Contacts of the strand formed by residues 93 - 119 (chain C) in PDB entry 3B93
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 GLY 93 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91C GLN 3.5 1.0 + - - -
92C ASN* 1.3 74.0 - - - +
94C LEU* 1.3 60.1 + - - -
95C TYR* 3.5 12.2 - - - -
141C GLU* 3.1 5.0 - - - -
142C LEU 2.8 29.8 + - - -
169C LEU* 4.0 2.0 - - - -
171C ALA 3.4 11.7 - - - -
172C ASN* 4.4 0.7 - - - -
176C ILE* 2.9 23.9 - - - +
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Residues in contact with LEU 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B MET* 3.9 24.9 - - + -
98B TYR* 3.9 28.9 - - + -
168B ILE* 3.8 29.4 - - + -
93C GLY* 1.3 71.8 - - - -
95C TYR* 1.3 59.6 + - - +
139C THR* 3.3 36.1 - - + -
140C TYR 3.6 17.7 - - - +
141C GLU* 3.8 6.7 - - + +
169C LEU* 3.8 1.7 - - - +
170C LEU* 2.8 34.4 + - + +
171C ALA* 2.9 18.1 + - + +
176C ILE* 4.8 2.0 - - - +
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Residues in contact with TYR 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C CYS* 3.5 36.6 + - - +
79C VAL* 4.8 0.7 - - + -
89C ILE* 4.0 19.3 - - + -
91C GLN* 2.5 33.4 + - - +
93C GLY* 3.5 25.6 - - - -
94C LEU* 1.3 73.9 - - - +
96C LEU* 1.3 58.1 + - - +
97C ILE* 4.0 1.6 - - + -
138C GLY 4.0 0.2 - - - +
139C THR* 3.3 6.8 - - - +
140C TYR* 2.8 35.6 + - + +
142C LEU* 3.5 22.9 - - + -
167C ILE* 3.3 28.9 - - + -
168C ILE 3.3 4.3 - - - -
169C LEU* 3.5 37.2 - - + +
170C LEU* 4.4 4.3 - - - -
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Residues in contact with LEU 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A LEU* 3.9 19.3 - - + -
139A THR* 3.7 34.8 - - + +
170A LEU* 4.0 14.6 - - + -
96B LEU* 5.6 0.9 - - + -
95C TYR* 1.3 71.5 - - - +
97C ILE* 1.3 82.4 + - - +
98C TYR* 3.7 1.8 + - - +
135C ASN* 6.4 0.4 - - - +
138C GLY* 3.4 19.3 - - - +
139C THR* 4.4 7.4 - - - +
167C ILE* 3.2 5.7 - - - +
168C ILE* 2.9 46.9 + - + +
170C LEU* 4.2 22.1 - - + +
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Residues in contact with ILE 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C TYR* 5.5 0.7 - - + -
96C LEU* 1.3 78.2 - - - +
98C TYR* 1.3 66.3 + - - +
117C LEU* 4.2 17.0 - - + -
124C ILE* 5.6 1.1 - - + -
136C VAL* 3.3 3.3 - - + +
137C GLY* 3.1 21.1 - - - -
138C GLY 2.8 28.9 + - - +
140C TYR* 4.0 21.8 - - + -
142C LEU* 5.0 2.9 - - + -
148C ILE* 4.3 21.5 - - + -
165C TRP* 3.7 37.0 - - + -
166C GLY 3.4 2.5 - - - -
167C ILE* 3.1 28.0 - - + -
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Residues in contact with TYR 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A LEU* 3.8 40.2 - - + -
139A THR* 3.7 33.2 - - + +
141A GLU* 3.2 36.2 + - + +
175A PHE* 4.3 0.7 - - - -
59C MET* 4.2 13.6 - - + +
60C ALA 4.3 1.0 + - - -
61C LYS* 4.2 9.2 - - - +
96C LEU* 4.1 8.7 - - + -
97C ILE* 1.3 75.4 - - - +
99C GLY* 1.3 63.9 + - - +
135C ASN* 5.4 0.2 - - - -
136C VAL* 3.3 13.0 - - - +
164C TYR* 4.0 14.4 - + - -
165C TRP* 3.1 7.1 - - - +
166C GLY* 2.8 56.9 + - - +
167C ILE* 3.5 9.0 - - - -
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Residues in contact with GLY 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A THR 4.8 0.9 + - - +
140A TYR* 5.8 1.6 - - - -
98C TYR* 1.3 87.3 - - - +
100C GLN* 1.3 63.5 + - - +
135C ASN* 3.2 12.3 + - - +
136C VAL* 3.1 29.8 + - - -
164C TYR* 3.1 18.4 - - - -
165C TRP* 3.5 3.8 - - - -
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Residues in contact with GLN 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LYS* 4.8 14.8 + - - +
