Contacts of the helix formed by residues 145 - 169 (chain B) in PDB entry 3BUN
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 SER 145 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ARG* 2.6 30.4 + - - -
142B GLU* 2.8 29.4 + - - -
143B GLU 3.3 0.6 + - - -
144B ASN* 1.3 78.7 - - - +
146B GLN* 1.3 65.1 + - - +
147B PRO* 3.5 9.5 - - - +
148B ARG* 3.0 16.3 + - - +
149B ARG* 3.0 14.2 + - - +
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Residues in contact with GLN 146 (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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139B ARG* 5.3 3.8 - - - +
144B ASN 3.9 1.4 + - - -
145B SER* 1.3 71.0 - - - +
147B PRO* 1.3 71.1 - - + +
149B ARG* 3.0 31.2 + - - +
150B ASN* 2.9 42.1 + - - +
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Residues in contact with PRO 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B LEU* 3.4 26.6 - - + +
136B GLY* 4.3 8.1 - - - -
139B ARG* 3.5 51.4 - - + +
140B MET* 3.7 22.3 - - - +
145B SER* 3.2 15.0 - - - +
146B GLN* 1.3 96.9 - - + +
148B ARG* 1.3 60.0 + - - +
150B ASN* 3.4 3.3 + - - +
151B LEU 3.2 15.6 + - - -
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Residues in contact with ARG 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B LEU* 2.7 48.5 + - - +
76B ALA 4.6 0.8 + - - -
77B LEU* 4.1 19.8 - - - +
78B LYS* 4.5 6.3 - - - +
140B MET* 2.9 32.3 + - - +
141B TYR* 4.1 8.3 + - - +
142B GLU 4.1 7.2 - - - +
143B GLU* 3.6 34.7 + - - +
144B ASN 4.9 0.2 - - - +
145B SER* 3.0 19.2 + - - +
147B PRO* 1.3 78.7 - - - +
149B ARG* 1.3 65.8 + - - +
151B LEU* 3.0 31.3 + - - +
152B THR* 3.1 19.5 + - - +
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Residues in contact with ARG 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B GLU* 5.8 1.6 - - - +
144B ASN* 2.9 43.1 + - - +
145B SER 3.0 13.8 + - - +
146B GLN* 3.0 37.4 + - - +
148B ARG* 1.3 75.2 - - + +
150B ASN* 1.3 58.6 + - - +
152B THR* 3.1 10.3 + - - -
153B LYS* 3.0 27.9 + - - +
276B GLU* 4.8 14.6 - - - +
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Residues in contact with ASN 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B LEU* 3.9 23.2 - - + +
146B GLN* 2.9 38.7 + - - +
147B PRO* 3.6 8.4 - - - +
149B ARG* 1.3 78.2 - - - +
151B LEU* 1.3 56.5 + - - +
153B LYS* 3.4 11.2 + - - +
154B LEU* 3.0 37.8 + - + +
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Residues in contact with LEU 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B CYS* 4.3 11.4 - - - -
75B LEU* 4.1 11.7 - - + -
77B LEU* 5.6 7.4 - - + -
84B ILE* 5.6 4.7 - - + -
129B THR* 4.0 18.2 - - + -
132B LEU* 3.5 14.3 - - + +
133B PHE* 3.9 37.7 - - + -
140B MET* 3.9 12.1 - - + -
147B PRO 3.2 3.0 + - - -
148B ARG* 3.0 31.2 + - - +
150B ASN* 1.3 77.2 - - - +
152B THR* 1.3 58.7 + - - +
154B LEU* 3.4 5.0 + - + +
155B SER* 2.8 38.4 + - - +
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Residues in contact with THR 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B PRO* 5.4 0.4 - - + -
148B ARG* 3.1 21.0 + - - +
149B ARG* 3.1 11.7 + - - -
151B LEU* 1.3 75.9 - - - +
153B LYS* 1.3 64.7 + - - +
155B SER* 3.2 10.2 + - - -
156B LEU* 3.0 21.3 + - - +
271B PHE 5.7 0.2 - - - +
273B THR* 3.6 17.3 - - + +
276B GLU* 3.5 39.4 + - + +
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Residues in contact with LYS 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B ARG 3.0 14.5 + - - +
150B ASN* 3.8 11.9 - - - +
151B LEU 3.3 0.2 - - - -
152B THR* 1.3 76.2 - - - +
154B LEU* 1.3 59.0 + - + +
156B LEU* 3.2 9.2 + - - +
157B ILE* 2.8 43.3 + - + +
232B CYS* 4.3 9.7 - - - -
271B PHE* 3.5 59.9 - - + +
