Contacts of the helix formed by residues 154 - 184 (chain A) in PDB entry 1HGU
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 ASP 154 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ASN* 4.4 2.4 - - - +
153A ASP* 1.7 57.6 + - - +
155A ALA* 1.3 53.5 + - - +
156A LEU 2.5 3.7 + - - -
157A LEU* 2.5 51.0 + - - +
158A LYS* 2.7 35.0 + - - +
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Residues in contact with ALA 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ASN* 5.3 7.2 - - - +
150A SER 3.7 22.2 - - - +
152A ASN* 3.7 24.3 - - + +
154A ASP* 1.3 74.9 - - - +
156A LEU* 1.3 56.8 + - - +
158A LYS* 2.9 23.5 - - - +
159A ASN* 2.9 30.1 + - - +
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Residues in contact with LEU 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A PHE* 4.4 8.4 - - + -
35A TYR* 3.4 54.1 - - + +
150A SER 4.9 2.2 - - - +
151A HIS* 4.8 11.0 - - + -
152A ASN 3.4 31.0 - - - +
153A ASP* 4.4 14.4 - - - +
154A ASP 2.5 6.7 + - - +
155A ALA* 1.3 71.0 - - - +
157A LEU* 1.3 55.9 + - + +
158A LYS 3.0 5.2 - - - -
159A ASN* 2.8 13.2 - - + +
160A TYR* 2.6 35.7 + - - +
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Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ILE* 4.2 17.5 - - + -
45A LEU* 4.3 15.0 - - + -
49A GLN* 4.2 21.9 + - - +
154A ASP* 2.5 29.2 + - - +
156A LEU* 1.3 72.3 - - + +
158A LYS* 1.4 66.0 + - - +
160A TYR* 3.4 56.1 - - + -
161A GLY* 5.0 0.2 - - - -
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Residues in contact with LYS 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A PHE* 6.0 8.1 - - + -
147A ASP 6.1 1.1 - - - +
154A ASP* 2.7 41.2 + - - +
155A ALA* 2.9 26.4 + - - +
157A LEU* 1.4 80.4 - - - +
159A ASN* 1.4 61.7 + - - +
161A GLY* 3.4 11.1 + - - -
162A LEU* 4.5 7.2 + - - +
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Residues in contact with ASN 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A PHE* 4.7 8.3 - - + -
97A PHE* 2.7 50.4 - - + +
147A ASP 6.0 0.2 - - - -
148A ALA* 3.2 9.0 + - - +
149A ASN* 3.7 21.0 - - - +
150A SER 4.1 13.0 + - - +
155A ALA* 2.9 23.4 + - - +
156A LEU* 2.8 20.8 - - + +
158A LYS* 1.4 72.4 - - - +
160A TYR* 1.3 62.9 + - - +
161A GLY 3.2 1.8 - - - -
162A LEU* 3.0 16.3 + - - +
163A LEU* 3.4 7.9 + - + +
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Residues in contact with TYR 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A TYR* 4.8 7.7 - + - -
31A PHE* 3.6 25.9 - + + -
36A ILE* 3.5 28.0 - - + -
41A LYS* 4.2 17.3 - - + +
45A LEU* 3.4 27.0 + - + +
46A GLN* 6.0 0.5 - - - -
49A GLN* 2.9 29.4 + - + +
156A LEU 2.6 17.6 + - - +
157A LEU* 3.4 22.2 - - + -
159A ASN* 1.3 69.0 - - - +
161A GLY* 1.3 84.0 - - - +
163A LEU* 2.7 8.7 + - - +
164A TYR* 2.7 44.4 + + + +
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Residues in contact with GLY 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A GLN* 5.7 0.2 - - - -
157A LEU 5.0 0.2 - - - -
158A LYS 3.4 9.0 + - - -
159A ASN 3.1 1.8 + - - -
160A TYR* 1.3 94.2 - - - +
162A LEU* 1.3 65.7 + - - +
164A TYR* 2.8 6.6 + - - +
165A CYS* 2.7 29.3 + - - +
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Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 5.6 2.0 - - + -
86A TRP* 3.2 33.4 - - + -
89A PRO* 5.7 1.6 - - + -
97A PHE* 3.5 23.8 - - + -
145A LYS* 3.6 37.7 - - + +
146A PHE* 4.1 13.2 - - + +
