Contacts of the helix formed by residues 180 - 216 (chain L) in PDB entry 6AH0
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 180 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178L GLN 4.2 0.6 + - - -
179L LEU* 1.3 74.0 - - - +
181L GLU* 1.3 67.9 + - - +
182L GLU 2.9 4.3 + - - +
183L GLU* 3.2 6.3 + - - +
184L LEU* 2.8 21.7 + - - +
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Residues in contact with GLU 181 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179L LEU 3.8 1.8 + - - -
180L SER* 1.3 70.4 - - - +
182L GLU* 1.3 55.3 + - - +
184L LEU* 3.7 1.0 + - - +
185L GLU* 3.0 24.4 + - - -
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Residues in contact with GLU 182 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180L SER* 3.0 1.8 - - - +
181L GLU* 1.3 75.5 - - - +
183L GLU* 1.3 64.6 + - - +
185L GLU* 3.3 1.4 + - - +
186L ARG* 3.0 21.1 + - - -
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Residues in contact with GLU 183 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179L LEU* 5.9 0.9 - - - +
180L SER* 3.2 9.8 + - - +
182L GLU* 1.3 73.1 - - - +
184L LEU* 1.3 64.7 + - - +
186L ARG* 3.4 1.2 + - - +
187L LEU* 3.0 20.8 + - - -
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Residues in contact with LEU 184 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179L LEU* 5.0 4.5 - - - +
180L SER 2.8 21.3 + - - +
181L GLU* 4.0 1.1 - - - +
183L GLU* 1.3 70.2 - - - +
185L GLU* 1.3 56.7 + - - +
187L LEU* 3.2 2.5 + - - +
188L GLU* 3.0 26.2 + - - -
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Residues in contact with GLU 185 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181L GLU 3.0 17.4 + - - -
182L GLU* 3.3 2.0 + - - +
184L LEU* 1.3 76.9 - - - +
186L ARG* 1.3 56.7 + - - +
188L GLU* 3.6 1.9 + - - +
189L GLU* 3.1 22.2 + - - -
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Residues in contact with ARG 186 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182L GLU 3.0 15.2 + - - -
183L GLU* 4.0 1.6 - - - +
184L LEU 3.4 0.2 - - - -
185L GLU* 1.3 73.3 - - - +
187L LEU* 1.3 65.5 + - - +
189L GLU* 3.9 2.0 - - - +
190L ALA* 3.2 18.4 + - - -
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Residues in contact with LEU 187 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183L GLU 3.0 15.0 + - - -
184L LEU* 3.2 4.2 + - - +
186L ARG* 1.3 77.6 - - - +
188L GLU* 1.3 56.1 + - - +
189L GLU 3.3 0.2 + - - -
190L ALA* 3.3 2.9 + - - -
191L CYS* 3.0 24.4 + - - -
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Residues in contact with GLU 188 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140L LYS* 6.1 4.9 - - - +
184L LEU 3.0 14.7 + - - -
185L GLU* 3.9 2.7 - - - +
187L LEU* 1.3 74.4 - - - +
189L GLU* 1.3 57.3 + - - +
191L CYS* 3.8 2.1 - - - +
192L ASP* 3.0 25.5 + - - -
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Residues in contact with GLU 189 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185L GLU 3.1 14.9 + - - -
186L ARG* 3.4 4.2 + - - +
187L LEU 3.2 0.8 - - - -
188L GLU* 1.3 76.9 - - - +
190L ALA* 1.3 57.9 - - - +
192L ASP* 3.5 1.4 + - - +
193L MET* 3.0 22.3 + - - -
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Residues in contact with ALA 190 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186L ARG 3.2 12.8 + - - -
187L LEU 3.8 2.5 - - - -
189L GLU* 1.3 73.6 - - - +
191L CYS* 1.3 59.8 + - - +
193L MET* 3.7 3.5 - - - +
194L ALA* 2.9 23.9 + - - -
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Residues in contact with CYS 191 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136L ILE* 5.4 9.4 - - - +
187L LEU 3.0 14.5 + - - -
188L GLU* 3.3 4.0 + - - +
189L GLU 3.3 0.4 - - - -
190L ALA* 1.3 75.0 - - - +
192L ASP* 1.3 64.0 + - - +
194L ALA* 3.1 3.0 + - - +
195L LEU* 3.0 20.3 + - - -
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Residues in contact with ASP 192 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188L GLU 3.0 15.6 + - - -
189L GLU 3.9 1.8 - - - -
