Contacts of the helix formed by residues 134 - 164 (chain C) in PDB entry 1C03
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 ASN 134 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C LYS 5.6 3.4 + - - +
56C LEU* 4.1 21.5 - - + +
91C LYS* 2.7 35.9 + - - -
132C ASP* 3.1 16.5 + - - +
133C GLU* 1.3 78.5 - - - +
135C SER* 1.3 56.1 + - - +
136C ILE 3.1 2.9 - - - -
137C TYR* 2.8 31.5 + - - +
138C LEU* 3.1 21.4 + - + +
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Residues in contact with SER 135 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ILE* 5.3 6.4 + - - +
131C LYS* 3.3 18.6 - - - +
132C ASP* 3.1 40.9 + - - +
133C GLU 3.4 0.2 - - - -
134C ASN* 1.3 77.0 - - - +
136C ILE* 1.3 57.9 + - - +
138C LEU* 3.6 11.6 + - - +
139C ILE* 3.1 38.5 + - - +
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Residues in contact with ILE 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C HIS 5.6 1.1 - - - +
132C ASP 4.8 0.4 + - - -
133C GLU 4.4 6.9 + - - +
134C ASN 2.9 0.2 + - - -
135C SER* 1.3 79.1 - - - +
137C TYR* 1.3 88.6 + - + +
139C ILE* 3.5 17.8 + - + +
140C LEU* 3.1 46.8 + - + +
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Residues in contact with TYR 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 4.5 12.8 - - + -
88C LEU* 3.4 32.5 - - + +
91C LYS* 3.7 43.0 - - + +
93C GLU 3.4 23.8 - - - -
94C HIS* 2.6 35.9 + + + +
133C GLU 4.3 7.4 - - - -
134C ASN 2.8 9.9 + - - +
136C ILE* 1.3 95.5 - - + +
138C LEU* 1.3 58.7 + - - +
140C LEU* 3.5 6.4 + - + +
141C ILE* 3.0 36.1 + - - +
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Residues in contact with LEU 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 3.9 16.1 - - + +
54C LYS* 3.6 49.8 - - + +
56C LEU* 3.4 26.2 - - + -
59C LEU* 3.9 19.1 - - + -
126C ILE* 5.0 11.4 - - + +
132C ASP* 5.5 2.5 - - + +
134C ASN* 3.1 22.2 + - + +
135C SER* 3.9 11.0 - - - +
137C TYR* 1.3 75.6 - - - +
139C ILE* 1.3 58.4 + - - +
141C ILE* 3.9 3.5 - - - +
142C ALA* 3.0 27.9 + - - +
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Residues in contact with ILE 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ILE* 4.1 18.7 - - + +
126C ILE* 3.9 32.5 - - + +
135C SER* 3.1 24.1 + - - +
136C ILE* 3.7 20.9 - - + +
137C TYR 3.3 0.2 - - - -
138C LEU* 1.3 77.2 - - - +
140C LEU* 1.3 61.0 + - + +
142C ALA* 3.5 7.5 + - - +
143C LYS* 3.1 32.5 + - + +
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Residues in contact with LEU 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C LEU* 3.5 28.9 - - + +
94C HIS* 3.6 28.7 - - - +
95C PHE* 4.1 2.5 - - - -
96C PHE* 3.6 33.2 - - + +
136C ILE* 3.1 40.1 + - + +
137C TYR* 4.0 7.4 - - + +
139C ILE* 1.3 77.4 - - + +
141C ILE* 1.3 62.2 + - - +
143C LYS* 3.5 17.7 + - + +
144C ALA* 3.1 19.4 + - - +
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Residues in contact with ILE 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C MET* 6.3 1.3 - - + -
50C LEU* 4.0 19.5 - - + -
56C LEU* 3.9 16.2 - - + -
59C LEU* 3.9 32.1 - - + -
85C ILE* 4.1 25.6 - - + +
88C LEU* 3.8 21.5 - - + -
89C GLY* 4.0 19.7 - - - +
137C TYR 3.0 22.1 + - - +
138C LEU* 3.9 4.7 - - - +
140C LEU* 1.3 76.1 - - - +
142C ALA* 1.3 57.2 + - - +
144C ALA* 2.8 21.4 + - - +
145C LEU* 2.8 15.1 + - + +
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Residues in contact with ALA 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 4.0 25.1 - - + -
