Contacts of the helix formed by residues 147 - 172 (chain A) in PDB entry 4P8V
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 PRO 147 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108A SER* 4.6 0.7 + - - -
144A TRP* 3.4 23.3 - - + +
146A TYR* 1.3 87.6 - - + +
148A ASP* 1.3 71.3 - - - +
150A LYS* 3.9 1.7 + - - +
151A GLU* 3.1 51.2 + - + +
152A ASN 4.0 1.1 - - - +
155A PHE* 3.8 29.6 - - + -
194A SER* 3.8 17.9 - - - +
195A TYR* 3.9 15.9 - - + +
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Residues in contact with ASP 148 (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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146A TYR 3.4 4.8 - - - +
147A PRO* 1.3 79.7 - - - +
149A GLN* 1.3 82.8 + - - +
150A LYS* 4.4 3.8 - - + +
152A ASN* 3.1 13.9 + - - +
190A MET* 3.6 26.1 - - + +
193A ASN* 3.1 38.5 + - - +
194A SER* 2.8 22.8 + - - -
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Residues in contact with GLN 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ASP* 1.3 86.7 + - - +
150A LYS* 1.3 65.2 + - - +
151A GLU 3.3 0.2 + - - -
152A ASN* 3.5 12.5 + - - +
153A THR 4.9 0.5 + - - -
193A ASN* 3.6 19.5 + - + +
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Residues in contact with LYS 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A HIS* 5.8 1.6 - - - -
147A PRO 3.9 2.4 + - - +
148A ASP* 3.3 4.2 - - + +
149A GLN* 1.3 81.7 + - - +
151A GLU* 1.3 82.0 + - + +
153A THR* 5.1 2.9 + - - -
154A HIS* 4.9 4.3 + - - -
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Residues in contact with GLU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A SER* 3.8 17.0 - - - +
112A HIS* 2.8 29.0 + - - -
144A TRP* 3.5 26.0 - - + -
147A PRO* 3.1 25.7 + - + +
150A LYS* 1.3 102.8 + - + +
152A ASN* 1.3 65.8 + - - +
153A THR 3.3 2.5 - - - -
154A HIS* 2.7 38.4 + - - +
155A PHE* 2.9 24.6 + - - +
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Residues in contact with ASN 152 (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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147A PRO* 4.3 1.8 - - - -
148A ASP 3.1 16.4 + - - +
149A GLN* 3.5 10.6 + - - +
151A GLU* 1.3 76.3 - - - +
153A THR* 1.3 57.7 + - - +
155A PHE* 3.8 1.0 - - - +
156A THR* 2.7 39.0 + - - -
192A ASP 4.7 2.6 + - - -
193A ASN 2.9 20.9 + - - +
194A SER 3.3 25.0 - - - +
195A TYR 3.8 8.9 + - - +
196A GLN* 2.9 27.0 + - - +
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Residues in contact with THR 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A GLN 4.9 0.6 + - - -
150A LYS 5.1 2.8 + - - -
151A GLU* 3.3 0.8 - - - +
152A ASN* 1.3 82.9 + - - +
154A HIS* 1.3 63.9 - - + +
156A THR* 3.3 4.1 + - - -
157A VAL* 2.9 50.4 + - + +
196A GLN* 4.7 5.9 + - - +
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Residues in contact with HIS 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A HIS* 4.0 17.0 - + - -
115A VAL* 3.6 36.6 + - + +
116A ASP* 4.5 9.0 + - - -
121A ARG* 4.6 8.4 - - - +
144A TRP* 4.0 12.6 - - + -
150A LYS 4.9 4.1 + - - -
151A GLU* 2.7 35.2 + - - +
153A THR* 1.3 83.9 - - + +
155A PHE* 1.3 56.7 + - - +
157A VAL* 3.9 4.6 - - + +
158A LEU* 2.9 32.7 + - - +
404A SO4 5.2 2.5 + - - -
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Residues in contact with PHE 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A VAL* 4.2 5.8 - - + -
144A TRP* 3.8 44.3 - + + -
147A PRO* 3.8 16.2 - - + -
151A GLU 2.9 16.0 + - - +
152A ASN 3.8 2.2 - - - +
154A HIS* 1.3 75.6 - - - +
156A THR* 1.3 70.0 + - - +
158A LEU* 3.7 3.6 - - + +
159A ILE* 3.0 47.5 + - + +
182A VAL* 3.4 34.5 - - + -
194A SER 4.4 4.5 - - - -
195A TYR* 3.5 36.3 - + - -
196A GLN 6.2 0.2 - - - -
200A LEU* 3.7 22.0 - - + -
