Contacts of the helix formed by residues 157 - 192 (chain B) in PDB entry 1FZB
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 157 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126A VAL* 5.5 10.3 - - + -
193A LEU 5.5 7.4 - - - +
153B ILE 5.0 0.4 - - - +
154B ASP* 3.0 44.9 - - + +
156B THR* 1.3 77.8 - - - +
158B ASN* 1.3 55.7 + - - +
159B SER 3.0 2.6 + - - -
160B ASN* 3.3 15.9 - - + +
161B ILE* 2.7 52.1 + - + +
162B PRO* 3.3 3.5 - - - +
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Residues in contact with ASN 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B ASP 4.0 4.4 + - - -
155B GLU* 3.1 33.1 + - - +
156B THR 3.0 1.0 - - - -
157B VAL* 1.3 78.8 - - - +
159B SER* 1.3 60.4 + - - +
162B PRO* 3.4 18.5 - - - +
96C TYR* 3.4 46.9 + - + +
99C SER* 4.5 12.6 + - - +
100C ILE* 4.1 19.6 - - - +
103C HIS* 4.7 7.2 + - + -
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Residues in contact with SER 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B GLU* 4.3 6.2 + - - -
156B THR* 2.8 15.9 + - - -
158B ASN* 1.3 78.9 + - - +
160B ASN* 1.3 65.9 + - - +
162B PRO* 3.5 7.2 - - - +
163B THR* 3.4 28.9 + - - +
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Residues in contact with ASN 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191A LYS* 4.4 24.2 + - - +
193A LEU 5.4 10.3 + - - -
156B THR* 2.6 20.7 + - + +
157B VAL* 3.3 17.9 - - + +
159B SER* 1.3 75.6 - - - +
161B ILE* 1.3 66.1 + - - +
163B THR* 2.9 22.5 + - - -
164B ASN* 2.7 39.0 + - - +
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Residues in contact with ILE 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A VAL* 5.9 6.5 - - + -
133A ILE* 5.3 16.6 - - + -
193A LEU 5.7 5.2 - - - +
157B VAL* 2.7 39.0 + - + +
160B ASN* 1.3 78.4 - - - +
162B PRO* 1.3 69.3 - - + +
164B ASN* 2.6 45.0 + - - +
165B LEU* 3.0 29.0 + - + +
103C HIS* 5.0 10.1 - - + -
107C ILE* 5.6 3.1 - - + -
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Residues in contact with PRO 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B VAL 3.3 12.1 - - - +
158B ASN* 3.4 20.0 - - - +
159B SER* 3.5 10.5 - - - +
160B ASN 3.4 3.6 - - - -
161B ILE* 1.3 93.3 - - + +
163B THR* 1.3 57.0 + - + +
165B LEU* 3.2 6.3 + - + +
166B ARG* 3.0 26.0 + - - +
103C HIS* 3.4 42.0 - - + +
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Residues in contact with THR 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B SER 3.4 15.2 + - - +
160B ASN* 2.9 14.9 + - - -
162B PRO* 1.3 73.4 - - + +
164B ASN* 1.3 66.6 + - - +
165B LEU 2.8 11.7 + - - -
166B ARG* 2.9 25.3 + - - +
167B VAL* 3.6 9.2 + - - +
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Residues in contact with ASN 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ILE* 5.2 7.0 - - - +
188A VAL* 4.0 27.3 - - + +
191A LYS* 5.8 6.7 - - + +
160B ASN* 2.7 34.9 + - - +
161B ILE* 2.6 45.9 + - - +
163B THR* 1.3 78.9 + - - +
165B LEU* 1.3 74.6 + - - +
167B VAL* 4.1 13.4 - - - +
168B LEU* 4.0 12.3 - - - +
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Residues in contact with LEU 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ILE* 5.0 17.7 - - + -
161B ILE* 3.0 24.2 + - + +
162B PRO* 3.6 6.1 - - + +
163B THR 2.9 0.4 - - - -
164B ASN* 1.3 100.1 - - - +
166B ARG* 1.3 67.0 + - - +
167B VAL 3.1 2.5 - - - +
168B LEU* 3.8 15.9 - - + -
169B ARG* 3.1 24.8 + - - +
103C HIS* 4.0 7.2 - - + +
106C SER* 3.6 28.3 - - - +
107C ILE* 3.5 31.4 - - + -
110C LEU* 4.1 5.2 - - + +
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Residues in contact with ARG 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162B PRO 3.0 12.5 + - - +