124A ILE* 5.8 1.2 - - - +
140A TYR* 5.2 7.6 - - + -
99C GLY* 1.3 75.2 - - - +
101C VAL* 1.3 62.5 + - - +
102C ALA 2.6 33.3 + - - +
103C PRO* 3.4 15.8 - - - +
134C GLN* 3.5 25.9 - - - +
136C VAL* 3.6 2.6 - - - +
163C THR* 3.0 13.7 + - - +
164C TYR* 2.8 69.2 + - + +
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Residues in contact with VAL 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLN* 1.3 75.4 - - - +
102C ALA* 1.3 66.1 + - + +
115C VAL* 4.4 21.5 - - + -
127C LEU* 4.5 18.8 - - + -
134C GLN* 3.8 23.2 + - + +
136C VAL* 4.4 15.5 - - + -
150C LEU* 5.3 10.5 - - + -
163C THR* 3.7 28.0 - - + -
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Residues in contact with ALA 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLN* 2.6 31.8 + - - +
101C VAL* 1.3 77.2 - - + +
103C PRO* 1.4 84.2 - - + +
134C GLN* 3.8 24.0 - - + +
163C THR* 4.4 6.8 + - - +
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Residues in contact with PRO 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LYS* 6.3 0.9 - - - +
122A ASP* 4.4 32.3 - - + +
124A ILE* 6.5 0.4 - - + -
100C GLN* 3.4 16.8 - - - +
102C ALA* 1.4 103.8 - - + +
134C GLN* 4.9 3.7 - - + -
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Residues in contact with VAL 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C VAL* 4.4 23.3 - - + -
116C ARG* 1.3 71.4 + - - +
126C THR* 3.6 6.2 + - - -
127C LEU* 3.3 47.7 + - + +
150C LEU* 4.5 8.5 - - + -
151C ILE 3.6 11.4 - - - +
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Residues in contact with ARG 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C VAL* 1.3 84.3 - - - +
117C LEU* 1.3 60.0 + - - +
118C TYR* 2.6 52.4 + - + -
123C MET* 3.6 36.9 - - - +
125C GLN 3.9 2.9 - - - +
126C THR* 3.9 10.9 + - - -
149C ASP 3.7 1.4 - - - +
150C LEU* 3.4 8.3 - - - +
151C ILE* 2.8 50.1 + - + +
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Residues in contact with LEU 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C ILE* 4.2 16.4 - - + -
115C VAL 4.3 0.6 - - - -
116C ARG* 1.3 71.9 - - - +
118C TYR* 1.3 59.0 + - - +
123C MET* 3.4 6.1 - - - +
124C ILE* 2.9 51.1 + - + -
125C GLN* 2.9 28.9 + - + +
136C VAL* 4.5 8.7 - - + -
137C GLY* 3.8 32.5 - - - +
140C TYR* 4.4 2.0 - - + +
148C ILE* 3.7 24.9 - - + -
149C ASP 3.6 6.7 - - - +
150C LEU* 4.2 18.8 - - + +
165C TRP* 4.9 3.1 - - + -
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Residues in contact with TYR 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C ARG* 2.6 66.9 + - + -
117C LEU* 1.3 72.5 - - - +
119C LYS* 1.3 58.2 + - - +
120C ASN 3.9 10.5 + - - +
121C LYS 3.7 13.7 - - - -
122C ASP* 3.1 26.7 - - - -
123C MET* 3.1 21.3 - - + -
124C ILE* 4.2 4.3 - - - -
147C THR 3.7 0.2 - - - +
148C ILE* 3.2 8.8 - - - +
149C ASP* 2.9 43.7 + - + +
151C ILE* 3.7 29.4 - - + -
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Residues in contact with LYS 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B GLN* 5.3 10.8 - - - +
164B TYR* 6.0 0.9 - - - -
118C TYR* 1.3 70.0 - - - +
120C ASN* 1.3 80.0 + - - +
121C LYS 3.2 1.4 + - - -
122C ASP* 2.8 24.7 + - - +
124C ILE* 3.8 33.8 - - + +
140C TYR* 5.3 6.3 - - + -
141C GLU 3.9 14.4 + - - +
142C LEU* 3.7 20.4 - - + +
143C HIS* 4.6 7.1 - - - -
146C ASP* 3.0 34.5 + - - -
147C THR 3.2 8.5 - - - +
148C ILE* 4.5 3.1 - - + -
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Residues in contact with ASN 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C LYS* 6.0 0.9 - - - -
118C TYR* 3.9 13.0 - - - +
119C LYS* 1.3 83.8 - - - +