147A ASP 3.6 34.5 - - - +
148A ALA* 4.6 1.3 - - - +
158A LYS 4.5 8.0 + - - +
159A ASN* 3.0 7.8 + - - +
161A GLY* 1.3 76.3 - - - +
163A LEU* 1.3 55.9 + - - +
164A TYR 3.0 0.2 + - - -
165A CYS* 3.1 3.3 + - + +
166A PHE* 2.8 32.4 + - - +
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Residues in contact with LEU 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24A ALA 4.3 4.0 - - - +
27A THR* 3.3 37.9 - - + +
28A TYR* 3.0 28.8 - - + +
31A PHE* 4.7 20.0 - - + -
97A PHE* 3.5 38.8 - - + +
98A ALA* 4.2 18.4 - - + -
159A ASN 3.4 4.2 + - - +
160A TYR* 2.7 14.6 + - - +
162A LEU* 1.3 75.4 - - - +
164A TYR* 1.3 59.5 + - - +
166A PHE* 4.2 25.1 + - + +
167A ARG 5.0 0.9 + - - -
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Residues in contact with TYR 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A TYR* 3.2 42.1 + + + -
41A LYS* 4.7 11.0 + - + -
53A CYS* 5.3 4.0 - - - -
160A TYR* 2.7 33.9 + + + +
161A GLY* 2.8 11.3 + - - +
163A LEU* 1.3 77.8 - - - +
165A CYS* 1.3 55.8 + - - +
167A ARG* 2.8 77.0 + - + +
168A LYS* 4.8 9.6 - - + -
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Residues in contact with CYS 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A SER 4.9 2.7 - - - -
52A LEU* 4.4 3.6 - - - -
53A CYS* 2.0 62.3 - - + -
86A TRP* 4.3 2.9 - - + -
145A LYS* 4.3 10.1 - - - -
161A GLY* 2.7 22.7 + - - +
162A LEU* 3.7 6.7 - - - +
164A TYR* 1.3 69.6 - - - +
166A PHE* 1.4 50.7 + - - +
167A ARG 2.8 2.3 + - - -
168A LYS 2.8 1.8 + - - +
169A ASP* 2.6 48.6 + - - +
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Residues in contact with PHE 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A LEU* 3.7 29.8 - - + -
21A HIS 4.8 0.2 - - - +
23A LEU* 5.3 3.6 - - + -
24A ALA* 3.0 47.8 - - + +
27A THR* 6.0 1.1 - - + -
86A TRP* 3.2 37.6 - + + +
90A VAL* 6.0 0.9 - - + -
98A ALA* 5.8 6.5 - - + -
110A VAL* 5.0 15.3 - - + -
114A LEU* 3.9 24.0 - - + -
162A LEU 2.8 15.7 + - - +
163A LEU* 4.2 21.5 - - + +
164A TYR 3.0 0.8 + - - -
165A CYS* 1.4 67.8 - - - +
167A ARG* 1.3 54.7 + - - +
169A ASP* 4.6 0.7 - - - -
170A MET* 3.2 36.9 - - - +
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Residues in contact with ARG 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A HIS* 4.0 17.3 + - - +
24A ALA* 4.9 1.6 - - - -
25A PHE* 4.0 30.5 - - + -
28A TYR* 4.3 17.3 - - + -
163A LEU 5.0 0.4 + - - -
164A TYR* 2.8 46.7 + - + +
166A PHE* 1.3 77.2 - - - +
168A LYS* 1.3 98.1 + - - +
169A ASP 3.2 1.3 - - - -
170A MET* 3.2 5.4 + - - +
171A ASP* 2.9 51.0 + - - +
172A LYS* 5.3 1.8 - - - +
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Residues in contact with LYS 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A SER* 5.5 3.8 - - - +
52A LEU 4.8 1.1 - - - -
53A CYS* 3.3 35.7 - - + -
54A PHE 4.0 2.8 + - - -
55A SER* 3.1 27.2 - - - +
164A TYR* 3.6 9.8 + - + +
165A CYS* 2.8 3.6 + - - -
167A ARG* 1.3 108.5 - - - +
169A ASP* 1.3 56.5 + - - +
170A MET 3.5 1.6 - - - -
171A ASP 4.6 1.1 - - - +
172A LYS* 3.0 31.6 + - - +
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Residues in contact with ASP 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A CYS* 4.2 1.3 - - - -
54A PHE* 3.5 24.3 - - - +
82A LEU* 3.4 40.0 - - + +
86A TRP* 2.8 42.8 + - - -
145A LYS* 3.8 13.5 - - - +
165A CYS* 2.6 23.7 + - - +
168A LYS* 1.3 74.1 - - - +
170A MET* 1.3 68.0 + - - +
172A LYS* 4.3 1.3 - - - +