191L CYS* 1.3 73.7 - - - +
193L MET* 1.3 65.5 + - - +
195L LEU* 3.4 1.4 + - - +
196L GLU* 3.1 19.6 + - - -
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Residues in contact with MET 193 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189L GLU 3.0 15.6 + - - -
190L ALA* 3.4 4.7 + - - +
191L CYS 3.2 0.4 - - - -
192L ASP* 1.3 77.7 - - - +
194L ALA* 1.3 56.7 + - - +
196L GLU* 3.3 1.4 + - - +
197L LEU* 3.0 24.8 + - - -
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Residues in contact with ALA 194 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107L LEU* 6.4 2.0 - - - +
190L ALA 2.9 15.8 + - - -
191L CYS* 3.1 3.5 + - - +
193L MET* 1.3 76.2 - - - +
195L LEU* 1.3 56.2 + - - +
197L LEU* 3.2 3.7 + - - +
198L ASN* 2.9 24.9 + - - -
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Residues in contact with LEU 195 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191L CYS 3.0 12.9 + - - -
192L ASP* 3.4 2.7 + - - +
194L ALA* 1.3 75.6 - - - +
196L GLU* 1.3 56.8 + - - +
198L ASN* 3.2 2.2 + - - +
199L ALA* 3.0 24.3 + - - -
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Residues in contact with GLU 196 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192L ASP 3.1 13.9 + - - -
193L MET 3.7 2.9 - - - -
195L LEU* 1.3 72.2 - - - +
197L LEU* 1.3 64.7 + - - +
199L ALA* 3.5 1.3 + - - +
200L SER* 3.2 18.9 + - - -
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Residues in contact with LEU 197 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193L MET 3.0 14.5 + - - -
194L ALA* 3.2 4.5 + - - +
196L GLU* 1.3 77.6 - - - +
198L ASN* 1.3 55.8 + - - +
200L SER* 3.4 2.0 + - - +
201L LYS* 2.9 24.9 + - - -
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Residues in contact with ASN 198 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194L ALA 2.9 13.7 + - - -
195L LEU* 3.2 4.4 + - - +
196L GLU 3.2 0.2 - - - -
197L LEU* 1.3 75.1 - - - +
199L ALA* 1.3 59.5 + - - +
201L LYS* 3.0 3.5 + - - +
202L HIS* 2.9 25.6 + - - -
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Residues in contact with ALA 199 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195L LEU 3.0 14.3 + - - -
196L GLU* 4.0 2.0 - - - +
198L ASN* 1.3 76.5 - - - +
200L SER* 1.3 56.4 + - - +
202L HIS* 3.2 2.4 + - - +
203L ARG* 2.9 24.9 + - - -
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Residues in contact with SER 200 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196L GLU 3.2 14.0 + - - -
197L LEU 3.7 3.4 - - - -
199L ALA* 1.3 70.8 - - - +
201L LYS* 1.3 65.7 + - - +
203L ARG* 3.3 2.5 + - - +
204L ILE* 3.0 20.1 + - - -
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Residues in contact with LYS 201 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100L THR* 5.9 8.1 - - - +
103L ILE* 6.6 0.2 - - - +
197L LEU 2.9 16.2 + - - -
198L ASN* 3.0 5.8 + - - +
200L SER* 1.3 78.3 - - - +
202L HIS* 1.3 56.8 + - - +
204L ILE* 3.2 1.0 + - - -
205L TYR* 2.9 25.8 + - - -
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Residues in contact with HIS 202 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198L ASN 2.9 13.2 + - - -
199L ALA* 3.2 3.1 + - - +
200L SER 3.2 0.2 - - - -
201L LYS* 1.3 72.5 - - - +
203L ARG* 1.3 65.5 + - - +
205L TYR* 3.2 2.4 + - - +
206L GLU* 2.9 22.9 + - - -
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Residues in contact with ARG 203 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199L ALA 2.9 14.3 + - - -
200L SER* 3.3 4.9 + - - +
202L HIS* 1.3 76.3 - - - +
204L ILE* 1.3 58.9 + - - +
206L GLU* 3.7 2.4 + - - +
207L TYR* 3.3 17.0 + - - -
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Residues in contact with ILE 204 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96L ALA 5.9 5.9 - - - -
200L SER 3.0 13.3 + - - -
201L LYS 3.7 2.5 - - - -
203L ARG* 1.3 75.3 - - - +
205L TYR* 1.3 66.2 + - - +
207L TYR* 2.9 12.6 + - - +
208L VAL* 2.9 13.0 + - - -
