Contacts of the helix formed by residues 208 - 234 (chain B) in PDB entry 3AA6
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 PRO 208 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272A ASN* 4.2 4.5 - - - +
275A LEU* 3.9 24.0 - - + -
203B VAL* 4.8 2.7 - - + -
204B SER 3.1 15.2 - - - +
205B ASP* 3.9 9.0 - - - +
206B SER 3.6 7.6 - - - +
207B SER* 1.3 92.9 - - - +
209B HIS* 1.3 68.9 + - - +
210B ILE* 3.3 2.5 - - + +
211B ALA* 3.0 14.1 + - + +
212B ASN* 3.0 19.3 + - - -
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Residues in contact with HIS 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B ARG* 4.2 6.5 - - - -
96B LEU* 4.7 15.5 - - + -
128B PHE* 3.6 28.2 - + + -
156B VAL* 3.7 19.2 - - + +
158B GLU* 3.0 26.8 + - + -
165B ALA* 3.8 4.7 - - + -
167B TYR* 2.6 34.3 + - - -
203B VAL* 3.7 31.4 - - + +
208B PRO* 1.3 71.2 - - - +
210B ILE* 1.3 57.7 + - - +
212B ASN* 3.1 1.9 + - - +
213B ILE* 2.9 37.6 + - + +
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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
----------------------------------------------------------
271A TRP* 4.3 4.2 - - + -
275A LEU* 3.6 28.9 - - + -
96B LEU* 3.5 34.3 - - + +
99B GLU* 3.6 15.7 - - + +
100B ALA* 3.3 37.7 - - + +
103B ALA* 3.9 16.4 - - + -
104B PHE* 4.8 9.3 - - + -
208B PRO* 3.2 3.2 + - + +
209B HIS* 1.3 75.9 - - + +
211B ALA* 1.3 51.9 + - - +
213B ILE* 3.8 8.5 - - + +
214B GLY* 2.7 31.9 + - - -
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Residues in contact with ALA 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A TRP* 4.0 19.0 - - + -
272A ASN* 4.4 4.5 - - - +
275A LEU* 4.1 12.2 - - + +
207B SER* 4.8 0.2 - - - -
208B PRO* 3.0 28.0 + - + +
210B ILE* 1.3 74.4 - - - +
212B ASN* 1.3 67.6 + - - +
215B ARG* 3.0 52.4 + - - +
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Residues in contact with ASN 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B TYR* 2.8 42.7 + - + +
201B GLU* 4.0 19.9 - - + +
202B THR 3.0 25.3 + - - +
203B VAL* 4.1 1.6 - - - +
207B SER* 2.6 34.2 + - - -
208B PRO 3.0 12.0 + - - -
209B HIS 3.5 3.6 - - - +
211B ALA* 1.3 78.3 - - - +
213B ILE* 1.3 62.4 + - - +
215B ARG* 3.6 9.4 + - - +
216B LEU* 3.3 30.5 + - - +
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Residues in contact with ILE 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B LEU* 6.0 0.4 - - + -
104B PHE* 4.4 7.6 - - + -
121B LEU* 6.1 2.5 - - + -
128B PHE* 4.2 28.5 - - + -
132B ILE* 3.8 28.7 - - + -
154B VAL* 4.3 20.2 - - + -
156B VAL* 4.3 6.1 - - + -
167B TYR* 3.8 20.6 - - + -
209B HIS* 2.9 26.5 + - + +
210B ILE* 3.9 8.3 - - + +
212B ASN* 1.3 74.5 - - - +
214B GLY* 1.3 60.6 + - - +
216B LEU* 3.3 9.5 + - - +
217B VAL* 2.8 33.9 + - + +
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Residues in contact with GLY 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A TRP* 3.3 40.2 - - - -
104B PHE* 3.7 9.6 - - - -
210B ILE 2.7 23.0 + - - -
211B ALA 3.9 0.2 - - - -
212B ASN 3.4 0.2 - - - -
213B ILE* 1.3 74.8 - - - +
215B ARG* 1.3 56.6 + - - +
217B VAL* 3.3 1.0 + - - +
218B GLU* 2.8 26.0 + - - +
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Residues in contact with ARG 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A ILE 5.9 0.2 - - - -
271A TRP* 3.5 34.9 - - + +
272A ASN* 4.8 11.9 - - - +
201B GLU* 5.4 6.8 + - - +
206B SER 4.9 1.8 + - - -
207B SER* 2.8 31.7 + - - +
211B ALA* 3.0 37.1 + - - +
212B ASN* 3.6 13.3 + - - +
214B GLY* 1.3 75.5 - - - +
216B LEU* 1.3 60.4 - - + +
218B GLU* 3.4 4.0 + - - +
219B ASP* 2.9 40.9 + - - +
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Residues in contact with LEU 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B VAL* 5.2 3.6 - - + -
167B TYR* 3.6 38.8 - - + -
169B LEU* 3.5 19.6 - - + +
197B MET* 3.9 30.9 - - + +
199B LYS* 3.7 34.3 - - + +
201B GLU* 4.3 5.8 - - + +