163B THR* 2.9 16.4 + - - +
165B LEU* 1.3 79.0 - - - +
167B VAL* 1.4 59.0 + - + +
169B ARG* 4.0 4.3 - - - +
170B SER* 3.4 21.7 + - - -
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Residues in contact with VAL 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184A GLN* 4.7 22.7 - - + +
185A LEU* 6.2 2.9 - - + -
187A GLN* 5.4 5.4 - - - +
188A VAL* 4.1 24.7 - - + -
163B THR 3.6 13.0 + - - +
164B ASN* 4.1 12.3 - - - +
166B ARG* 1.4 73.6 - - + +
168B LEU* 1.4 71.5 - - + +
169B ARG 2.6 16.1 + - - -
170B SER* 2.7 26.8 + - - +
171B ILE* 3.0 15.2 + - + +
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Residues in contact with LEU 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ILE* 5.2 9.2 - - + -
136A LEU* 4.5 29.2 - - + -
137A GLN* 4.8 17.3 - - + +
140A VAL* 5.1 15.9 - - + -
185A LEU* 5.4 6.1 - - + -
188A VAL* 6.6 0.4 - - + -
164B ASN 4.0 16.8 - - - +
165B LEU* 3.5 17.1 + - + +
167B VAL* 1.4 87.2 - - + +
169B ARG* 1.3 54.8 + - - +
171B ILE* 3.8 11.4 - - + +
172B LEU* 3.3 28.7 + - + +
106C SER 5.3 0.9 - - - +
110C LEU* 3.4 27.7 - - + +
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Residues in contact with ARG 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165B LEU 3.1 17.0 + - - +
166B ARG* 4.0 5.6 - - - +
167B VAL 2.6 4.8 + - - -
168B LEU* 1.3 72.4 - - - +
170B SER* 1.3 58.6 + - - +
171B ILE 2.8 14.2 + - - -
172B LEU* 2.9 12.3 + - - -
173B GLU* 2.9 40.3 + - - +
106C SER* 5.4 6.7 - - - -
109C TYR* 2.9 39.2 + - - -
110C LEU* 3.5 27.6 - - + -
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Residues in contact with SER 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A GLN* 4.4 0.6 + - - -
166B ARG 3.4 11.2 + - - -
167B VAL* 2.7 31.4 + - - +
169B ARG* 1.3 77.6 - - - +
171B ILE* 1.3 62.3 + - - +
173B GLU* 4.0 5.6 - - - +
174B ASN* 3.3 23.9 + - - +
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Residues in contact with ILE 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A VAL* 4.6 17.0 - - + -
144A LEU* 5.0 11.0 - - + -
181A GLN* 3.0 42.8 + - + +
184A GLN* 5.5 6.5 - - + -
185A LEU* 4.1 28.9 - - + -
167B VAL* 3.0 22.7 + - + +
168B LEU* 3.8 14.6 - - + +
169B ARG 2.8 4.2 + - - -
170B SER* 1.3 78.4 - - - +
172B LEU* 1.3 72.1 + - + +
173B GLU 2.9 10.3 + - - -
174B ASN* 2.9 11.8 + - - +
175B LEU* 3.0 22.6 + - + +
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Residues in contact with LEU 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A VAL* 4.0 20.4 - - + -
143A GLN* 4.2 11.4 - - - +
168B LEU* 3.3 22.0 - - + +
169B ARG 2.9 3.7 + - - +
171B ILE* 1.3 83.5 - - + +
173B GLU* 1.3 54.6 + - - +
175B LEU* 4.1 9.9 - - + -
176B ARG* 3.6 0.2 - - - +
110C LEU* 3.3 41.3 - - + +
113C ILE* 2.7 54.9 - - + +
114C TYR* 3.8 23.3 - - + +
117C ASN* 3.2 13.3 - - - +
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Residues in contact with GLU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169B ARG* 2.9 50.2 + - + +
170B SER* 4.2 5.7 - - - +
171B ILE 2.9 0.8 - - - -
172B LEU* 1.3 78.6 - - - +
174B ASN* 1.3 64.3 - - - +
175B LEU 3.0 2.0 - - - -
176B ARG* 3.1 31.5 + - + +
177B SER* 3.1 10.2 + - - -
109C TYR* 2.8 27.4 + - - -
113C ILE* 3.3 23.8 - - + +
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Residues in contact with ASN 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A ASP* 2.9 26.9 + - - +
181A GLN* 3.6 14.3 + - - +
170B SER 3.3 18.9 + - - +
171B ILE 2.9 6.0 + - - +
173B GLU* 1.3 78.3 - - - +
175B LEU* 1.3 58.9 + - - +
177B SER* 2.6 28.4 + - - -
178B LYS* 3.1 29.7 + - - +
