Contacts of the helix formed by residues 133 - 160 (chain G) in PDB entry 5VOT
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 ASN 133 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131G ARG* 3.2 4.9 - - + -
132G HIS* 1.3 79.4 - - - +
134G ILE* 1.3 65.0 + - - +
135G ILE 3.2 2.0 - - - -
136G LEU* 3.4 15.0 + - + +
137G SER* 3.5 9.2 + - - -
201G PHE* 4.0 9.0 - - + -
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Residues in contact with ILE 134 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121G CYS* 5.1 4.5 - - + +
124G ALA* 5.8 2.0 - - + +
125G SER* 4.9 15.9 - - - -
131G ARG* 3.8 17.7 + - + +
132G HIS 3.8 0.2 - - - -
133G ASN* 1.3 75.2 - - - +
135G ILE* 1.3 65.8 + - - +
137G SER* 2.3 31.0 + - - +
138G ALA* 2.9 7.5 + - - +
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Residues in contact with ILE 135 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125G SER* 4.6 15.9 - - - -
131G ARG 5.3 0.2 + - - -
132G HIS 5.1 1.7 - - - +
133G ASN* 3.2 1.2 - - - +
134G ILE* 1.3 78.9 - - - +
136G LEU* 1.3 56.2 + - - +
138G ALA* 3.0 11.8 + - - +
139G GLY* 2.9 23.6 + - - -
197G ALA* 5.9 3.4 - - - +
198G VAL* 5.3 1.6 - - - +
201G PHE* 3.6 27.8 - - + +
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Residues in contact with LEU 136 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542B LEU* 5.9 0.2 - - - +
133G ASN* 3.4 8.9 + - + +
134G ILE 3.2 0.4 - - - -
135G ILE* 1.3 78.8 - - - +
137G SER* 1.3 56.1 + - - +
139G GLY* 3.0 3.3 + - - +
140G ILE* 2.9 30.0 + - - +
198G VAL* 5.3 4.2 - - - +
201G PHE* 3.4 40.4 - - + -
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Residues in contact with SER 137 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121G CYS* 4.9 5.0 - - - +
133G ASN 3.5 5.7 + - - -
134G ILE* 2.3 33.8 + - - +
136G LEU* 1.3 77.8 - - - +
138G ALA* 1.3 56.6 + - - +
140G ILE* 4.6 4.3 - - - +
141G PHE* 2.9 59.8 + - - +
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Residues in contact with ALA 138 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118G GLY* 4.7 3.9 - - - +
121G CYS* 3.6 36.1 - - + +
122G ILE* 4.3 8.7 - - + +
134G ILE 2.9 11.5 + - - +
135G ILE* 3.2 16.2 - - - +
137G SER* 1.3 77.3 + - - +
139G GLY* 1.3 50.6 + - - +
141G PHE* 4.8 0.9 - - - -
142G PHE* 2.5 41.5 + - - +
197G ALA* 6.2 2.9 - - + -
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Residues in contact with GLY 139 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542B LEU* 4.4 2.0 - - - -
135G ILE 2.9 12.2 + - - -
136G LEU 3.0 3.7 + - - -
138G ALA* 1.3 74.8 - - - +
140G ILE* 1.3 60.1 + - - +
142G PHE* 4.3 3.1 - - - -
143G VAL* 2.9 37.3 + - - +
194G GLY 5.4 0.9 - - - -
197G ALA* 5.5 5.1 - - - +
198G VAL* 3.6 29.6 - - - -
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Residues in contact with ILE 140 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542B LEU* 4.5 12.0 - - + +
807C MET* 4.1 21.3 - - + +
811C LEU* 4.5 22.4 - - + -
136G LEU 2.9 18.5 + - - +
137G SER* 4.2 3.4 - - - +
139G GLY* 1.3 69.5 - - - +
141G PHE* 1.3 64.2 + - + +
143G VAL* 5.3 0.4 - - - -
144G SER* 2.4 40.3 + - - -
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Residues in contact with PHE 141 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811C LEU* 6.0 4.7 - - + -
114G LEU* 5.1 5.1 - - - +
117G MET* 5.9 7.4 - - + -
118G GLY* 5.4 9.2 - - - +
121G CYS* 5.6 5.4 - - + -
137G SER* 2.9 40.2 + - - +
138G ALA* 4.5 2.0 - - - +
140G ILE* 1.3 82.0 - - + +
142G PHE* 1.3 57.5 + - - +
144G SER* 2.9 5.9 + - - -
145G ALA* 2.9 31.0 + - - +
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Residues in contact with PHE 142 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G THR* 6.3 2.5 - - + -
16G GLY 5.4 0.7 - - - -
17G ALA* 4.7 24.9 - - + -
20G ALA* 5.9 1.3 - - + -
114G LEU 5.7 0.4 - - - -
115G LEU* 3.8 27.9 - - + +
118G GLY* 4.4 22.2 - - - -
138G ALA* 2.5 26.3 + - + +
139G GLY* 3.7 2.2 - - - +
