Contacts of the helix formed by residues 120 - 149 (chain B) in PDB entry 2FJC
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 ILE 120 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ILE* 4.1 20.6 - - + -
61B TYR 3.3 23.8 + - - +
62B GLY* 4.0 2.5 - - - -
64B GLU* 3.3 30.3 - - + +
65B PHE* 3.4 30.5 - - - +
68B VAL* 3.7 22.4 - - + -
118B ILE 3.8 0.2 + - - -
119B THR* 1.3 69.3 - - - +
121B VAL* 1.3 69.7 + - + +
123B ALA* 3.2 2.4 + - - +
124B LEU* 2.9 35.1 + - + +
63K ILE* 4.2 15.9 - - + -
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Residues in contact with VAL 121 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B THR* 3.1 15.7 - - + +
120B ILE* 1.3 79.2 - - + +
122B SER* 1.3 61.8 + - - +
124B LEU* 4.6 0.4 - - - -
125B ALA* 3.0 30.5 + - - +
175B LEU* 3.7 22.9 - - + +
63K ILE* 4.3 24.2 - - + -
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Residues in contact with SER 122 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B ILE* 3.8 9.4 - - - +
119B THR* 3.0 29.9 - - - +
121B VAL* 1.3 80.3 - - - +
123B ALA* 1.3 60.8 + - - +
125B ALA* 3.5 5.2 + - - +
126B ARG* 3.1 54.6 + - - +
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Residues in contact with ALA 123 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B TYR* 3.8 26.1 - - + -
60B ILE* 3.6 24.7 - - + -
68B VAL* 5.9 0.2 - - + -
72B LEU* 5.5 1.3 - - + -
118B ILE* 3.7 10.5 - - + +
119B THR 2.9 17.6 + - - +
120B ILE 3.7 2.9 - - - +
122B SER* 1.3 74.3 - - - +
124B LEU* 1.3 68.3 + - + +
126B ARG* 3.1 4.7 + - - +
127B VAL* 3.0 27.4 + - - +
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Residues in contact with LEU 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B VAL* 3.9 26.5 - - + -
71B LEU* 4.4 10.8 - - + -
72B LEU* 4.4 15.9 - - + -
75B TYR* 5.3 0.2 - - + -
120B ILE* 2.9 35.8 + - + +
123B ALA* 1.3 76.2 - - + +
125B ALA* 1.3 57.0 + - - +
127B VAL* 3.2 9.1 + - + +
128B LYS* 2.9 29.8 + - - +
171B LEU* 3.9 23.7 - - + +
174B THR* 3.8 22.2 - - + +
175B LEU* 3.8 19.0 - - + +
63K ILE* 4.6 7.4 - - + -
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Residues in contact with ALA 125 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B VAL 3.0 20.0 + - - +
122B SER* 3.7 7.0 - - - +
123B ALA 3.2 0.2 - - - -
124B LEU* 1.3 76.2 - - - +
126B ARG* 1.3 58.5 + - - +
128B LYS* 3.5 4.5 + - - +
129B ARG* 3.1 44.5 + - - +
175B LEU* 3.5 19.0 - - + +
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Residues in contact with ARG 126 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LYS* 5.3 2.9 - - - +
56B TYR* 3.4 15.0 - - - +
113B GLU* 2.7 48.8 + - - -
115B GLU* 3.4 24.0 + - - -
118B ILE* 3.3 19.1 - - - +
122B SER* 3.1 31.0 + - - +
123B ALA 3.1 6.1 + - - +
125B ALA* 1.3 75.8 - - - +
127B VAL* 1.3 66.0 + - - +
129B ARG* 3.2 28.2 + - - +
130B ASP* 3.0 28.7 + - - +
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Residues in contact with VAL 127 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 5.5 1.6 - - + -
53B LEU* 3.8 21.3 - - + -
56B TYR* 3.5 26.7 - - + -
72B LEU* 4.5 7.6 - - + -
75B TYR* 4.2 15.9 - - + -
123B ALA 3.0 16.6 + - - +
124B LEU* 3.4 12.8 - - + +
126B ARG* 1.3 72.6 - - - +
128B LYS* 1.3 64.7 + - - +
130B ASP* 3.1 8.7 + - - +
131B PHE* 2.7 40.2 + - + -
171B LEU* 3.3 24.0 - - + -
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Residues in contact with LYS 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B LEU 2.9 17.2 + - - +
125B ALA* 3.6 6.3 - - - +
127B VAL* 1.3 76.6 - - - +
129B ARG* 1.3 57.8 + - - +
131B PHE* 3.3 4.1 + - - +
132B GLU* 2.8 68.1 + - + +
168B ILE* 3.8 14.7 - - + +
171B LEU* 3.7 22.0 - - + -
172B GLY* 3.5 38.8 - - - +
175B LEU* 4.2 12.3 - - + -
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Residues in contact with ARG 129 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B ALA* 3.1 33.9 + - - +
126B ARG* 3.4 29.9 - - - +
128B LYS* 1.3 78.8 - - - +
130B ASP* 1.3 60.0 + - - +
132B GLU* 3.3 15.3 + - - +
133B TYR* 2.9 27.5 + - - +