212B ASN 3.3 17.2 + - - +
213B ILE* 3.3 8.4 + - + +
215B ARG* 1.3 77.9 - - + +
217B VAL* 1.3 67.0 + - - +
219B ASP* 3.9 6.0 - - - +
220B MET* 3.0 25.5 + - - +
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Residues in contact with VAL 217 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE* 4.0 21.8 - - + -
107B TYR* 4.1 12.3 - - + +
132B ILE* 4.0 28.5 - - + -
152B HIS* 3.7 37.8 - - + +
169B LEU* 3.9 16.2 - - + -
213B ILE* 2.8 26.0 + - + +
214B GLY 3.8 3.4 - - - +
216B LEU* 1.3 77.8 - - - +
218B GLU* 1.3 56.5 + - - +
220B MET* 3.2 1.6 + - - +
221B GLU* 2.8 29.3 + - - +
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Residues in contact with GLU 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A LYS* 3.2 17.9 - - - +
269A ILE* 2.7 34.6 + - - +
271A TRP* 3.1 20.9 + - - +
107B TYR* 3.7 16.6 - - + -
111B TYR* 2.6 43.3 + - + +
214B GLY 2.8 17.4 + - - +
215B ARG* 3.8 5.5 - - - +
217B VAL* 1.3 78.1 - - - +
219B ASP* 1.3 57.7 + - - +
221B GLU 3.9 0.2 - - - -
222B ASN* 2.9 41.0 + - - +
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Residues in contact with ASP 219 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A LYS* 2.5 40.1 + - - +
197B MET* 6.1 4.7 - - + -
215B ARG* 2.9 26.0 + - - +
216B LEU* 3.9 6.9 - - - +
218B GLU* 1.3 76.0 - - - +
220B MET* 1.3 61.7 + - - +
222B ASN* 3.9 4.0 - - - +
223B LYS* 3.1 24.4 + - - +
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Residues in contact with MET 220 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B HIS* 4.6 0.7 - - + -
169B LEU* 3.8 14.1 - - + +
171B SER* 3.3 28.9 - - - +
195B ARG* 3.6 52.5 - - - +
196B GLN* 3.9 5.4 - - - +
197B MET* 3.8 30.7 - - + +
216B LEU 3.0 18.8 + - - +
217B VAL 3.7 2.9 - - - +
218B GLU 3.2 0.2 - - - -
219B ASP* 1.3 78.5 - - - +
221B GLU* 1.3 58.4 + - - +
223B LYS* 3.2 7.2 + - - +
224B ILE* 2.8 38.2 + - + +
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Residues in contact with GLU 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A ARG* 2.9 27.4 + - - +
107B TYR* 2.6 35.1 + - - +
112B PHE* 3.4 7.9 - - - -
134B ILE* 3.6 7.1 - - - +
148B TRP* 4.1 12.3 - - + -
150B SER* 2.6 27.8 + - - +
152B HIS* 2.8 26.3 + - + +
173B VAL* 4.7 3.4 - - + -
217B VAL 2.8 17.8 + - - +
220B MET* 1.3 74.3 - - - +
222B ASN* 1.3 60.0 + - - +
224B ILE* 3.8 5.9 - - - +
225B ARG* 2.9 30.5 + - - +
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Residues in contact with ASN 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A ARG* 2.9 34.4 + - - +
261A GLN 4.1 7.4 - - - -
262A LEU* 4.0 8.7 - - - +
268A LYS* 3.9 22.4 - - - +
111B TYR* 3.2 24.3 + - - -
218B GLU* 2.9 20.9 + - - +
219B ASP* 3.9 4.7 - - - +
221B GLU* 1.3 76.8 - - - +
223B LYS* 1.3 60.7 + - - +
225B ARG* 3.5 9.5 + - - +
226B SER* 3.3 20.8 + - - -
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Residues in contact with LYS 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B ARG* 3.7 43.1 - - - +
219B ASP 3.1 15.4 + - - +
220B MET* 3.4 11.0 - - - +
222B ASN* 1.3 75.2 - - - +
224B ILE* 1.3 58.6 + - - +
226B SER* 2.9 28.0 + - - +
227B THR* 3.0 28.2 + - - +
230B GLU* 5.7 2.8 + - - -
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Residues in contact with ILE 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B HIS* 5.4 0.2 - - + -
171B SER* 3.9 23.8 - - - +
173B VAL* 3.6 37.7 - - + +
193B LEU* 4.7 16.2 - - + +
195B ARG* 3.8 26.5 - - + +
220B MET* 2.8 46.3 + - + +
221B GLU* 4.0 3.8 - - - +
223B LYS* 1.3 70.9 - - - +
225B ARG* 1.3 58.1 + - - +
227B THR* 4.3 4.7 - - - -
228B LEU* 2.7 45.4 + - + +
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Residues in contact with ARG 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A PHE* 3.5 40.0 - - + -
256A LYS* 5.8 2.8 - - - +
259A ARG* 3.8 16.3 - - - +
260A ARG 3.7 24.7 - - - -
261A GLN* 3.5 46.0 + - - +
148B TRP* 4.0 24.8 - - + -
221B GLU 2.9 17.7 + - - +