124C ILE* 3.8 25.4 - - + +
126C ILE* 6.2 1.1 - - + -
138C LEU 3.0 20.4 + - - +
139C ILE 3.6 6.7 - - - +
140C LEU 3.3 0.4 - - - -
141C ILE* 1.3 78.0 - - - +
143C LYS* 1.3 57.4 + - - +
145C LEU* 3.9 3.9 - - - +
146C ASN* 3.4 27.7 + - - -
149C ARG* 5.4 0.5 + - - -
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Residues in contact with LYS 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C PHE* 2.7 36.3 + - + -
97C PRO 3.3 11.5 + - - -
98C ASN* 3.1 32.6 - - - +
99C LYS* 6.1 0.3 - - - -
124C ILE* 3.7 17.0 - - + -
139C ILE* 3.1 22.8 + - + +
140C LEU* 3.6 21.9 - - + +
141C ILE 3.1 0.2 - - - -
142C ALA* 1.3 76.8 - - - +
144C ALA* 1.3 64.2 + - - +
145C LEU 3.2 0.4 - - - -
146C ASN* 3.4 6.6 + - - +
147C GLN* 3.2 19.8 + - - +
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Residues in contact with ALA 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C VAL* 3.2 9.8 - - + +
85C ILE* 3.5 23.3 - - + +
88C LEU* 4.5 3.8 - - + -
96C PHE* 3.7 32.3 - - + -
140C LEU 3.1 13.6 + - - +
141C ILE* 2.8 10.4 + - - +
143C LYS* 1.3 76.2 - - - +
145C LEU* 1.3 58.8 + - - +
147C GLN 3.3 0.7 + - - -
148C SER* 2.9 29.9 + - - -
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Residues in contact with LEU 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C PHE* 3.4 43.7 - - + +
46C MET* 3.9 28.0 - - + -
47C GLN* 3.8 21.1 - - - +
50C LEU* 3.7 25.6 - - + -
85C ILE* 4.3 6.9 - - + +
141C ILE* 2.8 15.3 + - + +
142C ALA* 4.0 7.9 - - - +
144C ALA* 1.3 74.9 - - - +
146C ASN* 1.3 59.5 + - - +
148C SER* 3.0 7.5 + - - -
149C ARG* 2.9 44.5 + - + +
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Residues in contact with ASN 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LYS* 4.3 7.6 + - - +
120C ASP* 5.9 0.2 - - - +
121C ASP* 3.3 35.4 + - - +
122C GLU 3.0 41.7 + - - +
124C ILE* 4.1 11.7 - - - +
142C ALA 3.4 15.4 + - - -
143C LYS* 3.4 8.8 + - - +
144C ALA 3.4 0.4 - - - -
145C LEU* 1.3 76.7 - - - +
147C GLN* 1.3 58.8 + - - +
149C ARG* 3.1 25.3 + - - +
150C LEU* 3.5 18.4 + - - +
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Residues in contact with GLN 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ILE* 5.5 0.2 - - + -
81C VAL* 4.1 17.3 - - + -
96C PHE* 3.9 10.2 - - + -
99C LYS* 3.2 43.0 - - - +
102C LEU* 3.6 33.4 - - + +
103C VAL* 4.5 2.4 - - - +
143C LYS 3.2 12.9 + - - +
144C ALA 3.5 8.5 - - - +
145C LEU 3.2 0.6 - - - -
146C ASN* 1.3 75.7 - - - +
148C SER* 1.3 60.8 + - - +
150C LEU* 3.3 10.5 + - - +
151C GLU* 2.7 57.9 + - - +
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Residues in contact with SER 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C PHE* 3.6 27.6 - - - -
78C ILE* 5.0 7.3 + - - +
81C VAL* 3.2 21.1 - - - +
82C CYS* 4.7 5.2 + - - -
85C ILE* 4.0 10.0 - - - +
144C ALA 2.9 16.0 + - - -
145C LEU* 3.0 12.8 + - - -
147C GLN* 1.3 74.9 - - - +
149C ARG* 1.3 59.5 + - - +
151C GLU* 3.4 6.7 + - - +
152C PHE* 2.9 29.3 + - - +
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Residues in contact with ARG 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C PHE* 4.2 31.0 + - + +
44C ALA* 5.7 0.4 - - - +
47C GLN* 2.7 40.6 - - - +
120C ASP* 3.3 42.7 + - + +
122C GLU* 3.0 23.4 + - - +
142C ALA 5.4 0.8 + - - -
145C LEU* 2.9 35.7 + - + +
146C ASN* 3.1 25.3 + - - +
148C SER* 1.3 76.1 - - - +
150C LEU* 1.3 63.0 + - - +