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Residues in contact with THR 156 (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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152A ASN* 2.7 25.7 + - - -
153A THR* 3.7 3.8 - - - -
155A PHE* 1.3 86.3 - - - +
157A VAL* 1.3 58.8 + - + +
159A ILE* 3.4 4.3 + - - +
160A HIS* 3.0 27.9 + - - +
194A SER 4.6 0.5 + - - -
196A GLN* 3.3 39.8 + - + +
199A LYS* 3.7 34.1 - - + +
200A LEU* 5.7 4.9 - - + +
203A ASP* 4.8 1.3 - - - +
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Residues in contact with VAL 157 (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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121A ARG* 3.5 21.5 - - - +
153A THR* 2.9 36.4 + - + +
154A HIS* 4.0 5.4 - - + +
156A THR* 1.3 75.3 - - + +
158A LEU* 1.3 59.6 + - - +
160A HIS* 3.3 6.1 + - + +
161A GLU* 2.8 60.3 + - + +
404A SO4 5.5 0.2 - - - +
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Residues in contact with LEU 158 (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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111A PHE* 4.3 11.2 - - + -
114A MET* 4.0 38.1 - - + -
115A VAL* 4.3 2.7 - - + -
121A ARG* 4.3 18.3 - - + +
124A PHE* 4.3 11.4 - - + -
125A ILE* 4.8 7.0 - - + -
142A VAL* 4.5 13.9 - - + -
144A TRP* 4.2 20.4 - - + -
154A HIS 2.9 19.0 + - - +
155A PHE* 3.7 4.0 - - + +
157A VAL* 1.3 78.1 - - - +
159A ILE* 1.3 62.9 + - + +
161A GLU* 3.4 2.0 + - - +
162A LEU* 3.0 49.5 + - + +
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Residues in contact with ILE 159 (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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142A VAL* 3.8 36.8 - - + -
155A PHE* 3.0 47.5 + - + +
156A THR 3.8 3.6 - - - +
158A LEU* 1.3 76.9 - - + +
160A HIS* 1.3 63.6 + - - +
162A LEU* 3.4 8.9 + - + +
163A ALA* 2.9 23.0 + - - +
180A LEU* 3.7 5.5 - - + +
181A THR 5.1 0.2 - - - +
182A VAL* 4.8 1.6 - - + -
200A LEU* 4.0 13.9 - - + -
203A ASP* 3.7 23.8 - - + +
204A LEU* 3.8 27.4 - - + -
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Residues in contact with HIS 160 (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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156A THR 3.0 18.1 + - - +
157A VAL* 3.3 7.4 + - + +
159A ILE* 1.3 78.2 - - - +
161A GLU* 1.3 61.3 + - + +
163A ALA* 3.4 1.2 + - - +
164A GLU* 3.0 71.2 + - + +
199A LYS* 4.8 19.9 + - - +
202A LYS* 6.1 2.7 - - - -
203A ASP* 3.1 31.9 + - - +
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Residues in contact with GLU 161 (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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118A SER* 4.5 8.9 - - - +
121A ARG* 2.7 43.1 + - - +
122A LEU 5.2 0.2 + - - -
125A ILE* 3.5 18.0 - - + +
157A VAL* 2.8 42.3 + - + +
158A LEU* 4.0 1.6 - - - +
160A HIS* 1.3 76.0 - - + +
162A LEU* 1.3 59.4 + - - +
164A GLU* 3.4 9.1 + - - +
165A ALA* 3.0 31.0 + - - +
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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
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124A PHE* 4.9 4.3 - - + -
125A ILE* 3.8 27.1 - - + +
128A ILE* 4.5 8.1 - - + -
140A LEU* 3.9 21.5 - - + -
142A VAL* 3.9 27.6 - - + -
158A LEU* 3.0 39.4 + - + +
159A ILE* 3.7 6.3 - - - +
161A GLU* 1.3 73.2 - - - +
163A ALA* 1.3 60.7 + - - +
165A ALA* 3.2 3.5 + - - -
166A PHE* 2.8 52.5 + - + -
180A LEU* 3.8 15.7 - - + -
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Residues in contact with ALA 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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159A ILE 2.9 17.9 + - - +
160A HIS 3.4 4.5 + - - +
162A LEU* 1.3 76.9 - - - +
164A GLU* 1.3 58.0 + - + +
166A PHE* 3.3 5.5 + - - +
167A GLN* 3.0 29.3 + - - +
177A ARG* 5.6 1.7 + - - -
