Contacts of the helix formed by residues 174 - 207 (chain B) in PDB entry 2BXE
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 LYS 174 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B VAL* 3.5 19.7 - - + -
121B ASP* 5.8 2.7 - - - +
124B CYS* 4.7 2.2 - - - -
168B CYS* 3.4 27.6 - - - +
169B CYS* 4.7 7.9 - - - -
171B ALA* 3.2 11.7 + - - +
172B ALA 3.7 1.2 + - - -
173B ASP* 1.3 73.5 + - - +
175B ALA* 1.3 62.3 + - - +
177B CYS* 3.2 3.9 + - - +
178B LEU* 3.0 25.6 + - - +
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Residues in contact with ALA 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B VAL* 3.3 29.6 - - + +
173B ASP* 3.2 10.6 + - - +
174B LYS* 1.3 77.1 - - - +
176B ALA* 1.3 59.4 + - - +
177B CYS 2.9 5.7 + - - -
178B LEU 3.2 1.0 + - - -
179B LEU* 3.1 33.1 + - + +
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Residues in contact with ALA 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B ASP* 3.1 32.5 + - + +
175B ALA* 1.3 77.4 - - - +
177B CYS* 1.3 56.4 + - - +
179B LEU* 5.4 0.7 - - - -
180B PRO* 3.7 19.4 - - - +
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Residues in contact with CYS 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B GLU* 4.6 7.2 - - - -
168B CYS* 2.0 62.6 - - + -
171B ALA* 4.6 9.2 - - + -
173B ASP 3.4 10.2 + - - +
174B LYS* 3.6 8.1 - - - +
175B ALA 3.0 0.8 - - - -
176B ALA* 1.3 79.6 - - - +
178B LEU* 1.3 63.0 + - - +
180B PRO* 4.1 3.5 - - - +
181B LYS* 3.8 14.6 + - - +
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Residues in contact with LEU 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B VAL* 4.7 9.2 - - + -
164B ALA* 5.8 1.8 - - - +
165B PHE* 6.0 6.1 - - + -
168B CYS* 3.2 17.2 - - + -
169B CYS* 6.5 0.4 - - - -
174B LYS 3.0 16.6 + - - +
175B ALA 4.2 0.9 - - - +
177B CYS* 1.3 75.2 - - - +
179B LEU* 1.3 63.2 + - + +
180B PRO 3.3 2.0 - - - -
181B LYS* 2.9 5.5 + - - +
182B LEU* 2.7 53.7 + - + +
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Residues in contact with LEU 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ARG* 3.4 35.4 - - - +
120B VAL* 3.5 27.4 - - + -
175B ALA* 3.1 17.0 + - + +
176B ALA* 5.4 0.7 - - - -
178B LEU* 1.3 76.6 - - + +
180B PRO* 1.3 65.3 - - + +
182B LEU* 3.4 5.0 + - + +
183B ASP* 2.6 43.5 + - - +
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Residues in contact with PRO 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B ALA* 3.7 28.7 - - - +
177B CYS 4.1 3.1 - - - +
178B LEU 3.6 2.7 - - - -
179B LEU* 1.3 96.5 - - + +
181B LYS* 1.3 57.0 + - - +
183B ASP* 3.4 6.9 + - + +
184B GLU* 3.0 30.8 + - - +
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Residues in contact with LYS 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B ALA* 4.7 17.9 - - + -
168B CYS* 5.1 2.9 - - - -
177B CYS 3.8 12.7 + - - +
178B LEU* 2.9 9.2 + - - +
180B PRO* 1.3 76.6 - - - +
182B LEU* 1.3 66.6 + - - +
184B GLU* 3.7 10.6 + - - +
185B LEU* 3.4 27.7 + - + +
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Residues in contact with LEU 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ARG* 3.2 34.5 + - - +
123B MET* 4.4 17.0 - - + -
161B TYR* 4.3 17.9 - - + +
164B ALA* 4.2 22.4 - - + -
165B PHE* 4.3 29.6 - - + -
178B LEU* 2.7 37.4 + - + +
179B LEU* 3.8 5.8 - - + +
181B LYS* 1.3 73.2 - - + +
