Contacts of the helix formed by residues 201 - 224 (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 LEU 201 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3C GLN 6.0 0.4 - - - +
5C THR* 3.2 47.8 - - + +
9C GLU* 3.6 3.8 - - - +
77C PRO* 4.0 15.5 - - + +
78C ILE* 5.8 0.2 - - - -
79C TYR* 3.6 29.8 - - + +
193C SER* 3.6 32.8 + - - +
194C GLU* 5.5 3.1 - - + +
200C PRO* 1.3 70.6 - - - +
202C ASN* 1.3 63.6 + - - +
204C GLU* 3.6 22.4 - - - +
205C THR* 2.8 35.1 + - - +
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Residues in contact with ASN 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C PRO* 4.2 15.6 + - + +
9C GLU* 3.7 27.0 + - - +
12C TRP* 3.1 31.0 + - - +
200C PRO* 4.1 9.4 - - + +
201C LEU* 1.3 83.1 - - - +
203C ILE* 1.3 68.8 + - + +
205C THR* 3.0 11.6 + - - -
206C LEU 3.1 8.0 + - - -
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Residues in contact with ILE 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C TRP* 5.3 0.4 - - - +
191C ILE* 5.8 0.4 - - + -
199C VAL* 3.0 40.6 - - + -
200C PRO* 3.2 31.6 - - + -
202C ASN* 1.3 76.8 - - + +
204C GLU* 1.3 55.1 + - - +
206C LEU* 2.9 14.4 + - + +
207C LEU* 2.8 47.8 + - + +
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Residues in contact with GLU 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C TYR* 5.4 0.2 - - - -
82C ARG* 3.8 12.6 + - - -
188C VAL* 3.8 19.5 - - + +
189C TRP* 5.1 1.7 - - - -
192C GLY* 4.0 21.3 - - - -
193C SER* 4.0 6.7 + - - -
194C GLU* 3.3 35.4 + - - +
199C VAL* 4.7 1.1 - - + -
200C PRO 3.2 14.9 + - - +
201C LEU* 3.7 22.8 - - - +
202C ASN 3.2 0.2 - - - -
203C ILE* 1.3 80.4 - - - +
205C THR* 1.3 61.3 + - - +
207C LEU* 4.2 7.7 - - - +
208C PHE* 3.4 39.5 + - + -
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Residues in contact with THR 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C GLU* 3.5 23.9 - - + +
12C TRP* 4.3 6.7 - - + -
13C LEU* 3.3 38.6 - - + +
57C TYR* 4.8 1.5 + - + -
79C TYR* 4.1 2.0 - - + -
82C ARG* 3.5 20.4 + - - +
201C LEU* 2.8 30.2 + - - +
202C ASN 3.0 8.3 + - - -
204C GLU* 1.3 75.5 - - - +
206C LEU* 1.3 65.3 + - - +
208C PHE* 3.7 1.9 + - - +
209C MET* 3.1 22.8 + - + +
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Residues in contact with LEU 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C TRP* 3.6 57.4 - - + +
202C ASN 3.1 5.8 + - - +
203C ILE* 3.2 15.7 - - + +
205C THR* 1.3 75.0 - - - +
207C LEU* 1.3 75.1 + - + +
209C MET* 2.8 26.9 + - - +
210C VAL* 3.0 24.8 + - + +
1000C ARC 6.2 2.5 - - + -
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Residues in contact with LEU 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C VAL* 3.8 35.7 - - + -
191C ILE* 5.0 11.7 - - + -
199C VAL* 5.0 2.5 - - + -
203C ILE* 2.8 47.2 + - + +
204C GLU* 4.2 1.6 - - - +
206C LEU* 1.3 78.2 - - + +
208C PHE* 1.3 63.3 + - - +
210C VAL* 3.1 4.9 + - - +
211C LEU* 3.0 29.9 + - + +
1000C ARC 3.3 46.4 - - + -
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Residues in contact with PHE 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C TYR* 3.8 1.8 - - - -
82C ARG* 3.5 37.5 - - - +
83C TYR* 6.0 0.4 - + - -
86C TRP* 4.1 18.2 - + + -
185C TYR* 3.6 37.9 - + - -
188C VAL* 3.4 35.2 - - + -
189C TRP* 4.0 20.0 - + + -
194C GLU* 4.8 3.4 - - - -
204C GLU* 3.4 39.2 + - + +
205C THR 4.0 3.4 - - - +
206C LEU 3.3 0.8 - - - -
207C LEU* 1.3 78.6 - - - +
209C MET* 1.3 56.7 + - - +
211C LEU* 3.8 4.6 - - + +
212C ASP* 2.8 39.5 + - - +
999C RET 5.0 0.2 - - + -