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Residues in contact with LEU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B ILE* 6.1 0.2 - - + -
125B LYS* 4.2 14.1 - - + +
128B GLN* 4.1 24.5 - - + +
129B THR* 3.6 31.0 - - - +
132B LEU* 4.3 14.8 - - + -
150B ASN* 3.0 33.3 + - + +
151B LEU* 3.6 9.0 - - + +
153B LYS* 1.3 76.3 - - + +
155B SER* 1.3 55.7 + - - +
157B ILE* 2.9 23.1 + - + +
158B PHE* 2.6 46.2 + - + -
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Residues in contact with SER 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B LEU* 6.1 0.7 - - - +
82B PRO* 3.9 25.1 + - - -
84B ILE* 4.1 23.0 - - - +
87B LEU* 3.5 11.7 - - - +
151B LEU* 2.8 25.6 + - - +
152B THR* 3.3 12.2 - - - -
154B LEU* 1.3 75.2 - - - +
156B LEU* 1.3 63.5 + - - +
158B PHE* 3.2 10.3 + - - -
159B SER* 3.0 18.0 + - - -
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Residues in contact with LEU 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B PRO* 3.9 12.5 - - + +
152B THR 3.0 11.5 + - - +
153B LYS* 3.2 9.6 - - - +
154B LEU 3.1 0.2 - - - -
155B SER* 1.3 76.9 - - - +
157B ILE* 1.3 61.1 + - - +
159B SER* 3.1 5.0 + - - -
160B HIS* 3.0 52.5 + - + +
271B PHE* 3.4 50.9 - - + +
272B LEU 3.8 13.5 - - - +
273B THR* 4.3 7.6 - - + -
295B LEU 6.0 1.3 - - - +
297B CYS* 4.0 27.8 - - + -
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Residues in contact with ILE 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B LYS* 4.0 9.9 - - + -
153B LYS* 2.8 35.1 + - + +
154B LEU* 2.9 26.7 + - + +
156B LEU* 1.3 73.4 - - - +
158B PHE* 1.3 65.2 + - - +
160B HIS* 3.2 2.5 + - - +
161B MET* 2.9 43.5 + - + +
230B LEU 3.8 18.6 - - - +
231B THR* 3.8 21.3 - - - +
232B CYS* 3.4 26.5 - - + -
271B PHE* 4.1 11.4 - - + -
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Residues in contact with PHE 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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66B VAL* 5.2 1.3 - - + -
84B ILE* 3.4 27.8 - - + -
87B LEU* 4.3 18.0 - - + +
88B LEU* 3.8 25.4 - - + -
91B THR* 4.9 5.6 + - + +
122B LEU* 4.2 9.2 - - + -
125B LYS* 4.0 20.0 - - + -
126B THR* 3.9 21.5 - - + -
129B THR* 3.6 27.1 - - + -
154B LEU* 2.6 36.5 + - + -
155B SER* 3.5 6.3 - - - +
157B ILE* 1.3 72.7 - - - +
159B SER* 1.3 58.3 + - - +
161B MET* 3.1 27.8 - - + +
162B LEU* 3.0 30.1 + - - +
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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
----------------------------------------------------------
82B PRO* 4.0 2.1 - - - +
87B LEU* 3.8 26.4 - - - +
155B SER 3.0 12.7 + - - -
156B LEU 3.1 9.6 + - - -
158B PHE* 1.3 77.7 - - - +
160B HIS* 1.3 58.8 + - - +
162B LEU* 3.4 2.9 + - - +
163B ALA* 3.0 28.6 + - - +
297B CYS* 3.4 35.8 + - - -
300B LEU* 5.5 0.7 - - - -
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Residues in contact with HIS 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B LEU* 3.0 45.9 + - + +
157B ILE 3.8 4.5 - - - +
159B SER* 1.3 75.0 + - - +
161B MET* 1.3 61.6 + - - +
163B ALA* 3.4 1.6 + - - +
164B GLU* 2.9 29.6 + - - +
230B LEU* 3.7 53.0 - - + +
231B THR* 4.3 3.2 - - + +
239B PHE* 4.5 3.3 - - + -
271B PHE* 4.2 12.0 - + - -
295B LEU* 5.2 8.5 - - + +
296B SER 5.0 0.4 - - - -
297B CYS* 4.9 8.7 + - + -
300B LEU* 3.5 38.7 - - + +
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Residues in contact with MET 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B PHE* 3.4 27.7 - - + +
121B ASN* 3.4 23.3 - - - +
122B LEU* 4.8 12.6 - - - -
125B LYS* 4.0 12.8 - - + -
157B ILE* 2.9 28.0 + - + +
158B PHE* 3.1 58.3 - - + +
160B HIS* 1.3 77.3 - - - +
162B LEU* 1.3 56.8 + - - +
164B GLU* 3.2 2.1 + - - +
165B LEU 2.8 26.0 + - - -
