Contacts of the helix formed by residues 194 - 219 (chain B) in PDB entry 2AXT
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 194 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184B GLU* 3.5 22.9 + - - +
188B ASP* 2.7 36.7 + - - +
189B GLY* 4.8 0.7 - - - -
191B ASN* 2.9 17.5 + - + +
192B PRO 3.5 0.6 - - - -
193B TYR* 1.3 77.8 - - - +
195B PRO* 1.3 55.9 - - - +
196B GLY* 2.6 36.9 + - - -
197B GLY* 2.7 32.5 + - - +
198B VAL* 3.7 3.6 + - - +
261B ALA* 4.3 2.2 - - - -
512B CLA 5.7 0.3 - - - +
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Residues in contact with PRO 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B MET* 4.1 16.8 - - + +
167B TRP 5.5 0.4 - - - +
168B VAL* 4.1 25.4 - - + -
181B VAL* 3.7 20.0 - - + -
193B TYR 3.1 11.6 - - - +
194B ASN* 1.3 83.7 - - - +
196B GLY* 1.3 55.6 + - - +
198B VAL* 2.5 41.8 + - + +
199B VAL* 3.1 7.8 + - - +
261B ALA* 3.7 14.6 - - + +
65H LEU* 6.4 2.7 - - + -
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Residues in contact with GLY 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B VAL* 3.5 9.2 - - - +
182B ALA 3.3 22.7 - - - -
184B GLU* 3.2 21.9 + - - -
194B ASN* 2.6 19.2 + - - -
195B PRO* 1.3 74.1 - - - +
197B GLY* 1.3 54.2 - - - -
199B VAL* 3.3 2.5 + - - +
200B ALA* 2.9 23.7 + - - +
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Residues in contact with GLY 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B GLY* 3.1 30.9 - - - -
194B ASN* 2.7 15.1 + - - -
196B GLY* 1.3 76.6 - - - +
198B VAL* 1.3 58.5 + - - +
199B VAL 3.1 0.4 - - - -
201B HIS* 3.1 30.7 + - - +
512B CLA 3.5 16.8 - - - +
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Residues in contact with VAL 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B LEU* 3.5 12.3 - - + +
166B MET* 4.1 12.3 - - + -
192B PRO 5.6 2.5 - - - +
194B ASN 4.4 2.5 - - - +
195B PRO* 2.5 29.7 + - + +
197B GLY* 1.3 73.7 - - - +
199B VAL* 1.3 56.1 + - - -
201B HIS* 4.1 2.2 - - - +
202B HIS* 2.7 41.1 + - + -
261B ALA* 4.7 8.3 - - + -
262B THR* 4.3 13.7 - - - +
512B CLA 4.4 12.8 - - + -
513B CLA 3.8 37.5 - - + +
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Residues in contact with VAL 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B GLY* 3.7 22.2 - - - +
158B LEU* 4.0 20.2 - - + -
159B THR* 3.9 6.3 - - - +
166B MET* 4.8 1.3 - - - -
181B VAL* 3.3 44.0 - - + +
183B PRO* 3.6 28.5 - - + -
195B PRO 3.1 5.1 + - - +
196B GLY 3.6 4.3 - - - +
197B GLY 3.1 0.2 - - - -
198B VAL* 1.3 77.7 - - - +
200B ALA* 1.3 66.8 + - - +
201B HIS 3.0 2.8 + - - -
202B HIS* 3.2 4.7 + - - +
203B ILE* 3.1 22.9 + - + +
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Residues in contact with ALA 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B PRO* 4.0 6.2 - - + +
184B GLU 3.3 35.2 - - - +
185B TRP* 3.7 23.4 - - + -
196B GLY 2.9 11.9 + - - +
199B VAL* 1.3 76.7 - - - +
201B HIS* 1.3 57.1 + - - +
203B ILE* 3.3 1.6 + - - +
204B ALA* 2.9 32.4 + - - +
512B CLA 3.6 14.6 - - + -
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Residues in contact with HIS 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B GLY 3.1 18.9 + - - +
198B VAL* 4.1 4.0 - - - +
199B VAL 3.0 0.6 + - - -
200B ALA* 1.3 77.3 - - - +
202B HIS* 1.3 96.7 + + - +
203B ILE 2.9 2.3 + - - -
204B ALA 3.1 0.9 + - - -
205B ALA* 2.8 42.9 + - + +
512B CLA 2.1 84.0 + + + -
513B CLA 3.1 41.7 - + + -
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Residues in contact with HIS 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B CYS* 3.2 38.5 - - - +
151B PHE* 3.4 6.1 - - - -
153B PHE* 3.8 24.5 - + - -
154B GLY* 3.9 15.3 - - - -
158B LEU* 4.1 0.6 - - - +
198B VAL* 2.7 31.8 + - + +