141G PHE* 1.3 75.5 - - - +
143G VAL* 1.3 66.7 + - + +
145G ALA* 3.1 9.5 + - - +
146G GLY* 3.0 16.3 + - - -
190G ALA* 2.9 42.3 - - + +
193G VAL* 4.0 10.8 - - + -
194G GLY* 3.3 27.1 - - - -
197G ALA* 5.7 2.9 - - + -
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Residues in contact with VAL 143 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538B VAL* 3.6 30.5 - - + -
539B VAL* 4.3 18.2 - - + -
542B LEU* 4.9 13.0 - - + -
807C MET* 6.3 1.8 - - + -
139G GLY 2.9 23.1 + - - +
140G ILE* 5.3 0.2 - - - -
142G PHE* 1.3 73.4 - - + +
144G SER* 1.3 56.3 + - - +
146G GLY* 2.7 23.2 + - - +
147G LEU* 2.9 11.2 + - + +
190G ALA 6.1 0.2 - - - -
191G GLU* 4.5 12.7 - - + +
194G GLY* 3.6 36.3 - - - +
198G VAL* 5.9 0.2 - - + -
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Residues in contact with SER 144 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
539B VAL* 5.8 2.9 - - - +
807C MET* 4.2 22.3 - - - +
140G ILE 2.4 27.5 + - - -
141G PHE* 2.9 12.1 + - - -
143G VAL* 1.3 76.7 - - - +
145G ALA* 1.3 65.2 + - - +
147G LEU* 3.0 10.8 + - - +
148G SER* 2.9 22.3 + - - -
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Residues in contact with ALA 145 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111G SER* 4.3 3.4 - - - +
114G LEU* 3.5 30.3 - - + -
115G LEU* 3.8 20.6 - - + +
141G PHE 2.9 15.8 + - - +
142G PHE 3.1 8.1 - - - +
144G SER* 1.3 81.7 + - - +
146G GLY* 1.3 60.4 + - - +
148G SER* 2.4 27.4 + - - -
149G ASN* 2.9 9.7 + - - +
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Residues in contact with GLY 146 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115G LEU* 4.4 7.3 - - - +
142G PHE 3.0 8.6 + - - -
143G VAL* 2.7 16.1 + - - -
145G ALA* 1.3 70.9 - - - +
147G LEU* 1.3 60.9 + - - -
149G ASN* 2.9 20.1 + - - +
150G ILE 3.0 10.7 + - - -
187G PHE* 3.3 18.5 - - - -
190G ALA* 5.2 10.5 - - - -
191G GLU* 5.7 4.0 - - - -
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Residues in contact with LEU 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535B GLY* 6.0 4.7 - - - -
539B VAL* 5.1 12.6 - - + -
800C VAL* 5.2 7.0 - - + +
803C LEU* 4.9 20.2 - - + -
143G VAL* 2.9 10.8 + - + +
144G SER* 3.0 12.1 + - - +
146G GLY* 1.3 74.0 - - - +
148G SER* 1.3 63.2 + - - +
150G ILE* 3.0 6.0 + - - +
151G ILE* 2.9 22.4 + - - +
187G PHE* 4.2 9.3 - - - -
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Residues in contact with SER 148 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800C VAL* 5.7 2.7 - - - +
107G PHE* 4.3 12.6 - - - +
110G LEU* 5.0 4.8 + - - -
111G SER* 4.2 12.7 + - - -
114G LEU* 5.3 0.5 - - - +
144G SER 2.9 9.9 + - - -
145G ALA* 2.4 34.1 + - - -
147G LEU* 1.3 75.8 - - - +
149G ASN* 1.3 62.0 + - - +
151G ILE* 3.3 9.0 + - - +
152G GLY* 2.9 20.3 + - - -
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Residues in contact with ASN 149 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G MET* 5.0 6.2 - - - +
107G PHE 5.2 0.4 - - - -
108G PRO* 5.2 7.3 - - - +
111G SER* 3.7 22.3 - - - -
115G LEU* 4.9 11.2 - - + +
145G ALA 2.9 11.7 + - - +
146G GLY* 2.9 17.9 + - - +
148G SER* 1.3 78.4 + - - +
150G ILE* 1.3 61.9 + - - +
152G GLY* 3.0 3.6 + - - -
153G ILE* 2.9 23.6 + - - +
183G GLY* 4.2 8.1 + - - +
186G SER* 3.5 24.4 + - - -
187G PHE* 4.3 12.6 - - + +
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Residues in contact with ILE 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531B PHE* 4.7 16.9 - - + -
532B ALA* 5.6 1.6 - - - +
796C PHE* 5.4 7.6 - - + -
146G GLY 3.0 6.5 + - - -
147G LEU* 3.4 8.7 - - - +
149G ASN* 1.3 74.1 - - - +
151G ILE* 1.3 64.6 + - - +
153G ILE* 3.0 10.8 + - - +
154G ILE* 2.9 21.6 + - - +
187G PHE* 3.4 37.1 - - + -
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Residues in contact with ILE 151 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
796C PHE* 4.5 7.6 - - + -
800C VAL* 4.0 30.7 - - + +
107G PHE* 5.0 2.0 - - + -
147G LEU 2.9 12.3 + - - +
148G SER* 3.5 10.8 - - - +
