Contacts of the helix formed by residues 220 - 246 (chain C) in PDB entry 1L0N
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 PHE 220 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17C ALA 5.2 2.2 - - - -
18C PHE* 3.0 50.3 - + + +
19C ILE 3.5 3.5 + - - +
21C LEU* 2.8 39.8 + - + +
23C ALA* 4.6 5.6 - - + -
27C ILE* 6.0 2.5 - - + -
218C ILE 4.4 0.9 - - - -
219C PRO* 1.3 72.4 - - - +
221C HIS* 1.3 66.7 + - - +
224C TYR* 3.2 45.8 + + + -
225C THR* 3.4 20.9 + - + -
228C ASP* 3.4 24.2 - - - -
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Residues in contact with HIS 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436A ARG* 3.8 21.1 - - + +
18C PHE 4.0 7.9 - - - +
19C ILE* 3.1 30.8 + - + +
219C PRO* 2.9 7.5 - - - +
220C PHE* 1.3 87.4 - - - +
222C PRO* 1.3 95.0 - - + +
223C TYR* 2.1 6.9 + - - +
225C THR* 3.0 32.7 + - + +
226D LYS* 6.3 0.4 - - - -
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Residues in contact with PRO 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433A ASP* 4.8 3.4 - - - +
435A ASN* 3.7 29.4 - - + +
436A ARG* 3.5 23.8 - - + -
439A SER* 6.5 0.2 - - - -
219C PRO* 5.0 4.9 - - + -
221C HIS* 1.3 107.4 - - + +
223C TYR* 1.3 66.2 + - + +
225C THR* 3.1 14.7 + - - +
226C ILE* 3.1 18.9 + - + +
226D LYS* 3.6 34.5 - - + +
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Residues in contact with TYR 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433A ASP* 2.8 47.2 + - + -
435A ASN* 2.9 13.9 + - - -
218C ILE* 3.6 30.7 - - + -
219C PRO* 3.8 18.2 - - + +
221C HIS 2.1 9.1 + - - +
222C PRO* 1.3 73.2 - - + +
224C TYR* 1.3 61.7 + - + +
227C LYS* 3.3 12.6 + - - +
226D LYS 3.1 25.8 - - - -
227D TRP* 2.8 52.3 + + + +
229D VAL* 3.7 7.8 - - - +
230D LEU* 3.5 31.2 - - + +
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Residues in contact with TYR 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ALA* 3.9 21.3 - - + -
24C PRO 2.7 28.6 + - - -
25C SER 3.6 3.6 - - - -
27C ILE* 3.0 41.5 + - + +
32C ASN* 5.8 1.3 - - - -
218C ILE* 3.8 14.6 - - + -
220C PHE* 3.2 35.2 + + + -
221C HIS 3.2 3.6 + - - -
223C TYR* 1.3 81.5 - - + +
225C THR* 1.3 62.7 + - - +
226C ILE 3.4 0.4 - - - -
227C LYS* 3.8 24.9 - - + +
228C ASP* 2.9 33.1 + - - +
227D TRP* 3.5 30.3 - + - -
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Residues in contact with THR 225 (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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18C PHE* 3.9 10.1 - - + +
19C ILE* 5.8 1.6 - - + -
220C PHE* 3.4 29.2 + - + +
221C HIS* 3.0 35.6 + - + +
222C PRO* 3.1 7.8 + - - +
224C TYR* 1.3 74.8 - - - +
226C ILE* 1.3 65.0 + - - +
228C ASP* 2.9 21.9 + - - +
229C ILE* 2.9 22.8 + - - +
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Residues in contact with ILE 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222C PRO* 3.1 17.3 + - + +
223C TYR 4.1 3.8 - - - +
225C THR* 1.3 84.4 + - - +
227C LYS* 1.3 62.6 + - - +
229C ILE* 3.5 14.6 + - + +
230C LEU* 3.3 18.7 + - - +
219D VAL* 4.1 5.8 - - + +
222D MET* 3.8 29.6 - - + +
223D LYS* 3.7 47.0 - - + +
226D LYS* 4.9 14.8 - - + -
227D TRP* 4.4 5.8 - - + +
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Residues in contact with LYS 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C ILE* 3.3 26.6 + - - -
28C SER* 4.1 12.9 - - - +
29C SER* 4.3 5.2 + - - +
32C ASN* 3.5 32.8 - - - +
223C TYR 3.3 18.3 + - - +
224C TYR* 4.0 24.7 - - + -
225C THR 3.2 0.8 - - - -
226C ILE* 1.3 79.1 - - - +
228C ASP* 1.3 61.0 + - - +
230C LEU* 3.7 5.5 + - + +
231C GLY 3.0 19.2 + - - -
223D LYS* 3.9 37.0 - - + +
227D TRP* 4.3 7.7 - - + -
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Residues in contact with ASP 228 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C TRP 5.4 0.5 - - - +