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Residues in contact with MET 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C TRP* 3.4 21.8 - - + +
15C LEU* 3.2 46.9 - - + -
16C GLY* 3.8 13.9 - - - +
19C LEU* 3.8 20.4 - - + -
57C TYR* 3.3 16.4 + - + +
205C THR 3.1 14.4 + - - +
206C LEU* 2.8 27.4 + - - +
208C PHE* 1.3 75.1 - - - +
210C VAL* 1.3 71.5 + - - +
213C VAL* 2.9 34.2 + - + +
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Residues in contact with VAL 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C LEU* 3.0 30.9 + - + +
207C LEU* 3.5 9.9 - - - +
209C MET* 1.3 81.7 - - - +
211C LEU* 1.3 73.3 + - + +
213C VAL* 3.6 4.0 + - - +
214C SER* 3.0 29.5 + - - +
1000C ARC 4.3 24.0 - - + -
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Residues in contact with LEU 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C LEU* 4.0 18.1 - - + +
184C ALA* 3.5 29.6 - - + -
185C TYR* 3.4 25.6 - - + +
188C VAL* 4.1 17.0 - - + -
207C LEU* 3.0 24.5 + - + +
208C PHE* 4.0 5.8 - - + +
210C VAL* 1.3 81.6 - - + +
212C ASP* 1.3 58.7 + - - +
214C SER* 3.4 5.7 + - - -
215C ALA* 2.9 35.2 + - - +
1000C ARC 3.5 40.2 - - + -
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Residues in contact with ASP 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C MET* 3.4 16.3 - - + +
57C TYR* 2.9 32.1 + - + +
82C ARG* 4.4 4.3 + - - -
85C ASP* 5.5 1.0 - - - +
86C TRP* 3.4 15.5 + - - -
185C TYR* 2.8 23.7 + - - -
208C PHE* 2.8 29.4 + - - +
209C MET 4.1 1.6 - - - +
210C VAL 3.4 0.2 - - - -
211C LEU* 1.3 71.8 - - - +
213C VAL* 1.3 65.0 + - - +
215C ALA 3.8 0.2 - - - -
216C LYS* 3.1 38.0 + - - +
999C RET 3.2 16.0 - - - +
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Residues in contact with VAL 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C GLY* 4.8 5.2 - - - -
19C LEU* 3.7 47.6 - - + -
20C MET* 3.6 17.0 - - + -
57C TYR* 6.1 0.4 - - + -
209C MET* 2.9 33.2 + - + +
210C VAL* 4.0 3.4 - - - +
212C ASP* 1.3 75.4 - - + +
214C SER* 1.3 59.9 + - - +
217C VAL* 2.9 44.5 + - + +
218C GLY 3.2 0.9 + - - -
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Residues in contact with SER 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C VAL* 5.2 1.4 - - - +
181C LEU* 3.0 29.9 - - - +
210C VAL* 3.0 19.8 + - - +
211C LEU* 3.4 4.5 + - - -
213C VAL* 1.3 77.0 - - - +
215C ALA* 1.3 57.6 + - - +
216C LYS 2.9 6.5 + - - -
218C GLY* 2.8 34.1 + - - +
219C PHE 3.0 3.6 + - - -
1000C ARC 6.1 0.2 - - - +
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Residues in contact with ALA 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 4.0 11.3 - - - +
177C VAL* 5.2 2.2 - - + -
178C THR* 6.0 0.4 - - - +
181C LEU* 3.3 24.2 - - + +
182C TRP* 4.7 7.7 + - + -
185C TYR* 4.2 4.3 - - + +
211C LEU 2.9 21.1 + - - +
212C ASP 4.2 2.0 - - - +
214C SER* 1.3 76.0 + - - +
216C LYS* 1.3 60.7 + - - +
219C PHE* 3.3 22.3 - - - +
999C RET 4.1 21.1 - - + -
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Residues in contact with LYS 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C MET* 3.7 15.9 - - + -
27C PHE* 4.8 1.2 - - - -
46C THR* 5.2 1.2 - - - +
49C VAL* 3.5 26.7 - - + +
50C PRO* 4.8 7.1 - - + +
53C ALA* 3.9 21.1 - - + -
85C ASP* 4.2 4.2 + - - -
86C TRP* 4.2 4.4 - - - -
89C THR* 3.2 21.0 - - - +
93C LEU* 4.5 4.1 - - + +
212C ASP* 3.1 25.9 + - - +
213C VAL 4.4 0.2 - - - +
214C SER 2.9 1.0 + - - -
215C ALA* 1.3 79.6 - - - +
217C VAL* 1.3 62.3 + - + +
218C GLY 3.3 0.9 - - - -
219C PHE* 3.7 2.5 - - - +
220C GLY* 2.7 34.0 + - - -
999C RET 1.3 74.8 - - + +
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Residues in contact with VAL 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 4.6 10.5 - - + +