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Residues in contact with ASP 130 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 4.3 20.5 - - + +
52B LYS* 2.7 44.3 + - - +
56B TYR* 5.3 0.3 - - - -
110B ILE* 3.9 20.2 - - + +
111B ALA 5.4 0.3 + - - -
126B ARG 3.0 19.0 + - - +
127B VAL* 3.7 7.3 - - - +
129B ARG* 1.3 76.1 - - - +
131B PHE* 1.3 62.9 + - - +
133B TYR* 3.3 8.6 + - - +
134B LEU* 2.9 32.7 + - - +
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Residues in contact with PHE 131 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 3.7 32.3 - - + -
53B LEU* 4.9 1.1 - - + -
75B TYR* 3.8 45.1 - + + -
79B VAL* 4.5 10.5 - - + -
127B VAL* 2.7 24.4 + - + +
128B LYS 3.5 5.2 - - - +
130B ASP* 1.3 72.5 - - + +
132B GLU* 1.3 58.1 + - - +
134B LEU* 3.3 4.7 + - + +
135B SER* 2.8 29.1 + - - -
164B LEU* 3.8 24.9 - - + +
167B ALA* 3.8 28.5 - - + -
168B ILE* 3.6 18.0 - - + +
171B LEU* 3.8 18.8 - - + -
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Residues in contact with GLU 132 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B LYS* 2.8 54.5 + - - +
129B ARG* 3.6 16.9 - - - +
131B PHE* 1.3 74.7 - - - +
133B TYR* 1.3 64.5 + - - +
135B SER* 3.2 3.7 + - - -
136B THR* 3.0 31.3 + - + +
168B ILE* 3.8 27.7 - - + +
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Residues in contact with TYR 133 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLN* 4.1 5.4 + - - -
45B ASP* 3.1 25.5 + - - -
109B GLY* 3.3 30.8 + - - -
110B ILE* 3.7 25.8 - - + -
129B ARG 2.9 13.5 + - - +
130B ASP* 3.6 12.3 - - - +
132B GLU* 1.3 77.3 - - - +
134B LEU* 1.3 69.5 + - + +
136B THR* 3.0 22.6 + - - -
137B ARG* 3.1 48.2 + - + +
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Residues in contact with LEU 134 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B HIS* 5.2 5.2 - - - +
45B ASP* 3.7 34.3 - - + +
46B LEU* 3.6 22.4 - - + -
49B LEU* 3.5 30.7 - - + -
79B VAL* 5.6 1.1 - - + -
110B ILE* 4.3 8.1 - - + -
130B ASP 2.9 18.2 + - - +
131B PHE* 3.6 5.8 - - + +
133B TYR* 1.3 78.9 - - + +
135B SER* 1.3 53.0 + - - +
137B ARG* 3.1 4.0 + - + +
138B PHE* 2.7 65.0 + - + -
164B LEU* 4.0 13.7 - - + -
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Residues in contact with SER 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B PHE 2.8 17.9 + - - -
132B GLU* 3.2 7.2 + - - -
134B LEU* 1.3 77.0 - - - +
136B THR* 1.3 58.1 + - - +
139B SER* 2.9 35.8 + - - -
161B LEU* 3.6 14.6 + - - +
164B LEU* 3.9 14.3 - - - +
165B GLY* 5.6 1.7 + - - -
168B ILE* 4.0 17.4 - - - +
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Residues in contact with THR 136 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B GLU* 3.0 15.5 + - + +
133B TYR* 3.0 19.0 + - - -
135B SER* 1.3 77.8 - - - +
137B ARG* 1.3 66.8 + - - +
139B SER* 3.4 7.8 + - - -
140B GLN* 3.1 29.7 + - - +
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Residues in contact with ARG 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B GLN* 3.3 32.6 + - - +
41B GLN* 2.6 24.9 + - - -
42B HIS* 3.8 13.6 - - + +
45B ASP* 4.2 2.7 - - - +
133B TYR* 3.1 55.0 + - + +
134B LEU* 3.6 9.2 - - + +
136B THR* 1.3 86.2 + - - +
138B PHE* 1.3 62.0 + - - +
140B GLN* 2.6 53.4 + - - +
141B THR* 3.4 13.7 + - - -
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Residues in contact with PHE 138 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B HIS* 3.3 39.3 - + + -
46B LEU* 4.0 20.4 - - + -
86B ILE* 3.3 24.9 - - + -
134B LEU* 2.7 46.3 + - + +
137B ARG* 1.3 72.9 - - - +
139B SER* 1.3 57.9 + - - +
141B THR* 3.1 3.3 + - - -
142B GLN 2.9 23.9 + - - -
157B ILE* 3.3 25.6 - - + +
160B ILE* 3.8 18.4 - - + -
161B LEU* 3.3 18.4 - - + -
164B LEU* 3.5 28.3 - - + -
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Residues in contact with SER 139 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B SER* 2.9 20.8 + - - -
136B THR* 3.6 10.0 - - - -
137B ARG 3.2 0.2 - - - -
138B PHE* 1.3 77.4 - - - +
140B GLN* 1.3 61.8 + - - +
142B GLN* 3.2 6.2 + - - +
143B VAL* 3.0 29.8 + - - +
161B LEU* 4.0 19.8 - - - +