32C ASN* 4.1 18.7 + - - +
35C SER* 3.5 35.3 + - - +
36C LEU* 5.1 0.2 - - - +
220C PHE* 3.4 19.5 - - - -
224C TYR* 2.9 24.6 + - - +
225C THR* 2.9 6.5 + - - +
227C LYS* 1.3 78.6 - - - +
229C ILE* 1.3 56.8 + - + +
231C GLY* 3.1 1.3 + - - +
232C ALA* 2.6 36.0 + - - +
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Residues in contact with ILE 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225C THR* 2.9 20.7 + - - +
226C ILE* 3.6 20.6 - - + +
227C LYS 3.3 0.2 - - - -
228C ASP* 1.3 75.0 - - + +
230C LEU* 1.3 56.5 + - - +
232C ALA* 2.7 30.2 + - - +
233C LEU* 2.9 13.2 + - + +
219D VAL* 4.2 18.2 - - + -
222D MET* 5.4 5.4 - - + -
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Residues in contact with LEU 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226C ILE 3.3 12.2 + - - +
227C LYS* 3.9 6.3 - - + +
229C ILE* 1.3 78.3 - - - +
231C GLY* 1.3 62.2 + - - +
233C LEU* 3.3 18.0 - - + +
234C LEU* 3.3 18.5 + - + +
216D LEU* 4.0 24.7 - - + +
219D VAL* 3.7 29.8 - - + +
220D TYR* 4.0 35.4 - - + +
223D LYS* 4.2 30.1 - - + -
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Residues in contact with GLY 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ASN* 4.1 13.5 - - - -
36C LEU* 3.5 19.8 - - - +
227C LYS 3.0 15.3 + - - -
228C ASP 3.1 5.6 + - - -
229C ILE 2.8 2.6 + - - -
230C LEU* 1.3 74.5 - - - +
232C ALA* 1.3 61.9 + - - -
234C LEU* 3.3 18.3 + - - +
235C LEU 3.3 8.0 + - - -
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Residues in contact with ALA 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU* 3.6 11.6 - - + +
39C ILE* 3.9 32.7 - - + +
228C ASP 2.6 16.1 + - - +
229C ILE* 2.7 11.5 + - - +
231C GLY* 1.3 72.3 - - - -
233C LEU* 1.3 55.8 + - - +
235C LEU* 3.0 5.1 + - - +
236C ILE* 2.9 33.3 + - + +
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Residues in contact with LEU 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229C ILE* 2.9 11.6 + - + +
230C LEU* 3.3 11.7 - - - +
232C ALA* 1.3 78.6 - - - +
234C LEU* 1.3 56.9 + - - +
236C ILE* 3.2 11.7 + - + +
237C LEU* 3.0 26.0 + - - +
212D MET* 4.1 20.1 - - + +
215D LEU* 4.2 16.2 - - + -
216D LEU* 3.9 37.0 - - + +
219D VAL* 3.8 33.0 - - + -
47E VAL* 6.1 3.6 - - + -
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Residues in contact with LEU 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230C LEU* 3.3 23.3 + - + +
231C GLY* 3.3 11.5 + - - +
232C ALA 3.2 0.6 - - - -
233C LEU* 1.3 74.2 - - - +
235C LEU* 1.4 64.9 + - - +
237C LEU* 3.4 11.1 + - + +
238C ALA* 3.0 23.4 + - - +
216D LEU* 3.8 34.5 - - + -
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Residues in contact with LEU 235 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU* 3.8 27.6 - - + +
39C ILE* 3.8 26.2 - - + -
40C CYS* 3.6 25.4 - - - -
43C LEU* 5.8 4.5 - - + -
89C MET* 3.7 19.7 - - + -
93C CYS* 3.6 30.7 - - - -
231C GLY 3.3 4.4 + - - -
232C ALA 3.0 10.6 + - - +
234C LEU* 1.4 75.0 - - - +
236C ILE* 1.3 59.2 + - + +
238C ALA* 3.3 5.9 + - - +
239C LEU* 2.8 36.7 + - + +
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Residues in contact with ILE 236 (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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39C ILE* 5.5 5.6 - - + -
43C LEU* 4.4 23.1 - - + -
232C ALA* 2.9 19.9 + - + +
233C LEU* 3.5 13.9 - - + +
235C LEU* 1.3 81.9 - - + +
237C LEU* 1.3 54.0 + - - +
239C LEU* 3.1 10.4 + - + -
240C MET* 2.6 52.9 + - + +
212D MET* 3.8 16.6 - - + -
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Residues in contact with LEU 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C LEU 3.0 13.4 + - - +
234C LEU* 3.6 17.3 - - + +
236C ILE* 1.3 75.2 - - - +
238C ALA* 1.3 56.0 + - - +