152C PHE* 3.5 9.8 + - - +
153C LYS* 3.2 22.0 + - - +
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Residues in contact with LEU 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LYS* 3.8 22.4 - - + -
103C VAL* 3.6 31.2 - - + -
112C ILE* 5.4 0.2 - - + -
115C ILE* 4.6 5.6 - - + -
117C ILE* 4.1 32.1 - - + +
119C GLU* 4.7 7.9 - - - +
120C ASP* 5.0 4.2 - - - +
146C ASN 3.5 12.2 + - - +
147C GLN* 3.3 16.7 + - - +
148C SER 3.2 0.4 - - - -
149C ARG* 1.3 77.7 - - - +
151C GLU* 1.3 65.1 + - - +
153C LYS* 3.4 4.7 + - + +
154C LEU* 3.1 46.9 + - + +
----------------------------------------------------------
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Residues in contact with GLU 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ILE* 4.3 3.1 - - - +
8C ILE* 5.3 2.4 - - - +
77C ARG* 2.6 53.5 + - + +
78C ILE* 4.0 20.9 - - + +
81C VAL* 4.2 15.7 - - + -
103C VAL* 5.4 1.2 - - - +
147C GLN* 2.7 45.3 + - - +
148C SER* 3.8 5.6 - - - +
150C LEU* 1.3 77.3 - - - +
152C PHE* 1.3 65.5 + - - +
154C LEU* 3.4 14.2 + - - +
155C ALA* 3.0 23.9 + - - +
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Residues in contact with PHE 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C PHE* 3.8 23.1 - + - -
36C ILE* 3.5 43.3 - - + -
39C ALA* 3.5 21.8 - - + -
40C GLN* 3.7 23.8 - - + -
43C PHE* 3.8 21.5 - + + -
78C ILE* 3.8 12.0 - - + +
148C SER 2.9 18.0 + - - +
149C ARG* 3.5 7.4 - - - +
151C GLU* 1.3 75.5 - - - +
153C LYS* 1.3 64.4 + - + +
155C ALA* 2.9 16.0 + - + +
156C ARG* 3.0 39.9 + - + +
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Residues in contact with LYS 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C ILE* 4.1 25.8 - - + +
119C GLU* 3.0 48.9 + - - +
120C ASP* 3.7 10.0 + - - +
149C ARG 3.2 10.4 + - - +
150C LEU* 3.7 9.6 - - + +
151C GLU 3.3 0.2 - - - -
152C PHE* 1.3 81.4 - - + +
154C LEU* 1.3 60.1 + - + +
156C ARG* 3.2 13.0 + - - +
157C ILE* 3.0 39.0 + - + +
168C HIS* 4.3 19.7 - - + -
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Residues in contact with LEU 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ILE* 3.4 18.1 - - + +
103C VAL* 5.9 0.9 - - + -
106C LEU* 3.7 30.7 - - + -
111C ILE* 4.4 13.3 - - + +
112C ILE* 3.7 15.7 - - + -
115C ILE* 3.7 29.4 - - + -
150C LEU* 3.1 32.3 + - + +
151C GLU* 3.9 19.5 - - - +
152C PHE 3.3 0.2 - - - -
153C LYS* 1.3 74.4 - - + +
155C ALA* 1.3 61.6 + - - +
157C ILE* 3.9 7.4 - - + +
158C GLU* 3.1 29.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ILE* 3.8 16.3 - - + +
35C PHE* 5.7 0.2 - - + -
75C LEU* 4.2 22.0 - - + -
78C ILE* 4.0 18.2 - - + -
151C GLU 3.0 13.0 + - - +
152C PHE* 2.9 12.7 + - + +
154C LEU* 1.3 78.1 - - - +
156C ARG* 1.3 58.1 + - + +
158C GLU* 3.5 1.7 + - - +
159C LEU* 3.0 38.7 + - + +
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Residues in contact with ARG 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C ILE* 3.5 32.8 - - + +
40C GLN* 3.2 23.3 + - - +
152C PHE* 3.2 38.4 - - + +
153C LYS* 3.4 10.1 - - - +
155C ALA* 1.3 76.4 - - + +
157C ILE* 1.3 66.8 + - - +
159C LEU* 3.3 5.0 + - + -
160C SER* 3.0 27.4 + - - -
167C LEU* 2.9 36.7 + - - +
168C HIS* 3.2 33.7 + - + +
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Residues in contact with ILE 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ILE* 3.6 37.9 - - + +
115C ILE* 4.3 17.7 - - + -
153C LYS* 3.0 39.0 + - + +
154C LEU* 4.1 8.1 - - + +