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Residues in contact with GLN 140 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B GLN* 3.7 8.2 - - - +
136B THR* 3.1 18.1 + - - +
137B ARG* 2.6 49.8 + - - +
138B PHE 3.2 0.6 - - - -
139B SER* 1.3 76.9 - - - +
141B THR* 1.3 59.0 + - - +
143B VAL* 3.3 8.6 + - - +
144B LEU* 3.0 33.4 + - + +
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Residues in contact with THR 141 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ILE* 4.6 8.1 - - + -
38B GLN* 3.0 22.9 + - + +
39B LEU* 3.7 28.3 - - + -
42B HIS* 2.6 26.9 + - - +
137B ARG 3.4 0.4 + - - -
138B PHE 3.1 8.2 + - - -
140B GLN* 1.3 76.5 - - - +
142B GLN* 1.3 60.4 + - - +
144B LEU* 3.1 8.9 + - - +
145B ALA* 2.8 28.8 + - - +
153B THR* 4.4 7.2 - - + -
157B ILE* 4.0 14.8 - - + -
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Residues in contact with GLN 142 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B PHE 2.9 8.8 + - - +
139B SER* 3.6 9.9 - - - +
141B THR* 1.3 75.6 - - - +
143B VAL* 1.3 76.9 + - + +
145B ALA* 3.4 5.7 + - - +
146B ALA* 2.8 33.2 + - - +
154B ASP* 2.8 35.5 - - - +
157B ILE* 3.6 26.7 - - + +
158B THR* 4.4 1.8 - - - +
161B LEU* 4.1 7.9 - - + -
149J GLY* 4.3 15.4 + - - +
151J ALA* 3.6 30.8 - - + +
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Residues in contact with VAL 143 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B SER* 3.0 19.7 + - - +
140B GLN* 3.5 10.3 - - - +
141B THR 3.2 0.2 - - - -
142B GLN* 1.3 92.9 - - - +
144B LEU* 1.3 64.4 + - + +
146B ALA* 3.3 2.4 + - - +
147B GLU* 2.9 55.0 + - + +
149J GLY* 5.5 8.1 - - - +
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Residues in contact with LEU 144 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ALA* 6.0 2.0 - - + +
34B ALA* 4.2 30.1 - - + +
35B ILE* 4.0 13.7 - - + +
38B GLN* 4.0 27.6 - - + -
140B GLN* 3.0 18.0 + - + +
141B THR* 3.5 8.1 - - - +
143B VAL* 1.3 78.7 - - + +
145B ALA* 1.3 60.6 + - - +
147B GLU* 3.9 10.8 - - - +
148B SER* 2.9 29.5 + - - -
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Residues in contact with ALA 145 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ILE* 3.8 7.8 - - + +
141B THR 2.8 16.4 + - - +
142B GLN* 3.7 3.8 - - - +
144B LEU* 1.3 76.6 - - - +
146B ALA* 1.3 62.9 + - - +
148B SER* 3.3 6.0 + - - -
149B GLY 3.0 4.0 + - - -
150B ASP* 2.9 50.9 + - + +
153B THR* 4.1 12.3 - - + -
154B ASP* 3.8 17.5 - - - +
----------------------------------------------------------
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Residues in contact with ALA 146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B GLN* 2.8 30.7 + - - +
143B VAL* 3.7 3.8 - - - +
145B ALA* 1.3 76.8 - - - +
147B GLU* 1.3 63.9 + - + +
149B GLY* 3.3 11.7 + - - -
150B ASP 5.8 0.2 - - - -
154B ASP* 3.5 21.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B SER* 4.8 2.8 - - - -
143B VAL* 2.9 42.4 + - + +
144B LEU* 4.0 11.1 - - - +
146B ALA* 1.3 79.7 - - + +
148B SER* 1.3 59.5 + - - +
----------------------------------------------------------
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Residues in contact with SER 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B SER* 3.3 37.6 - - - -
23B ALA 4.8 3.6 - - - +
27B PRO* 3.7 13.9 - - - +
31B ALA* 3.6 20.0 - - - -
35B ILE* 3.5 17.7 - - - +
144B LEU 2.9 20.8 + - - -
145B ALA 3.3 6.2 + - - -
147B GLU* 1.3 76.7 - - - +
149B GLY* 1.3 59.2 + - - +
150B ASP* 3.4 4.9 + - - +
----------------------------------------------------------
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Residues in contact with GLY 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B ALA 5.6 1.3 - - - -
24B PRO 4.1 18.0 - - - +
27B PRO* 4.7 3.3 - - - +
145B ALA 3.0 5.0 + - - -
146B ALA 3.3 7.1 + - - -
147B GLU 3.3 4.2 + - - -
148B SER* 1.3 78.3 - - - +
150B ASP* 1.3 53.4 + - - +
151B ALA* 2.7 20.2 + - - +
142F GLN* 4.3 11.3 + - - -
143F VAL* 5.4 3.8 - - - -
----------------------------------------------------------
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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