Contacts of the strand formed by residues 175 - 201 (chain B) in PDB entry 2NQY
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 175 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLU 3.4 32.5 - - - +
57B THR* 3.7 16.9 - - - +
58B GLN 3.3 11.8 - - - +
59B THR* 4.0 8.3 + - - +
62B GLN* 5.1 0.3 - - - +
88B THR* 3.1 3.2 - - - -
89B VAL* 2.8 45.3 + - + +
90B SER* 4.6 9.4 + - - -
174B GLY* 1.3 72.0 - - - -
176B MET* 1.3 64.6 + - - +
177B TYR 3.4 0.2 + - - -
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Residues in contact with MET 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B PHE* 3.3 34.1 - - + +
56B GLU* 3.2 25.5 + - - -
57B THR 4.4 0.5 + - - -
58B GLN* 2.7 21.3 + - + +
60B HIS* 3.9 32.1 - - - +
63B VAL* 3.9 14.8 - - + -
66B MET* 4.4 7.0 - - + -
87B TRP 4.1 2.0 - - - +
88B THR* 3.9 18.6 - - - -
95B TYR* 3.5 28.0 - - + +
163B PHE* 3.8 17.3 - - + -
173B MET* 5.4 1.3 - - - +
174B GLY 3.6 1.5 + - - +
175B ASP* 1.3 69.6 - - - +
177B TYR* 1.3 58.2 + - - +
178B GLU 3.5 12.1 - - - +
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Residues in contact with TYR 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B GLU* 4.8 2.4 + - - -
49B ARG* 4.9 0.7 - - - -
53B LYS* 3.4 30.7 - - + +
54B PHE* 2.9 31.3 + - - +
56B GLU* 3.5 33.0 - - + -
87B TRP* 3.0 32.3 + + + +
88B THR* 4.6 2.7 - - - -
89B VAL* 4.6 2.5 - - + -
135B ILE* 3.5 47.4 + - + +
136B LYS* 5.2 2.5 - - - -
175B ASP 3.4 1.0 + - - -
176B MET* 1.3 72.7 - - - +
178B GLU* 1.3 84.9 + - + +
2D XYP 5.0 1.2 + - - -
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Residues in contact with GLU 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B ASP 5.2 2.6 - - - +
49B ARG* 2.8 52.6 + - - +
52B LYS 3.3 14.8 - - - +
53B LYS* 3.1 24.2 + - + +
54B PHE* 3.8 7.3 - - - -
85B TYR 5.0 0.2 - - - -
86B GLY* 3.5 14.5 - - - -
87B TRP* 3.4 8.0 + - - -
95B TYR* 2.6 28.4 + - - -
176B MET* 3.5 7.1 - - - +
177B TYR* 1.3 100.9 - - + +
179B VAL* 1.3 65.8 + - - +
180B ALA* 3.8 6.8 - - + +
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Residues in contact with VAL 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B GLY* 3.3 1.2 - - - -
52B LYS 2.7 40.0 + - - +
54B PHE* 3.7 23.1 - - + -
66B MET* 4.1 14.6 - - - -
68B ILE* 4.4 6.1 - - + -
84B VAL* 3.8 20.4 - - + -
85B TYR 3.6 2.5 - - - -
95B TYR* 3.4 16.6 - - - +
159B VAL* 4.1 20.6 - - + -
163B PHE* 5.0 0.2 - - + -
176B MET* 4.5 0.4 - - + -
178B GLU* 1.3 73.1 - - - +
180B ALA* 1.3 62.8 + - - +
199B LEU* 3.8 27.1 - - + +
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Residues in contact with ALA 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B ARG* 3.8 19.5 - - + -
50B LYS 3.6 21.8 - - - +
51B GLY* 3.7 3.8 - - - +
68B ILE* 4.6 2.2 - - - -
84B VAL* 3.4 5.5 - - - -
85B TYR 2.8 38.1 + - - +
178B GLU* 3.8 17.0 - - - +
179B VAL* 1.3 81.1 - - - +
181B LEU* 1.3 59.6 + - - +
182B THR* 3.0 7.5 + - - +