183B ASP* 1.3 59.4 + - - +
185B LEU* 3.3 8.1 + - + +
186B ARG* 3.1 22.5 + - - +
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Residues in contact with ASP 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ARG* 3.4 19.9 + - - -
179B LEU* 2.6 35.1 + - - +
180B PRO* 3.7 6.5 - - + +
182B LEU* 1.3 72.5 - - - +
184B GLU* 1.3 65.7 + - - +
185B LEU 2.8 6.0 + - - -
186B ARG* 2.9 24.2 + - - +
187B ASP* 3.1 13.2 + - - +
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Residues in contact with GLU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B PRO 3.0 18.5 + - - +
181B LYS* 4.1 9.1 - - - +
182B LEU 3.5 0.2 - - - -
183B ASP* 1.3 76.0 - - - +
185B LEU* 1.3 64.8 + - + +
187B ASP* 4.2 5.1 - - - +
188B GLU* 3.4 30.9 + - - +
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Residues in contact with LEU 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B TYR* 4.9 8.7 + - - +
157B PHE* 4.4 18.9 - - + +
160B ARG* 3.6 34.5 - - + +
161B TYR* 4.0 43.3 - - + +
164B ALA* 5.3 5.2 - - + -
181B LYS 3.4 15.9 + - - +
182B LEU* 3.3 10.7 + - - +
183B ASP 2.9 1.0 - - - -
184B GLU* 1.3 85.1 - - + +
186B ARG* 1.3 65.7 + - - +
187B ASP 3.2 1.6 - - - -
188B GLU* 4.2 6.6 - - - +
189B GLY* 2.9 22.3 + - - -
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Residues in contact with ARG 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ARG* 5.0 9.2 - - - +
182B LEU 3.1 11.7 + - - +
183B ASP* 2.9 20.1 + - - +
185B LEU* 1.3 78.4 - - - +
187B ASP* 1.3 61.8 + - - +
189B GLY* 4.0 0.7 - - - -
190B LYS* 3.1 56.0 + - + +
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Residues in contact with ASP 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B ASP 3.1 11.2 + - - +
184B GLU* 4.3 5.6 - - - +
186B ARG* 1.3 76.8 - - - +
188B GLU* 1.3 62.0 + - - +
190B LYS* 2.8 27.1 + - - +
191B ALA* 2.9 13.8 + - - +
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Residues in contact with GLU 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B PHE* 3.3 26.8 - - + -
160B ARG* 4.1 12.7 + - - -
184B GLU* 3.4 27.4 + - - +
185B LEU* 4.2 5.5 - - - +
187B ASP* 1.3 78.7 - - - +
189B GLY* 1.3 57.0 + - - +
191B ALA* 3.5 8.9 + - + +
192B SER* 2.9 26.4 + - - -
288B HIS* 4.1 16.6 + - - -
292B GLU* 6.2 0.2 - - - -
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Residues in contact with GLY 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B HIS* 6.1 0.4 - - - -
149B PHE* 3.3 20.6 - - - -
157B PHE* 4.0 19.2 - - - -
185B LEU 2.9 18.5 + - - -
186B ARG 4.0 0.7 - - - -
188B GLU* 1.3 75.1 - - - +
190B LYS* 1.3 60.5 + - - +
192B SER* 3.2 1.1 + - - -
193B SER* 2.8 24.8 + - - -
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Residues in contact with LYS 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B HIS* 4.9 17.9 - - + +
186B ARG* 3.1 45.1 + - + +
187B ASP* 2.8 12.3 + - - +
189B GLY* 1.3 75.3 - - - +
191B ALA* 1.3 65.6 + - - +
193B SER* 3.2 7.3 + - - -
194B ALA* 3.1 22.7 + - - +
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Residues in contact with ALA 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B ASP 2.9 10.8 + - - +
188B GLU* 3.6 13.0 - - + +
190B LYS* 1.3 76.9 - - - +
192B SER* 1.3 63.5 + - - +
194B ALA* 3.2 16.9 + - - +
195B LYS* 3.2 25.9 + - - +
436B LYS* 6.4 1.3 - - - -
452B TYR* 5.5 14.1 - - + +