20C MET* 4.0 27.4 - - - -
23C GLY* 4.0 23.8 - - - -
26C TYR* 6.4 0.2 - - + -
27C PHE* 3.6 20.7 - - + -
50C PRO* 4.8 7.0 - - + -
213C VAL* 2.9 28.6 + - + +
216C LYS* 1.3 72.7 - - + +
218C GLY* 1.3 60.2 + - - +
221C LEU* 3.1 24.3 + - + +
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Residues in contact with GLY 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C VAL* 5.8 1.1 - - - -
213C VAL 3.2 3.0 + - - -
214C SER* 2.8 20.8 + - - -
217C VAL* 1.3 77.0 - - - +
219C PHE* 1.3 62.7 + - - -
221C LEU* 3.2 15.1 + - - +
222C ILE* 3.2 22.8 + - - +
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Residues in contact with PHE 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C THR* 5.1 1.1 - - + -
93C LEU* 3.9 33.0 - - + -
96C ASP* 3.7 24.7 - - + -
97C LEU* 3.4 34.1 - - + -
174C LEU* 3.6 25.6 - - + +
177C VAL* 4.9 10.1 - - + +
178C THR* 3.6 33.2 - - + -
214C SER 3.0 5.6 + - - +
215C ALA* 3.3 26.5 - - - +
216C LYS 3.7 2.5 - - - +
218C GLY* 1.3 72.4 - - - +
220C GLY* 1.3 69.1 + - - +
221C LEU 3.0 1.2 + - - -
222C ILE* 3.2 9.1 + - - +
223C LEU* 3.1 27.8 + - + +
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Residues in contact with GLY 220 (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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27C PHE* 3.7 9.6 - - - -
46C THR* 3.3 26.9 - - - -
216C LYS 2.7 21.5 + - - -
217C VAL 3.8 2.0 - - - -
218C GLY 3.2 0.4 - - - -
219C PHE* 1.3 77.5 - - - +
221C LEU* 1.3 54.8 + - - +
223C LEU* 3.7 1.2 + - - +
224C LEU* 3.1 36.0 + - - +
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Residues in contact with LEU 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C TYR* 3.7 23.6 - - + +
27C PHE* 3.6 22.9 - - + -
30C LYS* 4.7 10.1 - - - +
217C VAL* 3.1 18.6 + - + +
218C GLY* 3.5 9.9 - - - +
219C PHE 3.1 0.8 - - - -
220C GLY* 1.3 72.4 - - - +
222C ILE* 1.3 69.9 + - + +
223C LEU 2.8 3.2 + - - -
224C LEU* 3.2 11.1 + - - -
225C ARG* 3.3 26.1 + - + +
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Residues in contact with ILE 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C THR* 4.5 5.0 - - + +
173C VAL* 3.4 40.6 - - + -
174C LEU* 3.9 18.4 - - + -
177C VAL* 3.7 22.4 - - + -
218C GLY 3.2 15.8 + - - +
219C PHE* 3.7 8.7 - - - +
221C LEU* 1.3 77.0 - - + +
223C LEU* 1.3 59.5 + - - +
225C ARG* 4.1 4.0 + - - +
226C SER* 3.4 21.2 + - - +
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Residues in contact with LEU 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C PHE* 4.4 17.3 - - + -
46C THR* 3.6 10.5 - - - +
96C ASP* 3.2 40.8 - - + +
97C LEU* 5.6 0.2 - - + -
100C LEU* 4.4 16.4 - - + -
170C THR* 4.1 11.7 - - + -
174C LEU* 3.5 28.0 - - + -
219C PHE* 3.1 23.1 + - + +
220C GLY 3.9 3.4 - - - +
221C LEU 2.8 1.8 + - - -
222C ILE* 1.3 74.6 - - - +
224C LEU* 1.3 59.7 + - + +
225C ARG 2.8 11.8 + - - -
226C SER* 3.0 17.5 + - - -
227C ARG 4.4 1.7 + - - -
228C ALA 5.9 0.9 - - - +
229C ILE* 5.6 8.0 - - + +
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Residues in contact with LEU 224 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C PHE* 3.8 33.7 - - + -
30C LYS* 2.9 25.5 + - + +
42C PHE* 3.9 14.6 - - + +
43C TYR* 3.5 69.1 + - + +
46C THR* 4.0 17.3 - - + +
220C GLY 3.1 22.3 + - - +
221C LEU* 3.2 2.4 + - - +
223C LEU* 1.3 74.8 - - + +
225C ARG* 1.3 56.2 + - - +
226C SER 3.7 0.7 - - - -
227C ARG 5.2 1.6 - - - -
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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