Contacts of the helix formed by residues 165 - 191 (chain C) in PDB entry 1BRR
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 165 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C MET 4.8 0.4 - - - +
164C ARG* 1.3 88.5 - - + +
166C GLU* 1.3 57.9 + - + +
168C ALA* 4.0 7.1 - - + +
169C SER* 2.7 34.7 + - - -
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Residues in contact with GLU 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C ARG* 3.6 34.3 + - + +
165C PRO* 1.3 81.0 - - + +
167C VAL* 1.3 55.9 + - - +
169C SER* 2.6 21.4 + - - -
170C THR* 2.7 26.7 + - - +
226C SER 5.2 3.9 - - - +
227C ARG* 4.9 5.6 - - - +
228C ALA* 3.5 30.7 + - + +
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Residues in contact with VAL 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C LEU* 3.6 32.7 - - + +
101C VAL* 5.0 2.0 - - - -
160C ALA* 4.8 4.3 - - + +
163C MET* 3.6 30.5 - - + -
164C ARG* 3.1 30.0 + - + +
166C GLU* 1.3 80.2 - - - +
168C ALA* 1.3 64.9 + - - +
169C SER 3.1 0.3 + - - -
170C THR* 3.8 2.0 - - - -
171C PHE* 2.9 26.7 + - + +
228C ALA* 4.1 24.7 - - + +
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Residues in contact with ALA 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C ALA* 3.4 33.5 + - - +
161C GLU* 4.2 12.6 - - + +
162C SER 5.2 0.2 - - - +
164C ARG 2.8 19.7 + - - +
165C PRO* 4.1 7.9 - - + +
167C VAL* 1.3 73.6 - - - +
169C SER* 1.3 58.5 + - - +
171C PHE* 4.5 0.7 - - - +
172C LYS* 3.3 34.0 + - - +
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Residues in contact with SER 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C PRO 2.7 17.4 + - - -
166C GLU* 2.6 23.6 + - - -
168C ALA* 1.3 76.7 - - - +
170C THR* 1.3 66.3 + - - +
171C PHE 3.3 0.2 - - - -
172C LYS* 3.4 7.2 + - - +
173C VAL* 3.2 25.6 + - - +
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Residues in contact with THR 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C LEU* 4.0 11.4 - - + -
166C GLU* 2.7 22.8 + - - +
167C VAL 3.8 2.7 - - - -
169C SER* 1.3 72.2 + - - +
171C PHE* 1.3 65.0 + - - +
173C VAL* 3.2 8.6 + - - +
174C LEU* 3.2 38.5 + - + +
222C ILE* 4.5 6.7 - - + +
223C LEU* 4.1 8.5 - - + -
226C SER* 2.8 40.9 + - - +
228C ALA* 3.4 11.7 - - + +
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Residues in contact with PHE 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 4.3 23.3 - - + -
100C LEU* 3.7 19.0 - - + +
101C VAL* 3.5 21.1 - - + -
152C LEU* 3.3 14.8 - - + -
156C PHE* 3.2 51.1 - + + -
157C THR* 3.5 15.9 - - - -
160C ALA* 3.6 19.1 - - + -
167C VAL 2.9 17.7 + - - +
170C THR* 1.3 78.4 - - - +
172C LYS* 1.3 63.7 + - + +
174C LEU* 3.4 2.9 + - - +
175C ARG* 2.8 49.0 + - + +
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Residues in contact with LYS 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C THR* 4.2 4.0 - - + -
160C ALA* 6.0 0.7 - - + -
161C GLU* 3.0 40.1 + - - +
168C ALA* 3.3 19.9 + - - +
169C SER* 3.4 7.5 + - - +
170C THR 3.2 1.0 - - - -
171C PHE* 1.3 81.1 - - + +
173C VAL* 1.3 60.0 + - + +
175C ARG* 3.2 34.6 + - - +
176C ASN* 2.8 39.5 + - - +
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Residues in contact with VAL 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C SER 3.2 13.6 + - - +
170C THR* 3.2 9.3 + - - +
172C LYS* 1.3 75.5 - - + +
174C LEU* 1.3 65.4 + - - +
176C ASN* 3.0 15.5 + - - +
177C VAL* 2.9 23.9 + - + +
222C ILE* 3.4 39.3 - - + -
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Residues in contact with LEU 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 3.9 28.3 - - + -
100C LEU* 4.2 5.4 - - + -
170C THR* 3.2 20.9 + - + +
171C PHE 3.7 5.2 - - - +
173C VAL* 1.3 73.7 - - - +
175C ARG* 1.3 56.9 + - - +