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Residues in contact with SER 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B PHE* 4.0 10.1 - - - -
150B TYR* 5.1 4.5 - - - +
153B GLU* 4.8 8.5 + - - +
157B PHE* 3.9 25.5 - - - -
188B GLU* 2.9 19.3 + - - -
189B GLY 3.4 5.6 - - - -
190B LYS 3.1 0.2 - - - -
191B ALA* 1.3 77.8 - - - +
193B SER* 1.3 63.8 + - - +
195B LYS* 3.5 9.4 + - - +
196B GLN* 3.2 21.0 + - - +
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Residues in contact with SER 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B HIS* 3.0 39.0 + - - +
148B TYR* 5.3 2.9 - - - +
149B PHE* 3.7 21.5 + - - +
189B GLY 2.8 17.0 + - - -
190B LYS 3.2 6.9 + - - -
192B SER* 1.3 71.8 - - - +
194B ALA* 1.3 53.1 + - - +
196B GLN* 3.2 7.3 + - - +
197B ARG* 2.8 36.8 + - - +
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Residues in contact with ALA 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190B LYS 3.1 12.1 + - - +
191B ALA* 3.2 13.4 + - - +
193B SER* 1.3 74.1 - - - +
195B LYS* 1.3 52.3 - - - +
197B ARG* 2.9 11.1 + - - +
198B LEU* 2.9 33.4 + - - +
455B VAL* 3.1 30.3 - - + +
458B ASN* 4.6 1.0 + - - -
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Residues in contact with LYS 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B ALA* 3.2 19.8 + - - +
192B SER* 3.8 9.2 - - - +
194B ALA* 1.3 77.8 - - + +
196B GLN* 1.3 59.6 + - - +
198B LEU* 3.4 8.6 + - - +
199B LYS* 2.9 48.9 + - - +
436B LYS* 6.4 0.4 - - - +
452B TYR* 6.4 2.0 - - - -
455B VAL* 4.1 18.4 - - + +
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Residues in contact with GLN 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B TYR 3.3 24.0 - - - +
150B TYR* 3.5 39.0 - - + +
192B SER 3.2 11.4 + - - +
193B SER* 3.7 8.1 - - - +
195B LYS* 1.3 80.1 - - - +
197B ARG* 1.3 58.1 + - - +
199B LYS* 3.1 28.8 - - - +
200B CYS* 2.9 46.3 + - - -
242B HIS* 2.9 34.8 + - - +
245B CYS* 5.0 3.2 - - + +
246B CYS* 4.0 5.5 - - - -
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Residues in contact with ARG 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B ASP* 2.8 40.4 + - - -
148B TYR* 3.5 42.9 + - + -
193B SER* 2.8 15.5 + - - +
194B ALA* 2.9 12.8 + - - +
196B GLN* 1.3 76.6 - - - +
198B LEU* 1.3 55.6 + - - +
200B CYS* 3.1 9.8 + - - +
201B ALA* 2.7 56.6 + - - +
204B GLN* 4.6 5.5 + - - -
458B ASN* 3.7 12.1 - - - +
459B GLN* 6.2 0.9 - - - -
462B VAL* 3.9 24.2 - - + +
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Residues in contact with LEU 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B ALA 2.9 10.8 + - - +
195B LYS* 3.6 10.1 - - - +
197B ARG* 1.3 77.1 - - - +
199B LYS* 1.3 52.4 + - + +
201B ALA* 3.1 3.4 + - + +
202B SER* 2.8 47.0 + - - +
454B SER* 3.8 14.4 - - - +
455B VAL* 3.7 39.7 - - + +
458B ASN* 3.2 31.7 - - + +
481B LEU* 4.4 17.7 - - + -
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Residues in contact with LYS 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B TYR* 5.9 0.7 - - - -
195B LYS* 2.9 36.6 + - - +
196B GLN* 3.1 36.1 - - - +
198B LEU* 1.3 76.2 - - + +
200B CYS* 1.3 63.8 + - - +
202B SER* 3.2 10.3 + - - -
203B LEU* 3.0 25.6 + - - +
211B PHE* 4.1 20.2 - - + -
214B TRP* 4.2 25.2 - - + -
242B HIS* 3.6 30.5 - - + +
246B CYS* 4.4 1.8 - - - -
2003B 1FL 5.5 1.3 - - - -