199B VAL 3.2 3.3 + - - +
201B HIS* 1.3 86.8 - + - +
203B ILE* 1.3 59.6 + - - +
206B GLY 3.4 11.9 + - - -
513B CLA 2.1 76.9 + + + -
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Residues in contact with ILE 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B PHE* 3.7 19.3 - - + +
154B GLY 4.0 0.4 - - - +
155B ALA* 3.8 35.4 - - + +
159B THR* 4.8 0.9 - - - +
183B PRO* 3.6 30.7 - - + -
185B TRP* 3.2 27.6 - - + -
199B VAL* 3.1 16.7 + - + +
200B ALA 3.6 6.3 - - - +
201B HIS 3.0 1.0 - - - -
202B HIS* 1.3 76.5 - - - +
204B ALA* 1.3 66.5 + - - +
206B GLY 3.6 0.2 + - - -
207B ILE* 3.3 28.7 + - + +
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Residues in contact with ALA 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B TRP* 4.5 6.7 - - + -
200B ALA 2.9 17.0 + - - +
203B ILE* 1.3 75.3 - - - +
205B ALA* 1.3 57.8 + - - +
206B GLY 2.8 6.9 + - - -
207B ILE* 2.9 9.7 + - - +
208B VAL* 2.8 29.6 + - + +
511B CLA 4.4 13.2 - - + +
512B CLA 3.6 38.6 - - + -
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Residues in contact with ALA 205 (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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150B CYS* 4.4 3.8 - - - -
201B HIS* 2.8 38.6 + - + +
204B ALA* 1.3 73.3 - - - +
206B GLY* 1.3 54.5 + - - +
208B VAL* 3.9 0.8 - - - -
209B GLY* 3.0 18.4 + - - -
512B CLA 3.5 40.8 - - + +
513B CLA 5.0 1.3 - - + -
515B CLA 3.1 23.4 - - + +
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Residues in contact with GLY 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B GLY 3.4 18.8 - - - +
150B CYS* 3.9 8.5 - - - -
151B PHE* 3.9 6.1 - - - -
202B HIS 3.4 21.5 + - - -
203B ILE 4.0 1.1 - - - -
204B ALA 2.8 1.4 + - - -
205B ALA* 1.3 77.6 - - - +
207B ILE* 1.3 57.5 + - - +
209B GLY* 3.0 2.3 + - - -
210B ILE* 2.8 32.9 + - - +
515B CLA 4.3 0.2 - - - -
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Residues in contact with ILE 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B PHE* 3.8 23.8 - - + -
203B ILE* 3.3 21.0 + - + +
204B ALA* 2.9 9.5 + - - +
206B GLY* 1.3 69.7 - - - +
208B VAL* 1.3 61.0 + - + +
209B GLY 2.8 4.3 - - - -
210B ILE* 2.7 31.4 + - + +
211B ILE* 2.9 32.3 + - + +
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Residues in contact with VAL 208 (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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204B ALA* 2.8 14.5 + - + +
207B ILE* 1.3 80.3 - - + +
209B GLY* 1.3 59.0 + - - +
211B ILE* 4.2 10.4 - - + +
212B ALA* 3.4 21.5 + - - +
511B CLA 4.9 4.5 - - - +
512B CLA 3.3 53.8 - - + -
519B CLA 3.8 21.9 - - + +
107H BCR 4.5 6.7 - - + -
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Residues in contact with GLY 209 (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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143B LEU* 3.3 23.9 - - - +
147B GLY* 4.1 5.4 - - - -
205B ALA 3.0 14.1 + - - -
206B GLY 3.0 8.4 + - - -
207B ILE 2.8 1.2 - - - -
208B VAL* 1.3 79.0 - - - +
210B ILE* 1.3 61.0 + - - +
212B ALA* 3.9 1.1 + - - -
213B GLY* 3.3 13.5 + - - -
515B CLA 4.0 19.5 - - - -
519B CLA 5.7 0.7 - - - -
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Residues in contact with ILE 210 (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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144B PHE* 3.7 31.2 - - + +
147B GLY 4.4 1.1 - - - +
148B LEU* 3.7 42.8 - - + +
151B PHE* 4.5 15.0 - - + -
206B GLY 2.8 18.3 + - - +
207B ILE* 2.7 14.6 + - + +
209B GLY* 1.3 74.9 - - - +
211B ILE* 1.3 70.7 + - + +
213B GLY* 3.2 8.8 + - - -
214B LEU* 3.4 19.1 + - + +
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Residues in contact with ILE 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B ILE* 2.9 35.7 + - + +