231B THR* 3.8 29.2 - - + -
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Residues in contact with LEU 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B LEU* 4.0 19.5 - - + -
90B ASP* 3.7 31.6 - - + +
91B THR* 3.8 32.3 + - - +
94B HIS* 4.5 7.6 - - + -
118B PHE* 5.0 2.2 - - - -
158B PHE 3.0 17.4 + - - +
159B SER 3.8 4.5 - - - +
161B MET* 1.3 77.3 - - - +
163B ALA* 1.3 63.9 + - - +
165B LEU* 3.3 9.3 + - + +
166B LYS* 3.0 53.4 + - + +
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Residues in contact with ALA 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 3.0 15.0 + - - +
160B HIS 3.6 1.3 - - - +
162B LEU* 1.3 76.9 - - - +
164B GLU* 1.3 57.2 + - - +
166B LYS* 3.2 8.8 + - - +
167B GLY* 2.9 25.8 + - - -
239B PHE* 3.7 9.2 - - + -
297B CYS 6.0 0.2 - - - +
300B LEU* 3.4 33.0 - - + -
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Residues in contact with GLU 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B TYR* 2.7 32.5 + - + +
118B PHE* 3.9 9.9 - - - +
160B HIS 2.9 18.2 + - - +
161B MET* 3.5 2.9 - - - +
163B ALA* 1.3 76.7 - - - +
165B LEU* 1.3 62.9 + - - +
167B GLY* 3.0 1.9 + - - -
168B ILE* 2.9 28.9 + - + +
199B ILE* 5.7 0.7 - - - +
231B THR* 3.6 20.2 + - + +
233B ASN* 5.4 3.9 + - - -
237B SER* 2.5 32.5 + - - +
239B PHE* 3.6 28.1 - - + -
240B GLU* 3.6 15.0 - - + +
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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
----------------------------------------------------------
91B THR* 4.8 3.6 - - + -
94B HIS* 3.8 29.2 - - + +
95B LEU* 4.2 17.3 - - + +
98B ILE* 5.2 2.5 - - + -
114B TYR* 3.6 10.7 + - + -
115B PHE* 4.8 10.1 - - + -
118B PHE* 3.6 42.8 - - + -
161B MET 2.8 20.4 + - - +
162B LEU* 3.6 12.3 - - + +
164B GLU* 1.3 73.4 - - - +
166B LYS* 1.3 58.3 + - - +
168B ILE* 4.0 0.2 - - - -
169B PHE* 2.8 57.8 + - + +
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Residues in contact with LYS 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B ASP* 5.2 9.4 + - - +
94B HIS* 3.8 39.5 - - + +
162B LEU* 3.0 46.6 + - + +
163B ALA* 3.7 6.3 - - - +
165B LEU* 1.3 76.4 - - - +
167B GLY* 1.3 58.4 + - - +
170B PRO* 3.2 31.3 - - + +
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Residues in contact with GLY 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B ALA 2.9 14.3 + - - -
164B GLU 3.0 4.4 + - - -
166B LYS* 1.3 79.0 - - - +
168B ILE* 1.3 61.6 + - - +
170B PRO* 3.7 10.4 - - - +
175B GLN* 5.4 1.7 - - - +
179B PHE* 3.7 21.0 - - - -
239B PHE* 4.2 15.3 - - - -
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Residues in contact with ILE 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B TYR* 3.7 39.5 - - + -
164B GLU* 2.9 22.4 + - + +
165B LEU 4.1 0.2 - - - +
167B GLY* 1.3 77.3 - - - +
169B PHE* 1.3 56.5 + - + +
170B PRO* 3.2 9.4 - - - +
174B PHE* 3.4 33.6 - - + -
175B GLN* 2.8 33.8 + - - -
176B GLY* 3.8 8.5 - - - +
179B PHE* 4.0 10.8 - - + -
198B THR* 3.7 17.5 - - + -
237B SER* 5.5 0.7 - - - -
238B VAL* 4.0 18.2 - - + -
239B PHE* 4.2 9.4 - - + +
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Residues in contact with PHE 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B HIS* 2.9 21.2 - - + -
98B ILE* 3.6 22.2 - - + -
102B TYR* 4.1 5.8 - + - -
109B LEU* 4.0 19.1 - - + -
112B ASN* 4.3 3.1 - - - -
114B TYR* 3.6 26.5 - + - -
115B PHE* 4.0 29.6 - + + -
165B LEU* 2.8 28.8 + - + +
166B LYS 3.5 3.4 - - - -
168B ILE* 1.3 81.7 - - + +
170B PRO* 1.3 65.8 - - - +
172B GLY 3.1 18.1 + - - -
173B LEU 3.5 2.9 - - - -
174B PHE* 3.4 47.3 - + + -
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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