173A VAL* 3.7 5.2 - - - +
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Residues in contact with MET 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A LEU* 3.6 27.1 - - + +
21A HIS* 4.2 13.7 - - + +
83A ILE* 3.5 32.5 - - + -
86A TRP* 4.3 5.6 - - + -
114A LEU* 3.7 8.3 - - + -
166A PHE* 3.2 45.5 - - + +
167A ARG* 3.5 2.9 - - - +
168A LYS 3.5 0.2 - - - -
169A ASP* 1.3 85.2 - - - +
171A ASP* 1.4 55.0 + - - +
172A LYS 2.7 15.4 + - - +
173A VAL* 3.0 17.3 + - + -
174A GLU* 2.9 47.4 - - - +
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Residues in contact with ASP 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A HIS* 3.7 25.9 - - + -
60A THR* 4.1 12.5 + - - +
62A SER* 3.3 31.2 + - - +
167A ARG* 2.9 32.8 + - - +
168A LYS* 4.6 1.8 - - - -
169A ASP 4.4 0.4 - - - +
170A MET* 1.4 72.4 - - - +
172A LYS* 1.3 62.9 + - + +
175A THR* 2.7 40.9 + - - +
176A PHE* 5.1 0.3 - - - -
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Residues in contact with LYS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE 3.6 27.4 + - - +
55A SER* 4.5 4.4 - - - +
57A SER* 4.6 4.3 - - - +
60A THR* 2.8 36.6 + - - +
79A SER* 4.2 2.6 + - - -
82A LEU* 4.4 18.6 - - + -
167A ARG* 5.3 1.2 - - - +
168A LYS* 3.0 39.4 + - - +
169A ASP* 4.3 3.6 - - - +
170A MET 2.7 1.6 + - - +
171A ASP* 1.3 85.0 + - - +
173A VAL* 1.4 58.0 + - - +
174A GLU 3.1 2.5 - - - -
176A PHE* 2.8 65.0 + - + +
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Residues in contact with VAL 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ALA* 4.5 1.8 - - - +
79A SER* 3.8 25.6 - - - +
80A LEU* 6.0 0.2 - - - -
82A LEU* 4.5 14.1 - - + +
83A ILE* 4.0 26.7 - - + -
117A LEU* 4.6 8.3 - - + -
121A ILE* 6.0 2.0 - - + -
169A ASP 3.7 21.3 - - - +
170A MET* 3.0 22.7 + - + -
172A LYS* 1.4 71.5 - - - +
174A GLU* 1.3 72.4 + - - +
177A LEU* 3.0 39.0 - - + +
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Residues in contact with GLU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A MET* 3.3 9.7 - - + +
17A ALA* 2.7 45.1 - - + +
18A HIS* 3.2 31.9 - - + +
21A HIS* 3.1 12.7 + - - +
117A LEU* 4.8 0.3 - - - +
170A MET* 2.9 46.3 - - - +
173A VAL* 1.3 95.0 - - - +
175A THR* 1.3 56.8 + - - +
176A PHE 3.2 0.4 - - - -
177A LEU* 3.4 3.3 - - - -
178A ARG* 2.5 34.0 + - - +
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Residues in contact with THR 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A HIS* 3.8 10.7 - - - -
21A HIS* 5.2 0.5 + - - -
61A PRO 4.8 0.7 - - - +
62A SER* 2.9 28.7 - - - +
171A ASP* 2.7 27.8 + - - +
174A GLU* 1.3 75.4 - - - +
176A PHE* 1.4 54.3 + - + +
178A ARG* 2.6 66.1 + - - +
179A ILE* 2.8 13.8 + - + +
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Residues in contact with PHE 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A SER* 5.0 4.5 - - - -
58A ILE* 4.8 9.9 - - + -
60A THR* 3.9 1.6 - - - -
61A PRO* 2.8 67.5 - - + -
62A SER* 4.4 2.9 - - - -
67A ALA* 5.5 0.2 - - + -
75A LEU* 3.7 23.8 - - + +
79A SER* 4.9 4.7 - - - +
82A LEU* 5.9 3.1 - - + -
171A ASP 5.3 0.2 - - - -
172A LYS* 2.8 59.2 + - + +
175A THR* 1.4 77.2 - - + +
177A LEU* 1.3 62.0 + - - +
179A ILE* 3.4 23.9 - - + +
180A VAL* 3.4 15.1 - - - +
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Residues in contact with LEU 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A ALA* 4.7 8.5 - - + -
14A MET* 5.1 7.1 - - + +
