Contacts of the helix formed by residues 150 - 177 (chain G) in PDB entry 4DVQ
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 SER 150 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145G ASN* 2.9 12.4 + - - +
146G PRO* 3.3 26.0 + - - +
148G VAL 3.9 0.4 - - - -
149G LEU* 1.3 78.6 - - - +
151G PRO* 1.4 68.6 - - - +
152G LYS* 4.0 17.8 - - - +
153G ALA* 2.7 24.3 + - - +
154G VAL* 3.1 10.7 + - - +
454G ARG* 4.2 0.7 - - - +
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Residues in contact with PRO 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G LEU 3.7 0.4 - - - -
150G SER* 1.4 88.6 - - - +
152G LYS* 1.3 63.0 + - + +
154G VAL* 3.9 10.7 - - + +
155G GLN* 3.0 27.6 + - - +
454G ARG* 3.7 28.0 - - - +
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Residues in contact with LYS 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G PRO* 4.9 4.3 - - + +
150G SER* 3.1 15.8 - - - +
151G PRO* 1.3 80.4 - - + +
153G ALA* 1.3 59.2 + - - +
155G GLN* 3.6 13.2 - - - +
156G ARG* 3.4 25.2 - - - +
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Residues in contact with ALA 153 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G PRO 3.5 8.8 + - - +
147G ASP* 3.2 40.6 - - - +
148G VAL 4.1 1.1 - - - +
150G SER 2.7 17.9 + - - +
152G LYS* 1.3 72.3 - - - +
154G VAL* 1.3 57.9 + - - +
156G ARG* 2.8 24.6 + - - +
157G PHE* 3.0 27.6 + - + -
286G TYR* 4.5 3.8 + - + +
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Residues in contact with VAL 154 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G LEU 4.5 1.3 - - - +
150G SER 3.1 9.3 + - - +
151G PRO* 3.9 7.9 - - + +
153G ALA* 1.3 74.5 - - - +
155G GLN* 1.3 65.1 + - - +
156G ARG 2.9 1.2 + - - -
157G PHE* 3.4 23.5 - - + -
158G LEU* 3.0 55.0 + - + +
356G GLN* 6.1 0.4 - - + -
359G THR* 4.9 7.4 - - + -
454G ARG* 3.4 45.8 - - + +
458G ALA* 5.0 4.5 - - + -
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Residues in contact with GLN 155 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151G PRO* 3.0 18.7 + - - +
152G LYS* 3.6 14.8 - - - +
154G VAL* 1.3 77.4 - - - +
156G ARG* 1.3 60.9 + - + +
159G PRO* 3.6 2.6 - - - +
356G GLN* 2.8 55.9 + - + +
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Residues in contact with ARG 156 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147G ASP* 5.4 2.8 + - - -
152G LYS* 3.4 19.7 - - - +
153G ALA* 2.8 7.9 + - - +
155G GLN* 1.3 84.6 - - + +
157G PHE* 1.3 63.7 + - - +
158G LEU 3.5 0.2 - - - -
159G PRO* 3.4 11.2 - - - +
160G MET* 4.0 6.8 - - - +
284G GLN 5.6 2.8 + - - -
285G HIS 5.3 0.4 - - - -
286G TYR* 3.6 60.1 - - + +
292G GLU* 3.8 27.5 + - - +
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Residues in contact with PHE 157 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148G VAL 3.8 18.4 - - - -
153G ALA* 3.0 41.1 + - + -
154G VAL* 3.4 33.7 - - + -
156G ARG* 1.3 76.8 - - - +
158G LEU* 1.3 61.9 + - - +
160G MET* 2.8 50.5 + - + +
161G VAL* 3.1 13.6 + - + +
203G ALA* 4.0 9.6 - - + -
286G TYR* 3.7 16.2 - - - +
289G ILE* 3.9 17.3 - - + -
454G ARG 4.3 2.5 - - - -
455G LEU* 3.9 40.6 - - + -
458G ALA* 4.8 3.6 - - + -
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Residues in contact with LEU 158 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154G VAL* 3.0 33.1 + - + +
157G PHE* 1.3 82.4 - - + +
159G PRO* 1.3 65.8 - - + +
161G VAL* 3.1 7.0 + - - +
162G ASP* 2.9 19.6 + - - +
355G PRO* 3.3 42.4 - - + +
356G GLN* 3.5 11.9 - - + +
358G ALA* 5.6 1.6 - - + -
359G THR* 3.6 30.5 - - + -
458G ALA* 4.2 14.1 - - + -
461G LEU* 6.4 0.4 - - + -
462G LEU* 3.6 21.3 - - + +
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Residues in contact with PRO 159 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155G GLN 3.6 10.3 - - - +
156G ARG* 3.4 17.9 - - - +
158G LEU* 1.3 97.0 - - + +
160G MET* 1.3 61.9 + - + +
162G ASP* 3.3 20.6 - - + +
163G ALA* 3.3 9.5 + - - +
355G PRO* 4.5 12.1 - - + +