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Residues in contact with LEU 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B PHE* 3.8 6.7 - - + -
49B ARG* 3.3 3.6 - - - -
50B LYS 3.2 27.6 + - - -
51B GLY* 4.8 0.2 - - - -
68B ILE* 4.3 10.5 - - + +
70B TYR* 3.8 40.2 - - + -
82B LEU* 4.0 24.2 - - + -
83B CYS 3.5 14.1 - - - +
84B VAL* 4.1 15.7 - - + +
157B ILE* 4.7 2.2 - - + -
180B ALA* 1.3 70.2 - - - +
182B THR* 1.3 61.3 + - - +
194B VAL* 4.1 25.6 - - + -
197B ASN* 3.5 30.7 + - + +
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Residues in contact with THR 182 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B PHE* 4.8 0.2 - - - -
47B LEU* 4.2 21.1 - - + -
48B PHE 3.2 13.2 - - - +
49B ARG* 3.2 17.1 - - + +
81B TYR 3.5 2.6 - - - +
82B LEU* 3.6 4.9 - - - +
83B CYS* 2.6 43.5 + - - -
85B TYR* 3.1 28.0 - - + +
180B ALA* 3.0 15.4 + - - +
181B LEU* 1.3 75.0 - - - +
183B VAL* 1.3 77.1 + - - +
184B GLU* 4.1 2.5 - - + +
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Residues in contact with VAL 183 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B PHE* 4.2 16.4 - - + -
38B ALA* 4.8 1.1 - - + -
40B TRP* 3.8 36.1 - - + -
47B LEU* 3.4 2.3 - - - -
48B PHE* 2.7 54.9 + - + +
74B PHE* 4.1 8.7 - - + -
81B TYR 3.4 7.6 - - - +
82B LEU* 4.1 18.2 - - + -
182B THR* 1.3 78.3 - - - +
184B GLU* 1.3 62.9 + - - +
192B ALA* 3.9 20.0 - - + -
194B VAL* 4.4 5.6 - - + -
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Residues in contact with GLU 184 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TRP* 5.2 0.2 - - - -
45B ASN* 4.4 6.4 + - - -
46B ILE 3.3 11.9 - - - +
47B LEU* 3.9 22.7 - - + +
80B ALA* 3.0 9.8 - - - +
81B TYR* 2.9 53.8 + - + +
83B CYS* 5.1 1.5 - - - -
85B TYR* 4.7 0.3 - - - -
96B TYR* 2.9 40.0 + - - -
182B THR* 4.1 4.6 - - + -
183B VAL* 1.3 78.9 - - - +
185B GLY* 1.3 69.0 + - - +
186B TYR* 5.5 1.4 - - + +
3002B XYP 4.1 18.0 - - - -
1D XYP 3.8 10.7 - - - +
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Residues in contact with GLY 185 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TRP* 3.9 21.7 - - - -
43B VAL* 4.3 3.6 - - - -
44B SER 3.8 0.2 - - - +
45B ASN* 3.7 4.9 + - - -
46B ILE* 2.9 41.0 + - - +
79B ASN 3.7 6.3 - - - -
80B ALA* 4.3 0.2 - - - -
184B GLU* 1.3 80.1 - - - +
186B TYR* 1.3 60.8 + - - +
187B GLN 4.2 0.4 - - - -
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Residues in contact with TYR 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B SER* 3.3 6.7 - - - -
45B ASN* 3.1 29.6 - - - +
79B ASN* 3.0 61.2 + - + +
80B ALA* 4.7 0.2 - - - +
81B TYR* 5.8 1.8 - - + +
184B GLU* 5.5 3.4 - - + +
185B GLY* 1.3 72.6 - - - +
187B GLN* 1.3 108.5 + - + +
188B SER* 3.3 4.9 + - - -
3002B XYP 3.4 34.1 - - - +
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Residues in contact with GLN 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B SER* 5.8 0.4 - - - -
43B VAL 3.1 12.7 + - - +