241C LEU* 2.7 61.4 + - + +
208D MET* 3.7 22.9 - - - -
209D LEU* 4.9 6.1 - - + -
212D MET* 3.8 23.1 - - + +
216D LEU* 3.8 25.6 - - + -
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Residues in contact with ALA 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C MET* 3.7 23.3 - - + -
234C LEU 3.0 14.3 + - - +
235C LEU* 3.7 7.9 - - - +
237C LEU* 1.3 75.8 - - - +
239C LEU* 1.3 64.2 + - - +
241C LEU* 3.6 8.1 - - - +
242C LEU* 2.9 27.7 + - + +
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Residues in contact with LEU 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C LEU* 3.6 36.6 - - + -
82C MET* 4.0 8.1 - - + +
85C ASN* 3.7 15.0 - - + -
86C GLY* 3.6 29.8 - - - +
89C MET* 3.7 20.1 - - + -
235C LEU* 2.8 25.7 + - + +
236C ILE* 3.5 11.0 - - + +
238C ALA* 1.3 72.4 - - - +
240C MET* 1.3 77.9 + - + +
242C LEU* 3.0 7.8 + - - +
243C VAL* 2.8 33.2 + - + +
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Residues in contact with MET 240 (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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82C MET* 3.6 45.5 - - + -
236C ILE* 2.6 42.3 + - + +
239C LEU* 1.3 85.0 - - + +
241C LEU* 1.3 60.2 + - - +
243C VAL* 3.8 12.3 - - + +
244C LEU* 2.8 48.0 + - + +
208D MET* 3.7 29.5 - - + +
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Residues in contact with LEU 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237C LEU* 2.7 38.8 + - + +
238C ALA* 3.6 7.0 - - - +
240C MET* 1.3 70.5 - - - +
242C LEU* 1.3 66.4 + - + +
245C PHE* 3.3 50.0 + - + +
246C ALA* 3.7 1.9 + - - +
208D MET* 3.6 15.1 - - + +
209D LEU* 3.9 15.9 - - + -
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Residues in contact with LEU 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C ASN* 3.3 37.0 - - + +
88C SER* 5.1 0.2 - - - -
89C MET* 5.0 11.7 - - - -
238C ALA* 2.9 15.2 + - + +
239C LEU* 3.0 10.2 + - - +
241C LEU* 1.3 75.8 - - + +
243C VAL* 1.3 58.0 + - - +
246C ALA* 2.9 46.4 + - + +
249C LEU* 4.9 17.3 - - + -
250C LEU* 3.8 29.4 - - + +
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Residues in contact with VAL 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C TRP* 5.4 0.6 - - + -
78C ILE* 4.3 8.5 - - + -
81C TYR* 3.8 26.6 - - + +
82C MET* 4.0 12.1 - - + -
85C ASN* 3.5 33.4 - - + +
239C LEU* 2.8 24.2 + - + +
240C MET* 3.8 27.1 - - + -
242C LEU* 1.3 71.8 - - - +
244C LEU* 1.3 73.6 + - + +
247C PRO* 3.2 20.3 - - - +
201D ARG* 4.6 2.6 - - - +
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Residues in contact with LEU 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C TRP* 4.2 11.9 - - + -
78C ILE* 4.1 25.4 - - + -
240C MET* 2.8 33.9 + - + +
243C VAL* 1.3 79.1 - - + +
245C PHE* 1.3 60.5 + - + +
247C PRO* 3.9 0.3 - - - +
201D ARG* 2.4 57.6 + - - +
204D MET* 4.1 13.2 - - + -
205D GLY* 3.7 31.0 - - - +
208D MET* 3.9 23.1 - - + -
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Residues in contact with PHE 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C LEU* 3.3 44.6 + - + +
244C LEU* 1.3 79.4 - - + +
246C ALA* 1.3 59.8 + - + +
247C PRO* 3.5 3.1 - - - +
17D LEU* 3.7 42.4 - - + -
18D LEU* 3.8 21.8 - - + -
201D ARG* 3.0 20.4 + - - +
202D LYS* 4.8 11.4 - - + -
205D GLY* 3.6 41.1 - - - -
208D MET* 4.1 4.5 - - + -
209D LEU* 3.7 20.4 - - + -
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Residues in contact with ALA 246 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C ASN* 4.7 1.0 + - - +
241C LEU 3.7 1.7 + - - +
242C LEU* 2.9 29.1 + - + +
245C PHE* 1.3 77.4 - - + +
247C PRO* 1.3 64.6 - - - +
248C ASP 3.3 2.5 - - - -
249C LEU* 3.2 44.3 + - + +
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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