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Residues in contact with CYS 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B TYR* 4.0 27.8 - - + -
196B GLN* 2.9 35.1 + - - +
197B ARG* 3.1 8.7 + - - +
199B LYS* 1.3 76.4 - - - +
201B ALA* 1.3 57.2 + - - +
203B LEU* 3.2 2.7 + - - +
204B GLN* 2.9 38.2 + - - +
246B CYS* 2.0 56.8 - - + -
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Residues in contact with ALA 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B ARG* 2.7 33.6 + - - +
198B LEU* 3.2 7.4 - - + +
200B CYS* 1.3 71.0 - - - +
202B SER* 1.3 58.3 + - - +
204B GLN* 4.9 2.9 - - - -
205B LYS* 2.9 42.3 + - + +
206B PHE* 4.0 3.5 + - + -
458B ASN* 3.4 24.9 - - - +
462B VAL* 5.0 4.5 - - + -
481B LEU* 6.2 0.7 - - + -
484B ARG* 5.8 3.4 - - - +
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Residues in contact with SER 202 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B LEU* 2.8 23.0 + - - +
199B LYS* 3.2 12.3 - - - -
201B ALA* 1.3 74.0 - - - +
203B LEU* 1.3 68.2 + - - +
206B PHE* 3.2 21.0 + - - +
207B GLY 3.3 10.5 + - - +
210B ALA* 4.6 1.1 - - - +
211B PHE* 4.5 21.5 - - - -
481B LEU* 3.4 30.3 - - - +
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Residues in contact with LEU 203 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199B LYS 3.0 14.3 + - - +
200B CYS* 3.2 6.0 + - - +
202B SER* 1.3 78.5 - - - +
204B GLN* 1.3 62.7 + - + +
207B GLY* 3.1 27.1 + - - -
208B GLU* 4.4 16.8 - - + -
211B PHE* 3.3 38.8 - - + -
239B THR* 4.7 4.0 - - + +
242B HIS* 3.8 39.3 - - + +
243B THR* 4.0 21.3 - - + +
246B CYS* 4.3 8.1 - - + -
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Residues in contact with GLN 204 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B TYR* 4.1 24.3 + - - -
197B ARG* 4.6 7.3 + - - -
200B CYS* 2.9 19.3 + - - +
201B ALA* 4.1 2.3 + - - +
203B LEU* 1.3 81.0 - - + +
205B LYS* 1.3 66.9 + - + +
207B GLY 4.4 1.4 + - - -
246B CYS* 3.7 38.2 + - - +
247B HIS* 5.2 1.6 - - - +
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Residues in contact with LYS 205 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201B ALA* 2.9 25.6 + - + +
204B GLN* 1.3 79.7 - - + +
206B PHE* 1.3 78.1 + - + +
207B GLY 3.6 0.6 + - - -
465B GLU* 4.4 23.6 - - - +
484B ARG* 6.0 1.8 - - - +
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Residues in contact with PHE 206 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201B ALA* 4.2 8.7 - - + -
202B SER* 3.2 8.7 + - - +
205B LYS* 1.3 92.7 - - + +
207B GLY* 1.3 63.4 + - - +
209B ARG* 4.9 2.4 + - - +
210B ALA* 3.8 16.5 + - + +
477B CYS 3.4 22.9 - - - -
478B THR* 3.9 21.3 - - - -
479B GLU 4.9 0.4 - - - -
480B SER* 4.2 1.6 - - - -
481B LEU* 3.2 49.1 - - + -
484B ARG* 3.3 18.8 - - - -
2002B 1FL 3.5 30.2 + - - +
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Residues in contact with GLY 207 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B SER 3.3 4.9 + - - +
203B LEU* 3.1 24.5 + - - -
204B GLN 4.4 1.8 + - - -
205B LYS 3.6 2.6 + - - -
206B PHE* 1.3 79.2 - - - +
208B GLU* 1.3 67.7 + - - +
209B ARG 3.3 1.6 - - - -
210B ALA* 3.2 15.4 + - - +
211B PHE* 3.6 4.0 + - - +
----------------------------------------------------------
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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