44B SER* 2.7 37.3 + - - +
79B ASN 5.2 0.5 + - - -
185B GLY 4.2 0.4 - - - -
186B TYR* 1.3 113.1 + - + +
188B SER* 1.3 58.4 + - - +
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Residues in contact with SER 188 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TRP* 3.2 25.1 + - - -
42B SER* 3.4 15.3 + - - +
43B VAL* 3.4 9.8 + - - +
77B SER 3.7 11.9 - - - -
78B GLY* 3.9 2.1 - - - -
79B ASN 2.7 37.6 + - - -
186B TYR 3.4 8.7 + - - -
187B GLN* 1.3 78.9 - - - +
189B SER* 1.3 68.9 + - - +
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Residues in contact with SER 189 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TRP* 3.2 24.5 + - - +
41B SER* 3.3 7.6 + - - -
42B SER* 3.1 24.6 + - - -
76B PRO* 4.0 0.5 - - - +
77B SER* 2.7 44.7 + - - +
188B SER* 1.3 72.7 + - - +
190B GLY* 1.3 54.2 + - - +
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Residues in contact with GLY 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B SER* 3.5 1.7 - - - -
40B TRP* 3.0 43.7 + - - +
75B GLN 3.5 12.6 - - - -
77B SER* 3.9 7.9 - - - -
189B SER* 1.3 77.1 - - - +
191B SER* 1.3 63.0 + - - -
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Residues in contact with SER 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B ALA 3.2 14.6 - - - -
39B SER* 3.9 11.2 - - - -
40B TRP* 3.6 8.3 - - - -
75B GLN* 2.9 42.8 + - - +
76B PRO 4.0 0.3 - - - -
190B GLY* 1.3 76.1 - - - -
192B ALA* 1.3 64.0 + - - +
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Residues in contact with ALA 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B SER* 3.4 4.9 - - - -
38B ALA* 2.9 34.9 + - + +
40B TRP* 4.4 1.3 - - + -
72B ALA* 5.8 1.3 - - + -
73B ASN 3.2 11.4 - - - +
74B PHE* 4.1 15.0 - - + -
75B GLN* 5.9 0.2 - - - -
183B VAL* 3.9 34.3 - - + -
191B SER* 1.3 78.7 - - - +
193B ASN* 1.3 62.1 + - - +
194B VAL* 4.1 3.1 - - + +
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Residues in contact with ASN 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ASN* 4.5 5.7 - - - +
36B PHE 3.7 5.1 - - - +
37B SER* 3.5 20.7 - - - -
72B ALA* 3.2 2.5 - - - -
73B ASN* 2.7 47.2 + - + +
192B ALA* 1.3 73.2 - - - +
194B VAL* 1.3 65.1 + - - +
195B TYR* 3.2 25.9 + - - +
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Residues in contact with VAL 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ASN* 5.5 0.2 - - - +
34B GLY 4.4 6.7 - - - +
35B THR* 3.2 20.4 - - - -
36B PHE* 2.9 53.6 + - + +
71B GLY 3.6 6.1 - - - +
72B ALA* 4.0 14.8 - - + -
181B LEU* 4.1 19.5 - - + -
183B VAL* 4.4 11.2 - - + -
192B ALA* 5.4 0.9 - - + -
193B ASN* 1.3 73.1 - - - +
195B TYR* 1.3 58.0 + - - +
196B SER 3.4 22.0 - - - +
197B ASN* 3.7 17.9 - - + -
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Residues in contact with TYR 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B THR* 3.3 16.3 - - - +
71B GLY* 3.0 26.3 + - - -
72B ALA 3.5 25.2 + - - -
73B ASN* 3.7 7.6 - - + -