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Residues in contact with TYR 205 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201L LYS 2.9 14.6 + - - -
202L HIS* 3.2 3.8 + - - +
204L ILE* 1.3 73.7 - - - +
206L GLU* 1.3 61.9 + - - +
208L VAL* 3.4 2.2 + - - +
209L GLU* 3.0 19.8 + - - -
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Residues in contact with GLU 206 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202L HIS 2.9 15.1 + - - -
203L ARG* 4.0 2.5 - - - +
205L TYR* 1.3 74.0 - - - +
207L TYR* 1.3 56.4 + - - +
209L GLU* 3.2 1.7 + - - +
210L SER* 3.0 27.4 + - - -
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Residues in contact with TYR 207 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203L ARG 3.3 11.0 + - - -
204L ILE* 2.9 7.9 + - - +
206L GLU* 1.3 75.9 - - - +
208L VAL* 1.3 57.5 + - - +
210L SER* 3.5 0.7 + - - +
211L ARG* 2.9 27.4 + - - -
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Residues in contact with VAL 208 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93L ILE* 5.7 10.8 - - - +
97L ASN* 6.2 3.4 - - - +
204L ILE 2.9 12.1 + - - -
205L TYR* 3.8 3.8 - - - +
207L TYR* 1.3 73.2 - - - +
209L GLU* 1.3 58.2 + - - +
211L ARG* 5.4 0.2 - - - +
212L MET* 2.9 27.9 + - - -
225L ALA* 4.9 8.1 - - - -
226L SER 6.1 0.2 - - - -
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Residues in contact with GLU 209 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205L TYR 3.0 14.8 + - - -
206L GLU* 3.2 3.6 + - - +
208L VAL* 1.3 75.1 - - - +
210L SER* 1.3 62.7 + - - +
212L MET 3.8 0.2 - - - -
213L SER* 2.9 22.7 + - - -
225L ALA* 5.1 11.4 - - - +
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Residues in contact with SER 210 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206L GLU 3.0 14.8 + - - -
207L TYR* 3.9 0.9 - - - +
209L GLU* 1.3 75.6 - - - +
211L ARG* 1.3 61.8 + - - +
213L SER* 3.3 1.8 + - - +
214L PHE* 3.2 16.1 + - - -
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Residues in contact with ARG 211 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207L TYR 2.9 16.0 + - - -
208L VAL* 5.4 0.2 - - - +
210L SER* 1.3 75.9 - - - +
212L MET* 1.3 56.8 + - - +
214L PHE* 3.0 4.8 + - - +
215L ILE* 2.8 25.5 + - - -
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Residues in contact with MET 212 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208L VAL 2.9 17.6 + - - -
209L GLU 3.8 0.4 - - - -
211L ARG* 1.3 72.3 - - - +
213L SER* 1.3 66.0 + - - +
215L ILE* 4.2 2.2 - - - +
216L ALA 2.9 29.8 + - - +
220L SER* 5.4 3.5 - - - -
225L ALA* 5.3 11.0 - - - +
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Residues in contact with SER 213 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209L GLU 2.9 16.6 + - - -
210L SER* 3.3 2.4 + - - +
212L MET* 1.3 76.5 - - - +
214L PHE* 1.3 57.1 + - - +
216L ALA 4.8 0.2 - - - -
217L PRO* 3.1 29.6 - - - +
220L SER* 5.9 2.5 - - - +
225L ALA* 5.9 0.2 - - - +
312L THR 5.4 2.8 - - - +
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Residues in contact with PHE 214 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210L SER 3.2 8.9 + - - -
211L ARG* 3.0 8.4 + - - +
213L SER* 1.3 80.6 - - - +
215L ILE* 1.3 59.6 + - - +
217L PRO 4.7 1.2 - - - -
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Residues in contact with ILE 215 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211L ARG 2.8 17.5 + - - -
212L MET* 3.1 2.8 + - - +
214L PHE* 1.3 73.9 - - - +
216L ALA* 1.3 57.9 + - - +
217L PRO 4.0 0.2 - - - -
306L ASP 4.7 9.4 - - - +
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Residues in contact with ALA 216 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212L MET* 2.9 12.3 + - - +
215L ILE* 1.3 78.7 - - - +
217L PRO* 1.3 65.4 - - - +
218L ASN 3.2 3.0 + - - -
219L LEU* 3.3 4.8 + - - +
220L SER* 2.9 22.7 + - - -
306L ASP* 5.4 10.8 - - - +
----------------------------------------------------------
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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