356G GLN* 3.3 28.3 - - - +
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Residues in contact with MET 160 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156G ARG 4.0 7.4 - - - +
157G PHE* 2.8 45.3 + - + +
159G PRO* 1.3 71.2 - - + +
161G VAL* 1.3 68.2 + - + +
163G ALA* 3.3 12.5 + - - +
164G VAL* 3.5 5.5 + - - +
202G LEU* 3.4 49.9 - - + +
203G ALA* 3.4 23.8 - - - +
206G GLY* 5.3 0.7 - - - -
286G TYR* 3.6 28.9 - - + +
287G THR* 5.0 3.6 - - - -
288G GLY* 4.3 4.7 - - - -
180J ALA* 5.9 2.7 - - - -
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Residues in contact with VAL 161 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157G PHE* 3.1 16.9 + - + +
158G LEU* 3.6 8.5 - - - +
160G MET* 1.3 76.6 - - - +
162G ASP* 1.3 60.9 - - - +
164G VAL* 3.1 8.6 + - - +
165G ALA* 2.9 20.6 + - - +
195G TYR* 3.8 8.5 - - - +
199G ALA* 4.4 10.3 - - + +
203G ALA* 4.3 11.2 - - + -
455G LEU* 4.3 23.8 - - + -
458G ALA* 3.7 12.1 - - + +
459G GLU* 3.7 37.0 - - + +
462G LEU* 4.0 6.1 - - + -
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Residues in contact with ASP 162 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158G LEU 2.9 12.8 + - - +
159G PRO 3.3 12.3 - - - +
160G MET 3.2 0.2 - - - -
161G VAL* 1.3 76.9 - - - +
163G ALA* 1.3 51.7 + - - +
165G ALA* 3.3 3.5 + - - +
166G ARG* 2.7 64.4 + - - +
351G ILE* 5.1 1.0 - - - +
355G PRO* 3.6 27.7 - - + +
462G LEU* 3.5 22.7 - - + +
466G HIS* 2.9 26.0 - - - -
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Residues in contact with ALA 163 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159G PRO 3.3 8.1 + - - +
160G MET* 3.3 10.9 + - - +
161G VAL 3.3 0.8 - - - -
162G ASP* 1.3 79.9 + - - +
164G VAL* 1.3 58.2 + - - +
166G ARG* 3.6 10.9 - - - +
167G ASP* 2.8 37.9 + - - +
202G LEU* 5.4 2.0 - - + -
208G ARG* 4.8 9.2 - - - +
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Residues in contact with VAL 164 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160G MET 3.5 15.5 - - - +
161G VAL 3.1 6.3 + - - +
163G ALA* 1.3 73.1 - - - +
165G ALA* 1.3 59.8 + - - +
167G ASP* 3.3 2.1 + - - +
168G PHE* 3.0 27.9 + - - +
195G TYR* 3.9 19.7 - - + -
198G GLU* 3.7 30.3 - - + -
199G ALA* 3.9 19.5 - - - +
202G LEU* 3.6 20.2 - - + -
208G ARG* 3.8 22.4 - - - +
212G VAL* 4.1 6.8 - - + +
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Residues in contact with ALA 165 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161G VAL 2.9 13.3 + - - +
162G ASP 3.6 7.0 - - - +
164G VAL* 1.3 73.1 - - - +
166G ARG* 1.3 66.1 + - - +
168G PHE* 3.3 12.3 + - - +
169G SER* 3.4 14.4 + - - -
195G TYR* 3.7 18.7 - - - +
462G LEU* 3.4 39.3 - - + +
463G LEU* 3.6 8.6 - - - +
466G HIS* 3.9 6.5 - - - +
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Residues in contact with ARG 166 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162G ASP* 2.7 47.2 + - - +
163G ALA* 3.6 12.1 - - - +
165G ALA* 1.3 73.3 - - - +
167G ASP* 1.3 64.9 + - - +
168G PHE 3.2 0.5 + - - -
169G SER* 3.2 5.2 + - - -
170G GLN* 3.0 22.6 + - - +
351G ILE* 4.2 6.1 + - - +
352G SER* 3.3 43.4 + - - +
355G PRO* 5.0 0.6 - - - +
466G HIS* 3.1 40.0 + - + +
469G LYS* 4.2 7.5 - - - +
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Residues in contact with ASP 167 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163G ALA* 2.8 21.7 + - - +
164G VAL 3.3 2.9 + - - +
166G ARG* 1.3 77.1 - - - +
168G PHE* 1.3 57.4 + - - +
170G GLN* 3.8 19.6 + - - +
171G ALA* 3.0 28.9 + - - +
208G ARG* 2.9 40.9 + - - +
212G VAL* 3.8 9.3 - - + +
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Residues in contact with PHE 168 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164G VAL 3.0 13.4 + - - +
165G ALA* 3.5 11.0 - - - +
166G ARG 3.2 0.4 - - - -
167G ASP* 1.3 74.5 - - - +
169G SER* 1.3 63.3 + - - +
171G ALA* 3.4 3.5 + - + +
172G LEU* 3.0 51.8 + - + +
188G VAL* 5.5 5.6 - - + -
191G SER* 3.8 42.0 - - - -