208B VAL* 4.3 8.1 - - + +
210B ILE* 1.3 81.8 - - + +
212B ALA* 1.3 65.2 + - - +
213B GLY 3.0 1.2 + - - -
214B LEU* 3.2 21.0 + - + +
215B PHE* 3.2 11.8 + - + +
519B CLA 4.5 15.9 - - + -
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Residues in contact with ALA 212 (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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143B LEU* 4.1 11.0 - - + -
208B VAL 3.4 18.6 + - - +
209B GLY* 4.1 2.9 - - - +
210B ILE 3.4 0.2 - - - -
211B ILE* 1.3 81.5 - - - +
213B GLY* 1.3 61.9 + - - +
215B PHE* 3.3 7.2 - - - +
216B HIS* 3.0 30.4 + - - -
519B CLA 3.5 42.8 - - + -
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Residues in contact with GLY 213 (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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140B GLY* 3.5 21.6 - - - +
143B LEU* 4.1 6.9 - - - +
144B PHE* 4.0 10.1 - - - -
209B GLY 3.3 10.5 + - - -
210B ILE 3.2 6.8 + - - -
211B ILE 3.0 1.2 + - - -
212B ALA* 1.3 76.3 - - - +
214B LEU* 1.3 64.1 + - - +
216B HIS* 3.1 5.0 + - - -
217B ILE* 2.8 25.3 + - - +
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Residues in contact with LEU 214 (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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144B PHE* 3.7 29.1 - - + -
210B ILE* 3.4 18.9 + - + +
211B ILE* 3.2 12.5 + - + +
213B GLY* 1.3 71.6 - - - +
215B PHE* 1.3 52.5 + - - +
217B ILE* 2.7 19.9 + - + +
218B LEU* 2.7 51.6 + - + +
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Residues in contact with PHE 215 (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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211B ILE* 3.2 9.5 + - + +
212B ALA* 3.3 14.6 - - - +
214B LEU* 1.3 76.5 - - - +
216B HIS* 1.3 67.5 + + - +
218B LEU* 2.7 11.6 + - - +
219B VAL* 2.5 73.3 + - + +
519B CLA 3.5 72.0 - + + -
27H THR* 3.9 12.1 - - + -
30H LEU* 4.8 7.2 - - + -
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Residues in contact with HIS 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B PRO* 3.6 18.4 - - + +
137B LYS* 4.2 3.6 - - - -
139B PHE* 3.8 21.7 - + - -
140B GLY* 3.6 24.0 - - - +
143B LEU* 4.6 1.9 - - + +
212B ALA 3.0 20.4 + - - +
213B GLY 3.1 3.3 + - - +
215B PHE* 1.3 88.6 - + - +
217B ILE* 1.3 61.8 + - - +
218B LEU 3.1 0.2 - - - -
219B VAL 3.7 13.8 - - - +
519B CLA 2.4 98.8 + + + +
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Residues in contact with ILE 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B LYS* 4.1 23.1 - - + +
140B GLY* 3.4 25.8 - - - +
141B ILE* 3.6 22.4 - - + +
144B PHE* 4.1 18.4 - - + -
213B GLY 2.8 14.1 + - - +
214B LEU* 2.7 24.5 + - + +
216B HIS* 1.3 78.2 - - - +
218B LEU* 1.3 76.2 + - + +
14H LEU* 6.5 1.1 - - + -
17H GLU* 5.6 0.9 - - - +
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Residues in contact with LEU 218 (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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214B LEU* 2.7 29.2 + - + +
215B PHE* 2.7 3.8 + - - +
216B HIS 4.5 0.2 - - - -
217B ILE* 1.3 99.3 - - + +
219B VAL* 1.3 67.7 + - + +
220B ARG* 3.6 7.1 + - - +
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Residues in contact with VAL 219 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B PRO* 6.0 0.7 - - - +
215B PHE* 2.5 51.9 + - + +
216B HIS 3.7 13.3 - - - +
218B LEU* 1.3 76.8 - - + +
220B ARG* 1.3 76.1 + - - +
221B PRO* 4.5 0.5 - - - +
519B CLA 3.7 11.8 - - - +
22H ALA* 5.7 1.8 - - + -
27H THR* 3.6 21.8 - - + +
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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