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Residues in contact with LEU 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A VAL* 5.5 2.5 - - + +
143A GLN* 3.9 27.6 - - + +
144A LEU* 4.1 26.7 - - + +
147A MET* 4.3 15.4 - - + +
178A TYR* 4.1 16.6 - - + +
181A GLN* 4.1 19.5 - - - +
171B ILE* 3.0 19.9 + - + +
172B LEU* 4.2 10.5 - - + +
174B ASN* 1.3 76.4 - - - +
176B ARG* 1.1 68.4 - - - +
177B SER 3.1 1.6 - - - -
178B LYS* 3.9 8.9 - - + +
179B ILE* 3.0 31.0 + - + +
117C ASN* 3.1 13.0 - - + +
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Residues in contact with ARG 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172B LEU 3.6 8.3 - - - +
173B GLU* 3.1 25.0 + - - +
175B LEU* 1.1 83.9 - - - +
177B SER* 1.3 56.5 + - - +
179B ILE* 4.0 11.1 - - - +
180B GLN* 4.1 5.4 + - - +
113C ILE* 3.5 31.6 - - + +
116C SER* 5.0 3.4 - - - +
117C ASN* 2.7 37.0 + - - +
120C LYS* 4.2 10.7 + - - +
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Residues in contact with SER 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173B GLU 3.1 8.3 + - - -
174B ASN* 2.6 36.8 + - - -
176B ARG* 1.3 75.2 - - - +
178B LYS* 1.3 65.6 + - - +
179B ILE 3.0 2.3 + - - -
180B GLN* 3.1 17.1 + - - +
181B LYS* 3.5 8.3 + - - +
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Residues in contact with LYS 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A MET* 4.6 4.0 - - + -
151A GLU* 4.5 9.6 + - - +
174A ASP* 5.0 5.1 + - - +
177A ASP* 3.0 40.7 + - - +
178A TYR* 3.5 41.5 - - + +
181A GLN* 4.4 6.3 - - - -
174B ASN* 3.1 25.4 + - - +
175B LEU* 3.3 13.8 + - + +
177B SER* 1.3 79.8 + - - +
179B ILE* 1.3 64.5 + - - +
181B LYS* 3.2 15.3 + - - +
182B LEU* 3.3 18.4 + - - +
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Residues in contact with ILE 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A MET* 4.2 5.8 - - + -
175B LEU* 3.0 18.8 + - + +
176B ARG* 4.0 5.6 - - - +
177B SER 3.0 0.8 - - - -
178B LYS* 1.3 76.7 - - - +
180B GLN* 1.3 65.1 + - - +
182B LEU* 3.1 10.3 + - - +
183B GLU* 2.8 39.2 + - - +
117C ASN* 3.5 33.4 - - + +
120C LYS* 3.5 27.8 - - + +
121C ILE* 3.2 30.7 - - + -
124C LEU* 4.1 17.5 - - + -
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Residues in contact with GLN 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176B ARG 4.1 5.4 + - - +
177B SER* 3.1 11.6 + - - +
179B ILE* 1.3 78.5 - - - +
181B LYS* 1.3 63.6 + - - +
183B GLU* 3.1 36.0 + - - +
184B SER* 2.9 25.4 + - - +
120C LYS* 4.1 11.3 + - - +
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Residues in contact with LYS 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169A LEU* 5.9 1.4 - - - +
177B SER 3.5 5.8 + - - +
178B LYS* 3.2 11.5 + - - +
179B ILE 3.2 0.8 - - - -
180B GLN* 1.3 76.7 - - - +
182B LEU* 1.3 59.4 + - + +
184B SER* 2.9 22.9 + - - -
185B ASP* 2.6 68.3 + - - +
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Residues in contact with LEU 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A MET* 4.5 15.3 - - + -
150A LEU* 5.2 0.7 - - + -
151A GLU* 3.9 35.0 - - + +
154A ILE* 3.7 30.5 - - + -
171A ARG* 3.5 28.5 - - - +
178B LYS* 3.5 14.1 - - + +
179B ILE 3.1 6.0 + - - +
181B LYS* 1.3 78.0 - - + +
183B GLU* 1.3 65.6 + - - +
185B ASP* 3.6 9.6 - - - +
186B VAL* 2.8 31.3 + - - +
124C LEU* 4.0 18.4 - - + -
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Residues in contact with GLU 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179B ILE* 2.8 20.8 + - - +
180B GLN* 3.1 37.5 + - - +
182B LEU* 1.3 78.5 - - - +
184B SER* 1.3 65.1 + - - +
187B SER* 3.0 6.6 + - - -
120C LYS* 3.3 29.9 - - - +
124C LEU* 4.0 18.2 - - + +
127C LYS* 2.7 38.4 + - + +