121C LYS* 1.3 74.2 + - + +
122C ASP* 3.6 2.6 + - - +
145C GLY 4.0 4.7 - - - +
146C ASP* 2.8 30.6 + - - -
147C THR* 2.7 53.9 + - - +
149C ASP* 5.8 1.4 - - - +
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Residues in contact with LYS 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C TYR* 3.7 13.3 - - - -
120C ASN* 1.3 87.2 - - + +
122C ASP* 1.3 69.5 + - - +
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Residues in contact with ASP 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C TYR* 3.1 8.0 - - - -
119C LYS 2.8 35.3 + - - +
120C ASN* 5.0 1.9 - - - +
121C LYS* 1.3 87.2 + - - +
123C MET* 1.3 62.8 + - - +
124C ILE* 4.3 2.9 - - - +
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Residues in contact with MET 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ILE 5.1 6.2 - - - +
116C ARG* 3.6 24.5 - - - +
117C LEU 3.4 3.8 - - - +
118C TYR* 3.1 29.5 - - + -
122C ASP* 1.3 76.3 - - - +
124C ILE* 1.3 65.0 + - - +
125C GLN* 3.7 16.8 - - - +
126C THR* 3.1 39.5 - - + -
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Residues in contact with ILE 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ILE* 5.8 3.5 - - + +
135B ASN* 3.8 15.1 + - - +
97C ILE* 5.6 0.9 - - + -
117C LEU* 2.9 40.3 + - + +
118C TYR 4.4 0.9 - - - +
119C LYS* 3.8 43.5 - - + +
122C ASP 4.3 2.5 - - - +
123C MET* 1.3 78.6 - - - +
125C GLN* 1.3 63.9 + - - +
140C TYR* 3.6 48.3 + - + +
142C LEU* 6.2 0.4 - - + -
148C ILE* 5.3 7.2 - - + -
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Residues in contact with GLN 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B ASN* 5.6 1.6 + - - +
116C ARG* 3.9 0.3 - - - -
117C LEU* 2.9 43.9 + - + +
123C MET* 3.7 6.4 - - - +
124C ILE* 1.3 82.2 - - - +
126C THR* 1.3 66.1 + - - +
127C LEU* 4.0 15.4 + - - +
135C ASN 3.2 24.2 + - - -
136C VAL* 3.5 10.2 - - - +
137C GLY* 2.6 40.6 + - - +
140C TYR* 4.2 3.1 + - - +
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Residues in contact with THR 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C VAL 3.6 7.6 + - - -
116C ARG* 3.9 14.2 + - - -
123C MET* 3.1 32.9 - - + -
125C GLN* 1.3 76.4 - - - +
127C LEU* 1.3 62.0 + - - +
128C THR* 3.6 12.6 + - - +
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Residues in contact with LEU 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C VAL* 4.5 22.0 - - + -
115C VAL* 3.3 37.0 + - + +
125C GLN* 4.0 17.0 - - - +
126C THR* 1.3 73.5 - - - +
128C THR* 1.3 58.9 + - - +
131C SER* 5.7 0.9 - - - -
134C GLN* 6.2 2.7 - - - -
135C ASN 5.7 2.5 - - - +
136C VAL* 5.7 5.2 - - + -
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Residues in contact with THR 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C THR* 4.0 11.2 - - - +
127C LEU* 1.3 76.6 - - - +
131C SER* 3.6 42.4 + - - -
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Residues in contact with SER 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C LEU* 5.7 0.9 - - - -
128C THR* 3.6 54.5 + - - -
132C LYS* 1.3 52.8 + - - +
133C ILE 2.5 35.9 + - - +
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Residues in contact with LYS 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A MET* 4.7 2.3 - - - +
124A ILE 4.6 0.2 - - - -
125A GLN* 3.2 5.4 - - + +
126A THR* 2.8 69.1 + - + +
127A LEU* 3.9 7.0 - - + +
128A THR* 3.3 41.6 + - - +
129A ASN* 3.7 14.1 - - - +
134A GLN* 3.9 12.1 + - - -
131C SER* 1.3 64.6 - - - +
133C ILE* 1.3 55.5 + - - +
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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