17A ALA* 5.7 1.3 - - + -
75A LEU 4.8 0.4 - - - +
76A LEU* 3.5 36.1 - - + -
79A SER* 4.1 8.5 - - - +
117A LEU* 4.6 10.1 - - + -
121A ILE* 3.4 31.2 - - + -
124A LEU* 5.7 1.3 - - + -
173A VAL* 3.0 34.8 + - + +
174A GLU* 3.2 6.2 + - - +
176A PHE* 1.3 77.6 - - - +
178A ARG* 1.3 53.0 + - - +
179A ILE 3.1 0.4 - - - -
180A VAL* 3.0 24.9 + - + +
181A GLN* 2.7 32.1 + - - +
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Residues in contact with ARG 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A MET* 3.4 23.2 - - + +
18A HIS* 3.3 27.5 + - - -
64A ARG* 5.7 5.5 - - - +
174A GLU 2.5 25.0 + - - +
175A THR* 2.6 49.9 + - - +
177A LEU* 1.3 66.4 - - - +
179A ILE* 1.3 49.1 + - - +
181A GLN* 2.4 25.0 + - - +
182A CYS* 2.8 38.4 + - - -
189A CYS* 3.9 10.5 - - - -
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Residues in contact with ILE 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A PRO 5.2 1.8 - - - +
65A GLU 5.4 1.8 - - - +
66A GLN* 3.2 43.1 - - + -
67A ALA* 3.2 33.4 - - + +
75A LEU* 3.6 14.1 - - + -
175A THR* 2.8 20.1 + - + +
176A PHE* 3.4 26.9 - - + +
177A LEU 3.1 0.2 - - - -
178A ARG* 1.3 74.5 - - - +
180A VAL* 1.3 56.9 + - - +
182A CYS* 2.9 16.8 + - - +
183A ARG* 2.8 35.7 + - - +
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Residues in contact with VAL 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PHE* 3.7 25.7 - - + -
72A ASN* 4.7 12.1 - - + +
75A LEU* 4.0 18.8 - - + -
76A LEU* 4.5 19.3 - - + -
176A PHE 3.4 20.6 - - - +
177A LEU* 3.5 28.5 - - + +
179A ILE* 1.3 73.0 - - - +
181A GLN* 1.8 51.0 - - - +
183A ARG* 3.9 9.0 - - - +
184A SER* 2.8 42.6 + - - +
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Residues in contact with GLN 181 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PHE* 3.1 50.2 - - + +
11A GLN* 3.6 16.1 + - - +
14A MET* 3.1 41.6 - - + +
177A LEU 2.7 12.7 + - - +
178A ARG* 2.4 31.7 + - - +
180A VAL* 1.8 47.4 - - - +
182A CYS* 1.3 60.2 + - - +
183A ARG 3.3 1.8 + - - -
185A VAL* 2.9 35.1 + - + +
187A GLY 5.0 1.6 - - - +
188A SER 4.5 7.3 + - - -
189A CYS* 4.0 13.5 - - - -
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Residues in contact with CYS 182 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A GLN* 2.8 26.5 + - - +
178A ARG* 2.8 31.3 + - - +
179A ILE* 3.0 6.6 - - - +
181A GLN* 1.3 80.3 - - - +
183A ARG* 1.3 50.8 + - - +
185A VAL 4.7 5.2 - - - -
187A GLY 5.6 2.9 - - - +
189A CYS* 2.0 52.0 - - + -
190A GLY 5.6 0.2 - - - +
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Residues in contact with ARG 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A GLN* 3.4 24.2 - - - +
67A ALA* 2.9 34.5 + - - +
69A GLN* 4.0 6.1 - - - +
70A LYS* 3.8 35.6 + - - +
71A SER 5.3 0.2 - - - -
72A ASN* 3.9 23.7 + - - +
75A LEU* 3.1 34.3 - - - +
179A ILE* 2.8 30.4 - - - +
180A VAL* 3.9 3.8 - - - +
181A GLN 3.6 0.2 + - - -
182A CYS* 1.3 73.6 - - - +
184A SER* 1.5 62.1 + - - +
185A VAL 3.8 5.7 + - - +
----------------------------------------------------------
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Residues in contact with SER 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PHE* 4.1 20.2 - - - -
72A ASN* 3.7 29.3 + - - +
180A VAL* 2.8 25.8 + - - +
183A ARG* 1.5 62.7 - - - +
185A VAL* 1.4 62.7 + - - +
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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