156C ARG* 1.3 75.5 - - - +
158C GLU* 1.3 63.2 + - - +
160C SER* 3.2 20.0 + - - -
161C LYS* 3.7 7.6 + - - +
168C HIS* 3.5 29.4 - - + +
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Residues in contact with GLU 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ILE* 4.0 18.7 - - + +
9C ILE* 3.6 27.5 - - + +
11C TRP* 4.9 4.3 + - - -
111C ILE* 3.3 12.1 - - + +
154C LEU 3.1 21.1 + - - +
155C ALA 3.8 3.6 - - - +
156C ARG 3.1 0.2 - - - -
157C ILE* 1.3 79.5 - - - +
159C LEU* 1.3 60.0 + - - +
160C SER 3.3 0.2 - - - -
161C LYS* 2.9 37.2 + - - +
162C TYR* 3.2 39.7 + - - -
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Residues in contact with LEU 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C ILE* 3.6 24.9 - - + -
11C TRP* 5.3 0.4 - - + -
14C LEU* 4.1 15.3 - - + -
32C ILE* 4.1 39.0 - - + -
35C PHE* 6.3 0.4 - - + -
36C ILE* 6.2 0.7 - - + -
75C LEU* 4.1 25.4 - - + -
155C ALA* 3.0 27.3 + - + +
156C ARG* 3.3 3.7 + - - +
158C GLU* 1.3 74.7 - - - +
160C SER* 1.3 65.1 + - - +
161C LYS 3.2 0.9 - - - -
162C TYR* 3.0 16.3 + - + +
163C TYR* 3.0 26.1 + - + -
167C LEU* 3.6 17.3 - - + -
----------------------------------------------------------
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Residues in contact with SER 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C ARG 3.0 12.7 + - - -
157C ILE* 3.2 13.4 - - - -
159C LEU* 1.3 72.1 - - - +
161C LYS* 1.3 61.3 + - - +
162C TYR 3.0 6.9 + - - -
163C TYR 4.4 0.9 - - - +
164C ASN* 3.2 21.5 + - - -
165C THR 3.2 16.9 + - - +
166C ASN* 3.7 10.9 + - - -
167C LEU* 2.8 31.6 + - - +
----------------------------------------------------------
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Residues in contact with LYS 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C ASP* 4.9 9.5 + - - -
111C ILE* 3.7 19.9 - - - +
157C ILE* 4.2 5.8 - - + +
158C GLU* 2.9 43.7 + - - +
159C LEU 3.2 0.6 - - - -
160C SER* 1.3 77.6 - - - +
162C TYR* 1.3 77.5 + - + +
164C ASN* 4.5 9.3 - - - +
----------------------------------------------------------
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Residues in contact with TYR 162 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C ILE* 5.0 0.7 - - + -
11C TRP* 3.6 41.0 + + + -
158C GLU* 3.2 47.8 + - + -
159C LEU* 3.0 10.0 + - + +
160C SER 3.0 0.2 - - - -
161C LYS* 1.3 98.5 + - + +
163C TYR* 1.3 71.6 + - + +
164C ASN* 3.3 15.8 + - - -
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Residues in contact with TYR 163 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C TRP* 5.7 0.7 - + - -
14C LEU* 4.8 4.3 - - + +
18C ILE* 3.8 22.0 - - + +
21C ASP* 5.0 1.8 - - - -
28C SER* 2.8 34.8 + - - -
29C LYS* 3.6 39.6 + - + +
32C ILE* 3.5 25.0 - - + +
159C LEU* 3.0 38.3 + - + +
160C SER 3.4 0.6 + - - +
162C TYR* 1.3 87.5 - - + +
164C ASN* 1.3 70.1 + - - +
165C THR* 3.0 18.7 + - + +
167C LEU* 4.1 17.7 - - + -
----------------------------------------------------------
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Residues in contact with ASN 164 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C SER 3.2 10.1 + - - -
161C LYS 4.5 8.0 - - - +
162C TYR 3.3 12.4 + - - -
163C TYR* 1.3 78.1 - - - +
165C THR* 1.3 57.6 + - - +
----------------------------------------------------------
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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