177C VAL* 2.7 27.1 + - + +
178C THR* 2.7 18.3 + - - +
219C PHE* 3.6 46.0 - - + +
222C ILE* 3.9 20.4 - - + -
223C LEU* 3.5 32.1 - - + +
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Residues in contact with ARG 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 5.4 2.2 - - - +
152C LEU* 3.9 13.9 - - + +
153C PHE* 3.2 41.1 - - + -
157C THR* 2.9 38.0 + - - +
171C PHE* 2.8 45.9 + - + +
172C LYS* 3.3 33.9 + - - +
174C LEU* 1.3 70.6 - - - +
176C ASN* 1.3 82.9 + - - +
178C THR* 3.3 7.1 + - - -
179C VAL* 3.0 41.2 + - + +
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Residues in contact with ASN 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C PHE* 5.0 1.0 - - - -
172C LYS* 2.8 29.1 + - - +
173C VAL* 3.0 12.9 + - - +
175C ARG* 1.3 103.9 + - - +
177C VAL* 1.3 64.4 + - + +
179C VAL* 4.3 2.2 - - - -
180C VAL* 2.9 35.7 + - + +
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Residues in contact with VAL 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C VAL* 2.9 17.6 + - + +
174C LEU* 2.7 15.5 + - - +
176C ASN* 1.3 73.5 - - + +
178C THR* 1.3 60.2 + - + +
180C VAL* 3.3 3.4 + - - +
181C LEU* 2.9 52.2 + - + +
214C SER 5.2 0.7 - - - +
215C ALA* 5.2 2.5 - - - -
218C GLY 5.8 0.4 - - - -
219C PHE* 4.9 20.4 - - + +
222C ILE* 3.7 26.0 - - + -
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Residues in contact with THR 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 6.1 0.9 - - + -
97C LEU* 4.1 10.9 - - + +
149C LEU* 4.9 0.9 - - - -
152C LEU* 4.3 14.5 - - - +
174C LEU 2.7 22.5 + - - +
175C ARG* 3.3 13.0 + - - -
177C VAL* 1.3 67.4 - - + +
179C VAL* 1.3 71.5 + - - +
180C VAL 2.9 1.9 + - - -
181C LEU* 5.0 0.7 - - - -
182C TRP* 2.7 65.1 + - + +
215C ALA* 6.0 0.7 - - - +
219C PHE* 3.6 34.8 - - + -
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Residues in contact with VAL 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C LEU* 4.2 35.6 - - + +
152C LEU* 5.3 2.2 - - + -
153C PHE* 4.6 23.3 - - + +
175C ARG* 3.0 31.2 + - + +
176C ASN* 4.3 3.8 - - - +
178C THR* 1.3 84.8 + - - +
180C VAL* 1.3 54.6 + - + +
183C SER* 2.6 35.2 + - - +
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Residues in contact with VAL 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C ASN* 2.9 24.9 - - + +
177C VAL* 3.3 3.5 + - - +
178C THR 2.9 1.2 + - - -
179C VAL* 1.3 84.1 - - + +
181C LEU* 1.3 69.6 + - + +
183C SER* 3.3 12.8 + - - -
184C ALA* 3.9 6.8 + - - +
1000C ARC 3.9 41.7 - - + +
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Residues in contact with LEU 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C VAL* 2.9 31.4 + - + +
178C THR* 4.3 0.9 - - - +
180C VAL* 1.3 80.5 - - + +
182C TRP* 1.3 66.3 + - + +
184C ALA* 3.3 14.7 + - - +
185C TYR* 3.2 18.8 - - + -
211C LEU* 4.0 10.0 - - + +
214C SER* 3.0 34.1 - - - +
215C ALA* 3.3 34.1 - - + +
1000C ARC 3.9 32.8 - - + -
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Residues in contact with TRP 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C THR* 3.9 23.3 - - + -
93C LEU* 4.1 14.4 - - + +
94C LEU* 3.3 29.8 - - + -
115C ASP* 3.8 16.4 - - - -
118C MET* 4.0 7.9 - - + -
145C MET* 3.5 11.7 - - + +
148C ILE* 4.1 17.5 - - + -
149C LEU* 4.4 22.0 - - + -
152C LEU* 5.7 0.7 - - + -
178C THR* 2.7 47.7 + - + +
181C LEU* 1.3 73.4 - - - +
183C SER* 1.3 58.6 + - - +
184C ALA 2.9 5.9 + - - -
185C TYR* 3.2 21.1 + + - +
186C PRO* 3.4 8.1 - - - +
215C ALA* 4.7 10.7 + - + +
999C RET 3.6 49.4 - - + +
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Residues in contact with SER 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C MET* 3.9 14.2 - - - +
149C LEU* 4.4 12.1 - - - +
179C VAL* 2.6 26.5 + - - +
180C VAL* 3.3 10.4 + - - -