153B THR 4.6 0.2 + - - -
154B SER* 4.1 10.6 - - - -
193B ASN* 3.2 28.8 + - - +
194B VAL* 1.3 72.9 - - - +
196B SER* 1.3 68.8 + - - +
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Residues in contact with SER 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B THR* 4.0 2.5 - - - -
69B SER* 4.2 9.5 + - - -
70B TYR* 3.1 7.0 - - - +
71B GLY* 2.9 38.1 + - - +
194B VAL* 3.3 6.9 - - - +
195B TYR* 1.3 94.3 - - - +
197B ASN* 1.3 66.5 + - - +
198B THR* 5.0 3.8 + - - -
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Residues in contact with ASN 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B TYR* 3.6 8.7 + - - -
34B GLY* 3.0 53.0 + - - +
35B THR* 4.2 5.1 - - - +
36B PHE* 4.7 2.0 - - - -
50B LYS* 3.2 26.7 + - - +
68B ILE* 3.4 24.1 - - - +
69B SER 3.3 5.4 - - - -
70B TYR* 4.3 0.4 - - - +
181B LEU* 3.5 19.4 + - + +
194B VAL* 3.7 9.4 - - + -
196B SER* 1.3 79.7 + - - +
198B THR* 1.3 65.2 + - - +
199B LEU* 4.6 1.6 + - - +
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Residues in contact with THR 198 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B TYR* 3.2 7.4 - - - +
67B SER 3.7 0.9 - - - +
68B ILE* 3.2 4.9 - - - -
69B SER* 2.9 38.9 + - - -
196B SER* 5.0 3.5 + - - -
197B ASN* 1.3 80.0 + - - +
199B LEU* 1.3 62.2 - - - +
200B ARG* 3.6 30.3 + - - +
205B PRO* 3.9 23.3 - - + -
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Residues in contact with LEU 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B TYR* 2.7 23.5 + - + +
51B GLY* 4.3 2.9 - - - -
52B LYS* 3.5 37.5 - - + +
66B MET* 4.5 5.2 - - + -
67B SER 3.6 14.6 - - - +
68B ILE* 3.8 21.3 - - + -
179B VAL* 3.8 24.0 - - + +
197B ASN* 4.6 1.3 + - - +
198B THR* 1.3 71.9 - - - +
200B ARG* 1.3 72.9 + - - +
201B ILE* 4.3 12.1 + - + -
204B ASN 3.9 0.2 - - - +
205B PRO* 3.2 2.8 - - - +
206B LEU* 3.0 43.5 + - + +
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Residues in contact with ARG 200 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B ASN 3.6 1.0 - - - +
66B MET* 3.4 4.9 - - - -
67B SER* 2.8 47.2 + - - +
69B SER* 4.3 15.0 + - - -
198B THR* 3.6 23.7 + - + +
199B LEU* 1.3 76.4 - - - +
201B ILE* 1.3 62.5 + - - +
202B ASN 4.1 0.2 - - - -
203B GLY* 3.6 31.2 + - - +
204B ASN 3.5 2.5 - - - -
205B PRO* 3.8 32.7 - - + +
----------------------------------------------------------
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Residues in contact with ILE 201 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LYS* 4.5 4.5 - - + -
54B PHE* 4.2 30.1 - - + -
63B VAL* 3.5 33.2 - - + +
64B GLY* 4.6 0.7 - - - -
65B ASN 3.3 5.8 - - - +
66B MET* 4.0 12.6 - - + -
199B LEU* 4.3 11.2 - - + -
200B ARG* 1.3 77.8 - - - +
202B ASN* 1.3 75.5 + - - +
204B ASN* 3.0 27.7 + - - +
206B LEU* 4.2 23.6 - - + -
----------------------------------------------------------
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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