192G ILE* 4.0 18.2 - - + -
195G TYR* 4.0 26.7 - + + -
212G VAL* 3.8 15.2 - - + +
327G LEU* 6.2 0.9 - - + -
463G LEU* 4.0 13.0 - - + -
467G VAL* 4.2 18.8 - - + -
499G PHE* 5.8 2.7 - + - -
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Residues in contact with SER 169 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165G ALA 3.4 3.8 + - - -
166G ARG* 3.2 8.3 + - - -
168G PHE* 1.3 78.1 - - - +
170G GLN* 1.3 57.4 + - - +
172G LEU* 3.2 4.4 + - - +
173G LYS* 2.7 38.2 + - - +
463G LEU 4.7 0.2 + - - -
466G HIS* 3.2 40.8 + - - +
467G VAL* 3.5 12.0 + - - +
470G HIS* 4.2 14.4 - - - -
471G PHE* 4.0 9.2 - - - -
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Residues in contact with GLN 170 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166G ARG 3.0 17.0 + - - +
167G ASP* 3.8 18.8 + - - +
169G SER* 1.3 76.5 - - - +
171G ALA* 1.3 63.9 + - - +
173G LYS* 3.3 11.0 + - + +
174G LYS* 3.0 27.4 + - + +
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Residues in contact with ALA 171 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167G ASP 3.0 18.8 + - - +
168G PHE* 3.7 6.1 - - + +
169G SER 3.2 0.2 - - - -
170G GLN* 1.3 77.3 - - - +
172G LEU* 1.3 65.4 + - - +
174G LYS* 3.3 9.6 + - - +
175G LYS* 3.3 24.2 + - + +
213G GLY* 3.4 34.8 - - - +
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Residues in contact with LEU 172 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168G PHE* 3.0 41.4 + - + +
169G SER 3.6 3.1 - - - +
171G ALA* 1.3 76.6 - - - +
173G LYS* 1.3 66.6 + - - +
175G LYS* 3.0 19.0 + - + +
176G VAL* 3.0 15.5 + - + +
184G LEU* 4.0 27.1 - - + -
186G LEU* 5.0 7.2 - - + -
188G VAL* 5.8 1.6 - - + -
191G SER* 6.0 1.6 - - - +
467G VAL* 4.8 2.0 - - + -
471G PHE* 3.9 22.9 - - + -
499G PHE* 3.8 42.8 - - + -
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Residues in contact with LYS 173 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169G SER 2.7 22.3 + - - +
170G GLN* 3.5 10.8 - - + +
172G LEU* 1.3 69.5 - - - +
174G LYS* 1.3 67.1 + - - +
176G VAL* 3.1 13.4 + - - +
177G LEU* 3.2 49.8 + - + +
470G HIS* 5.8 11.0 - - + -
471G PHE* 3.5 20.9 - - + -
501G ALA* 5.6 4.5 - - + -
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Residues in contact with LYS 174 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170G GLN* 3.0 17.7 + - + +
171G ALA* 3.5 12.3 - - - +
172G LEU 3.2 0.2 - - - -
173G LYS* 1.3 82.2 - - - +
175G LYS* 1.3 58.9 + - + +
177G LEU* 3.6 8.7 + - + +
178G GLN* 2.8 44.0 - - - +
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Residues in contact with LYS 175 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171G ALA* 3.3 14.1 + - + +
172G LEU* 3.0 10.7 + - + +
174G LYS* 1.3 75.2 - - + +
176G VAL* 1.3 65.8 + - - +
178G GLN* 3.3 16.1 + - - +
179G ASN* 3.2 16.4 + - - -
184G LEU* 4.4 33.3 - - + +
186G LEU* 6.2 0.7 - - - -
208K ARG 6.0 0.2 + - - -
209K LEU 5.6 4.2 + - - -
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Residues in contact with VAL 176 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172G LEU* 3.0 17.3 + - + +
173G LYS* 3.1 11.0 + - - +
175G LYS* 1.3 77.2 - - - +
177G LEU* 1.3 60.1 + - + +
179G ASN* 2.9 35.7 + - - +
182G GLY* 2.9 33.4 - - - +
183G SER 3.8 2.5 + - - -
184G LEU* 3.5 29.6 - - + +
471G PHE* 3.9 13.7 - - + -
499G PHE* 3.6 11.7 - - + +
501G ALA* 3.8 20.0 - - + +
----------------------------------------------------------
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Residues in contact with LEU 177 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173G LYS* 3.2 47.3 + - + +
174G LYS* 4.0 4.0 - - - +
175G LYS 3.4 0.4 - - - -
176G VAL* 1.3 84.8 - - + +
178G GLN* 1.3 67.2 + - - +
179G ASN 3.2 9.6 + - - +
182G GLY* 5.3 4.9 - - - -
501G ALA* 4.5 12.8 - - + -
----------------------------------------------------------
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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