150G ILE* 1.3 74.5 - - - +
152G GLY* 1.3 59.0 + - - +
154G ILE* 3.1 10.6 + - - +
155G VAL* 2.9 34.2 + - + +
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Residues in contact with GLY 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G PHE* 3.5 26.1 - - - +
108G PRO* 4.6 13.6 - - - +
148G SER 2.9 12.3 + - - -
149G ASN 3.0 3.8 + - - -
151G ILE* 1.3 76.4 - - - +
153G ILE* 1.3 62.4 + - - +
155G VAL* 2.9 17.3 + - - +
156G TYR* 2.9 14.8 + - - +
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Residues in contact with ILE 153 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528B CYS* 5.8 2.0 - - - -
531B PHE* 5.1 15.9 - - + -
149G ASN* 2.9 16.7 + - - +
150G ILE* 3.4 11.2 - - - +
152G GLY* 1.3 74.5 - - - +
154G ILE* 1.3 63.7 + - - +
156G TYR* 3.4 5.8 + - - +
157G ILE* 2.9 26.3 + - - +
180G PHE* 5.0 13.9 - - + -
183G GLY 6.5 0.9 - - - -
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Residues in contact with ILE 154 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528B CYS* 4.8 16.5 - - + -
792C VAL* 6.0 4.5 - - + -
793C ALA* 6.0 3.3 - - + +
796C PHE* 4.0 28.5 - - + -
797C TYR* 5.9 4.5 - - + -
150G ILE 2.9 11.0 + - - +
151G ILE 3.3 9.0 - - - +
153G ILE* 1.3 75.9 - - - +
155G VAL* 1.3 58.4 + - + +
157G ILE* 3.8 5.9 - - - +
158G SER* 2.9 30.5 + - - -
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Residues in contact with VAL 155 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797C TYR* 4.6 22.9 - - + +
98G LEU 5.6 1.6 - - - +
101G VAL* 4.0 34.1 - - + +
102G ARG* 5.1 5.8 - - - +
107G PHE* 5.1 5.4 - - + -
108G PRO* 6.4 0.2 - - + -
151G ILE* 2.9 23.3 + - + +
152G GLY* 2.9 12.8 + - - +
154G ILE* 1.3 76.4 - - - +
156G TYR* 1.3 62.9 + - - +
158G SER* 2.3 28.3 + - - +
159G ALA* 2.9 11.0 + - + +
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Residues in contact with TYR 156 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G TYR* 5.6 5.4 - - + -
33G TRP* 3.1 32.6 - - + +
61G SER* 4.9 4.9 - - - -
63G LEU* 4.8 26.1 + - + -
102G ARG* 6.0 2.9 - - - +
152G GLY 2.9 13.3 + - - +
153G ILE* 3.9 5.2 - - - +
155G VAL* 1.3 77.2 - - - +
157G ILE* 1.3 69.3 + - - +
158G SER 3.0 0.9 + - - -
159G ALA* 4.0 3.0 - - + -
160G ASN* 3.1 39.7 + - + +
176G TYR* 6.0 5.2 - + - -
180G PHE* 4.4 23.3 - + - -
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Residues in contact with ILE 157 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528B CYS* 5.1 11.9 - - - -
789C LEU* 5.9 2.9 - - - +
153G ILE 2.9 19.5 + - - +
154G ILE* 3.9 5.8 - - - +
156G TYR* 1.3 82.0 - - - +
158G SER* 1.3 63.4 + - - +
160G ASN* 4.1 10.3 + - - +
161G ALA* 4.8 0.7 + - - +
174G TYR* 5.7 0.7 + - - -
176G TYR* 5.7 8.1 - - + +
180G PHE* 4.7 17.3 - - + -
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Residues in contact with SER 158 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789C LEU* 5.5 11.2 - - - -
793C ALA* 5.2 10.1 - - - -
797C TYR* 4.4 11.5 + - - -
154G ILE 2.9 14.5 + - - -
155G VAL* 2.3 32.1 + - - +
157G ILE* 1.3 78.2 - - - +
159G ALA* 1.3 62.2 + - - +
160G ASN 3.0 10.1 + - - -
161G ALA* 3.3 16.3 + - - +
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Residues in contact with ALA 159 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G LEU* 4.7 14.4 - - + +
99G ARG* 5.6 0.9 - - - +
102G ARG* 3.9 28.7 - - + -
155G VAL* 2.9 17.3 + - + +
156G TYR* 4.6 2.9 - - + +
158G SER* 1.3 78.5 + - - +
160G ASN* 1.3 55.6 + - - +
161G ALA 2.9 18.2 - - - +
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Residues in contact with ASN 160 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156G TYR* 3.1 36.7 + - + +
157G ILE* 4.1 9.0 - - - +
158G SER 3.0 1.4 + - - -
159G ALA* 1.3 77.6 - - - +
161G ALA* 1.3 58.7 + - - +
174G TYR* 5.7 6.3 - - + +
----------------------------------------------------------
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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