222B ASN* 3.6 8.5 + - - +
223B LYS 3.3 0.2 - - - -
224B ILE* 1.3 77.4 - - - +
226B SER* 1.3 79.8 + - - +
228B LEU* 3.5 2.5 + - - -
229B ASN* 3.0 31.4 + - - +
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Residues in contact with SER 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ASN 3.3 7.2 + - - -
223B LYS* 2.9 28.5 + - - +
224B ILE 3.2 0.4 - - - -
225B ARG* 1.3 95.2 - - - +
227B THR* 1.3 64.0 + - - +
229B ASN* 3.3 8.4 - - - +
230B GLU* 3.1 36.6 + - - +
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Residues in contact with THR 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193B LEU* 3.8 19.3 - - + -
195B ARG* 4.8 12.4 - - - +
223B LYS* 3.0 32.8 + - - +
224B ILE* 3.7 9.3 - - - -
226B SER* 1.3 75.0 + - - +
228B LEU* 1.3 61.1 + - - +
230B GLU* 3.2 16.5 + - - +
231B ILE* 2.8 46.6 + - + +
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Residues in contact with LEU 228 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A PHE* 4.2 6.7 - - + -
148B TRP* 3.8 24.0 - - + -
173B VAL* 3.4 37.5 - - + +
175B LEU* 4.2 20.2 - - + -
193B LEU* 3.7 25.1 - - + +
224B ILE* 2.7 31.4 + - + +
225B ARG* 3.5 4.5 - - - +
227B THR* 1.3 72.0 - - - +
229B ASN* 1.3 59.1 + - - +
231B ILE* 4.7 0.2 - - - -
232B TYR* 2.8 64.1 + - + +
233B PHE* 5.2 0.4 - - - -
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Residues in contact with ASN 229 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A SER* 4.8 4.9 - - - -
255A PHE* 3.8 19.5 - - + -
256A LYS* 6.1 1.0 - - - +
225B ARG* 3.0 21.4 + - - +
226B SER* 3.3 14.0 - - - +
227B THR 3.2 0.2 - - - -
228B LEU* 1.3 75.5 - - - +
230B GLU* 1.3 59.9 + - - +
233B PHE* 3.1 51.6 + - - +
234B GLY 3.6 1.2 + - - -
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Residues in contact with GLU 230 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223B LYS* 5.7 2.9 + - - -
226B SER* 3.1 29.9 + - - +
227B THR* 3.5 19.6 + - - +
229B ASN* 1.3 79.5 - - + +
231B ILE* 1.3 63.7 + - + +
234B GLY* 2.9 11.6 + - - +
235B LYS* 2.8 27.2 + - - +
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Residues in contact with ILE 231 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A TYR* 3.4 55.0 - - + +
204A VAL* 4.3 21.8 - - + -
193B LEU* 4.3 8.3 - - + -
227B THR* 2.8 40.0 + - + +
228B LEU 4.2 1.6 - - - +
230B GLU* 1.3 72.3 - - + +
232B TYR* 1.3 66.2 + - + +
235B LYS* 3.3 36.8 + - + +
236B THR* 2.9 31.0 + - + +
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Residues in contact with TYR 232 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A VAL* 3.5 30.4 - - + +
247A TYR* 3.1 10.9 - - - -
175B LEU* 2.8 52.9 + - + +
177B LEU* 4.0 4.5 - - + -
189B LEU* 3.5 39.2 - - + +
190B GLY 3.5 0.3 - - - -
191B GLY* 3.2 26.3 + - - -
192B SER* 4.6 0.5 - - - -
228B LEU* 2.8 45.9 + - + +
231B ILE* 1.3 78.3 - - + +
233B PHE* 1.3 76.7 + - + +
234B GLY 3.7 0.2 + - - -
236B THR* 2.7 27.9 + - - -
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Residues in contact with PHE 233 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A TYR* 3.8 21.8 - + + +
250A MET* 3.7 24.9 - - + -
251A SER* 3.6 23.1 - - - -
255A PHE* 3.6 43.7 - + + -
175B LEU* 4.8 0.7 - - + -
177B LEU* 3.6 26.7 - - + -
189B LEU* 4.1 8.7 - - + -
228B LEU 4.7 0.4 - - - -
229B ASN* 3.1 34.7 + - - +
232B TYR* 1.3 91.1 - + + +
234B GLY* 1.3 57.7 + - - +
237B LYS* 3.0 29.5 + - - +
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Residues in contact with GLY 234 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229B ASN 3.6 2.0 + - - -
230B GLU* 2.9 14.2 + - - -
233B PHE* 1.3 79.0 - - - +
235B LYS* 1.3 59.9 + - - +
236B THR 3.5 0.2 - - - -
237B LYS* 3.4 7.8 + - - +
238B ASP* 2.9 38.9 + - - +
----------------------------------------------------------
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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