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Residues in contact with SER 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180B GLN* 2.9 17.2 + - - +
181B LYS* 3.0 28.3 + - - -
183B GLU* 1.3 75.8 - - - +
185B ASP* 1.3 65.3 + - - +
187B SER* 2.9 10.0 + - - -
188B ALA* 2.9 24.7 + - - +
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Residues in contact with ASP 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A ILE* 5.4 0.2 - - + -
158A ILE* 4.3 8.1 - - + +
169A LEU* 4.3 17.0 - - + +
171A ARG* 2.8 44.2 + - - +
172A GLU* 5.5 1.2 - - - +
181B LYS* 2.6 58.7 + - - +
182B LEU* 3.6 10.1 - - + +
184B SER* 1.3 73.4 - - - +
186B VAL* 1.3 61.6 + - + +
188B ALA* 3.5 7.6 + - - +
189B GLN* 3.3 20.8 + - - +
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Residues in contact with VAL 186 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ILE* 4.5 15.7 - - + -
158A ILE* 5.0 0.7 - - - -
182B LEU 2.8 24.7 + - - +
183B GLU 3.7 3.1 - - - +
185B ASP* 1.3 70.0 - - - +
187B SER* 1.3 68.4 + - - +
189B GLN* 3.0 8.1 + - - +
190B MET* 2.9 29.9 + - + +
124C LEU* 4.5 5.2 - - + -
127C LYS* 3.4 42.2 - - + +
128C VAL* 3.7 28.3 - - + +
131C LEU* 4.4 12.1 - - + -
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Residues in contact with SER 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B GLU 3.0 7.1 + - - -
184B SER* 2.9 11.1 + - - -
186B VAL* 1.3 74.3 - - - +
188B ALA* 1.3 65.8 + - - +
190B MET* 2.9 17.4 + - - +
191B GLU* 3.0 22.7 + - - +
127C LYS* 2.6 31.1 + - - +
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Residues in contact with ALA 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LEU* 3.9 24.9 - - + -
184B SER* 2.9 13.6 + - - +
185B ASP* 3.6 10.1 - - - +
187B SER* 1.3 75.9 - - - +
189B GLN* 1.3 57.1 + - - +
191B GLU* 2.9 12.7 + - - +
192B TYR* 2.9 39.0 + - + +
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Residues in contact with GLN 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A ILE* 3.3 22.1 - - + +
161A CYS* 4.1 14.6 - - + +
165A CYS* 4.1 1.0 - - - +
167A ARG 2.7 23.5 - - - +
168A ALA* 3.1 5.9 - - - +
169A LEU* 2.7 35.4 - - - +
185B ASP 3.3 10.3 + - - +
186B VAL 3.0 8.5 + - - +
188B ALA* 1.3 75.2 - - - +
190B MET* 1.3 60.9 + - - +
192B TYR* 3.0 10.1 + - - +
193B CYS* 2.9 41.2 + - - -
131C LEU* 3.4 27.8 - - + -
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Residues in contact with MET 190 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B VAL* 2.9 30.4 + - + +
187B SER* 2.9 9.6 + - - +
189B GLN* 1.3 76.7 - - - +
191B GLU* 1.3 65.3 + - - +
193B CYS* 3.3 14.1 + - - +
194B ARG* 3.5 15.5 + - - +
127C LYS* 4.5 11.7 - - - +
130C GLN* 3.7 46.0 - - + +
131C LEU* 4.0 11.4 - - + +
134C GLN* 3.3 31.3 - - + +
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Residues in contact with GLU 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B SER* 3.0 25.8 + - - +
188B ALA* 2.9 15.6 + - - +
190B MET* 1.3 80.2 - - - +
192B TYR* 1.3 68.4 + - + +
193B CYS 3.1 0.5 + - - -
194B ARG* 2.8 60.0 + - - +
195B THR* 4.5 4.2 + - - +
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Residues in contact with TYR 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A CYS* 4.1 0.4 - - - -
166A SER* 2.7 28.2 + - - -
167A ARG* 2.6 54.6 + - + +
168A ALA 3.8 4.7 - - - -
169A LEU* 3.2 46.3 - - + +
188B ALA* 2.9 26.9 + - + +
189B GLN* 3.0 34.3 + - - +
191B GLU* 1.3 80.9 - - + +
193B CYS* 1.3 58.2 + - - +
194B ARG 3.5 0.5 + - - -
195B THR* 2.8 9.7 + - - +
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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