2 - - + -
88C SER* 3.5 15.1 + - - -
57O TYR* 2.6 37.3 + + - +
92O ARG* 3.6 20.0 + - + -
96O GLU* 2.8 41.4 + - + +
99O MET* 3.6 28.0 - - + +
111O LEU* 4.1 8.7 - - + -
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Residues in contact with ALA 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C TYR 3.0 12.2 + - - +
62C VAL 3.4 8.5 - - - +
64C HIS* 1.3 78.1 - - - +
66C MET* 1.3 61.8 + - - +
68C ALA* 3.2 7.6 + - - +
69C TYR* 3.0 18.4 + - - +
117C PRO* 3.9 16.6 - - + -
118C LEU 3.5 24.9 - - - +
119C SER* 4.5 4.3 - - - +
121C PHE* 3.8 10.2 - - + -
111O LEU* 3.6 11.8 - - + +
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Residues in contact with MET 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C VAL* 3.0 30.7 + - + +
63C TYR* 3.2 20.4 + - - +
65C ALA* 1.3 73.7 - - - +
67C PHE* 1.3 65.0 + - - +
69C TYR* 3.2 1.7 + - - +
70C PHE* 3.1 31.5 + - + -
84C PHE* 3.7 41.1 - - + -
121C PHE* 3.5 24.9 - - + -
132C ALA* 4.3 7.9 - - - +
135C LEU* 3.3 46.2 - - + -
136C ALA* 4.4 2.9 - - - +
139C LEU* 4.4 6.5 - - + -
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Residues in contact with PHE 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C TYR 2.9 13.3 + - - +
64C HIS* 3.4 25.8 - + - +
66C MET* 1.3 74.4 - - - +
68C ALA* 1.3 70.5 + - - +
70C PHE 3.2 0.7 + - - -
71C ASP* 2.9 50.3 + - + +
81C ALA* 3.3 29.4 - - + +
82C LYS* 5.8 0.2 - - - -
84C PHE* 3.6 8.1 - - - +
85C LYS* 3.7 54.7 - - + +
96O GLU* 4.5 5.6 - - + -
99O MET* 4.0 17.3 - - + -
100O GLU* 3.9 23.1 - - + -
103O ASN* 5.5 0.2 - - - -
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Residues in contact with ALA 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C HIS 3.0 14.4 + - - +
65C ALA* 3.2 11.2 + - - +
67C PHE* 1.3 83.0 - - + +
69C TYR* 1.3 63.2 + - - +
72C ARG* 3.6 9.3 + - - +
99O MET* 4.0 9.2 - - + -
103O ASN* 2.9 27.2 + - - +
109O VAL* 3.7 39.9 - - + +
----------------------------------------------------------
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Residues in contact with TYR 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C ALA 3.0 6.0 + - - +
66C MET 3.6 7.0 - - - +
68C ALA* 1.3 77.6 - - - +
70C PHE* 1.3 84.9 + + - +
72C ARG* 3.1 64.3 + - - +
75C VAL* 3.6 32.7 - - + +
119C SER 3.6 10.3 + - - +
120C ASP* 3.9 4.7 - - + -
121C PHE* 3.5 40.6 - + + -
122C ASP* 3.2 33.9 - - + +
128C ASP* 4.1 11.7 + - + +
33O GLN* 6.1 0.2 - - - +
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Residues in contact with PHE 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C MET* 3.1 32.6 + - + +
69C TYR* 1.3 94.4 - + - +
71C ASP* 1.3 58.1 + - - +
72C ARG 3.2 2.3 + - - -
75C VAL* 3.6 16.8 - - + -
76C ALA* 3.8 5.4 + - - -
77C LEU* 3.5 38.7 + - + +
78C ARG* 5.2 0.3 - - - -
80C LEU* 3.6 23.1 - - + -
81C ALA* 3.8 25.9 - - - +
84C PHE* 3.7 18.4 - + - -
121C PHE* 4.5 6.1 - - + -
128C ASP* 3.6 26.7 - - + -
132C ALA* 3.4 35.0 - - + -
----------------------------------------------------------
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Residues in contact with ASP 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C PHE* 2.9 45.0 + - + +
69C TYR 3.1 0.4 - - - -
70C PHE* 1.3 73.1 - - - +
72C ARG* 1.3 64.8 + - - +
76C ALA* 5.8 0.2 - - - -
81C ALA* 3.9 7.7 - - + +
179F LYS* 3.0 34.2 + - - -
183F GLU* 4.6 2.6 - - - +
100O GLU* 4.1 13.2 - - - +
103O ASN* 2.9 34.8 + - - +
----------------------------------------------------------
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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