180A LEU* 3.6 8.0 - - + +
203A ASP* 3.6 41.3 - - + +
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Residues in contact with GLU 164 (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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160A HIS* 3.0 55.4 + - + +
161A GLU* 3.8 8.7 - - - +
163A ALA* 1.3 76.9 - - + +
165A ALA* 1.3 57.7 + - - +
167A GLN* 3.2 7.1 + - - +
168A LYS* 2.8 30.3 + - - +
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Residues in contact with ALA 165 (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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122A LEU* 6.5 0.2 - - + -
125A ILE* 3.4 28.9 - - + -
126A ASN* 5.7 0.9 - - - +
129A ILE* 3.8 10.6 - - + +
161A GLU 3.0 18.1 + - - +
162A LEU 3.7 1.8 - - - +
164A GLU* 1.3 74.2 - - - +
166A PHE* 1.3 62.8 + - + +
168A LYS* 3.9 9.3 - - - +
169A ASP* 3.0 29.8 + - - +
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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
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125A ILE* 5.2 0.9 - - + -
128A ILE* 3.7 25.8 - - + -
129A ILE* 3.8 28.5 - - + -
132A LEU* 4.4 2.2 - - + -
140A LEU* 4.1 9.4 - - + -
162A LEU* 2.8 39.8 + - + +
163A ALA* 3.7 5.4 - - - +
164A GLU 3.3 0.2 - - - -
165A ALA* 1.3 74.9 - - + +
167A GLN* 1.3 58.6 + - - +
169A ASP* 3.4 6.4 + - - +
170A PHE* 3.0 27.2 + - - +
177A ARG* 3.7 8.8 - - + +
178A LEU* 3.4 46.0 + - + +
179A LEU 3.5 19.7 - - - -
180A LEU* 4.0 24.0 - - + -
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Residues in contact with GLN 167 (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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163A ALA 3.0 15.5 + - - +
164A GLU* 3.2 7.4 + - - +
166A PHE* 1.3 73.8 - - - +
168A LYS* 1.3 67.1 + - - +
170A PHE* 3.0 18.6 + - - +
171A THR* 2.9 35.2 + - - +
177A ARG* 2.6 45.3 + - - +
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Residues in contact with LYS 168 (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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164A GLU 2.8 19.8 + - - +
165A ALA* 3.9 8.7 - - - +
167A GLN* 1.3 73.2 - - - +
169A ASP* 1.3 62.7 + - - +
171A THR* 3.2 24.4 + - + -
172A LYS* 3.5 36.9 + - + +
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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
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129A ILE* 3.7 32.2 - - + +
133A ARG* 3.0 33.7 + - - -
165A ALA 3.0 19.5 + - - +
166A PHE* 3.5 6.7 - - - +
168A LYS* 1.3 77.4 - - - +
170A PHE* 1.3 60.8 + - - +
172A LYS* 3.3 16.4 + - - +
173A SER* 3.1 25.7 + - - -
178A LEU* 4.3 6.2 + - - +
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Residues in contact with PHE 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A PHE 3.0 14.0 + - - +
167A GLN* 3.0 24.4 + - - +
169A ASP* 1.3 74.0 + - - +
171A THR* 1.3 65.3 + - - +
172A LYS 2.8 6.7 + - - -
173A SER* 2.9 21.9 + - - +
175A LYS 3.3 26.2 - - - -
176A GLU* 3.9 12.3 - - - -
177A ARG* 3.4 40.2 - - + +
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Residues in contact with THR 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLN* 2.9 29.5 + - - +
168A LYS* 3.2 19.5 + - + +
170A PHE* 1.3 77.4 - - - +
172A LYS* 1.3 63.8 + - + +
173A SER 5.2 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
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168A LYS* 3.5 45.2 + - + +
169A ASP* 3.3 13.3 + - - +
170A PHE 2.9 0.6 - - - -
171A THR* 1.3 84.8 - - + +
173A SER* 1.3 61.9 + - - +
174A THR* 4.2 2.6 + - - +
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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) + - + + + + + -
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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