182C TRP* 1.3 77.9 - - - +
184C ALA* 1.3 58.5 + - - +
185C TYR 3.5 0.2 - - - -
186C PRO* 3.5 10.2 - - - +
187C VAL* 3.6 13.3 - - - +
1000C ARC 3.8 18.7 - - - +
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Residues in contact with ALA 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C VAL 3.9 3.5 + - - +
181C LEU* 3.3 6.5 + - - +
182C TRP 2.9 1.6 + - - -
183C SER* 1.3 78.8 + - - +
185C TYR* 1.3 55.8 + - - +
186C PRO 3.2 0.7 - - - -
187C VAL* 2.7 31.9 + - + +
188C VAL* 2.8 18.4 + - + +
211C LEU* 3.5 25.4 - - + -
1000C ARC 3.5 31.4 - - + -
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Residues in contact with TYR 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C TRP* 3.5 24.5 - + - -
181C LEU 3.2 31.6 - - - -
182C TRP* 3.2 11.2 + + - +
184C ALA* 1.3 76.1 - - - +
186C PRO* 1.3 69.0 - - + +
188C VAL* 3.8 1.7 - - - +
189C TRP* 3.0 26.9 + - - +
208C PHE* 3.6 31.6 - + - -
211C LEU* 3.4 33.1 + - + +
212C ASP* 2.8 21.2 + - - -
215C ALA* 4.2 1.5 - - + +
999C RET 3.2 66.5 - - + +
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Residues in contact with PRO 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C TRP* 2.9 28.4 + - + +
142C THR* 3.7 14.1 - - + +
145C MET* 3.8 17.3 - - + -
182C TRP 3.4 10.3 - - - +
183C SER 3.5 9.9 - - - +
184C ALA 3.5 2.9 - - - -
185C TYR* 1.3 96.9 - - + +
187C VAL* 1.3 57.7 + - + +
190C LEU* 3.1 17.0 + - - +
999C RET 3.4 44.4 - - + -
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Residues in contact with VAL 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C TRP* 5.7 0.7 - - + -
183C SER 3.6 19.7 - - - +
184C ALA* 2.7 17.8 + - + +
186C PRO* 1.3 73.2 - - + +
188C VAL* 1.3 63.7 + - + +
190C LEU* 3.4 6.6 + - + +
191C ILE* 3.2 39.8 + - + +
1000C ARC 4.3 25.4 - - + -
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Residues in contact with VAL 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C ALA* 2.8 23.7 + - + +
185C TYR 3.8 0.9 - - - +
187C VAL* 1.3 77.2 - - + +
189C TRP* 1.3 51.0 + - - +
191C ILE* 3.3 11.0 + - + +
192C GLY* 2.7 35.9 + - - -
204C GLU* 3.8 17.0 - - + -
207C LEU* 3.8 35.4 - - + -
208C PHE* 3.4 36.1 - - + -
211C LEU* 4.1 14.4 - - + -
1000C ARC 6.4 0.2 - - + -
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Residues in contact with TRP 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C TYR* 2.8 30.4 + - - -
86C TRP* 5.6 0.2 - + - -
122C GLY* 4.5 4.8 + - - -
125C GLY* 4.1 2.5 - - - -
126C ALA* 4.1 22.8 - - - +
134C ARG* 3.8 28.3 - - + -
135C PHE* 4.8 8.3 - + - -
137C TRP* 6.3 0.2 - - + -
138C TRP* 3.5 31.4 - + + -
185C TYR 3.0 18.1 + - - +
186C PRO 4.2 2.7 - - - +
188C VAL* 1.3 77.2 - - - +
190C LEU* 1.3 66.0 + - - +
192C GLY* 3.4 9.4 + - - +
194C GLU* 3.1 38.7 + - + -
195C GLY* 3.6 18.7 + - - -
204C GLU* 5.1 3.6 - - - -
208C PHE* 4.3 13.7 - + + -
999C RET 4.0 31.4 - - + +
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Residues in contact with LEU 190 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C PHE* 3.6 32.8 - - + -
138C TRP* 3.8 35.2 - - + +
186C PRO 3.1 19.5 + - - +
187C VAL* 3.8 8.3 - - + +
188C VAL 3.3 0.2 - - - -
189C TRP* 1.3 83.2 - - - +
191C ILE* 1.3 65.5 + - + +
196C ALA* 3.1 29.3 + - + +
198C ILE* 5.0 1.5 - - + +
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Residues in contact with ILE 191 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C VAL* 3.2 31.6 - - + +
188C VAL* 3.3 13.5 - - + +
190C LEU* 1.3 84.7 - - + +
192C GLY* 1.3 59.7 + - - +
196C ALA 3.3 9.8 - - - +
198C ILE* 3.6 33.6 - - + +
199C VAL* 3.1 46.1 + - + -
207C LEU* 5.0 11.7 - - + -
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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