Contacts of the helix formed by residues 262 - 298 (chain D) in PDB entry 1KYO
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 GLU 262 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C MET* 4.7 12.9 - - - +
76C TYR* 3.6 45.1 - - + -
80C TYR* 4.2 15.2 + - + -
182D LYS* 4.9 0.9 + - - -
259D ALA 4.5 1.2 - - - +
260D GLU* 3.5 26.9 - - - +
261D PRO* 1.3 81.8 - - + +
263D HIS* 1.3 67.6 + - - +
264D ASP 3.7 0.2 - - - -
265D GLU* 3.0 12.7 + - - +
266D ARG* 2.8 55.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 263 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78D HIS* 4.1 14.7 + - + +
83D GLU 3.4 12.3 - - - -
85D PHE* 3.3 42.5 - + + -
256D ASN* 5.5 0.7 - - - -
260D GLU* 3.0 25.2 + - + +
261D PRO 3.1 2.4 - - - +
262D GLU* 1.3 79.1 - - - +
264D ASP* 1.3 88.6 + - - +
266D ARG* 2.9 34.1 + - - +
267D LYS* 3.1 53.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 264 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84D THR* 3.2 24.1 - - + +
85D PHE* 2.9 19.7 + - - +
87D HIS* 2.7 35.0 + - - -
261D PRO 4.8 1.6 + - - -
262D GLU 3.7 0.8 - - - -
263D HIS* 1.3 100.3 + - - +
265D GLU* 1.3 64.0 + - - +
268D ARG* 3.2 13.5 + - - +
40I TYR* 3.0 26.5 + - + -
48I LEU* 5.8 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 265 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C ASN* 5.7 2.1 + - - +
76C TYR* 3.5 19.3 - - + +
261D PRO 5.7 0.4 - - - +
262D GLU* 3.0 12.6 + - - +
264D ASP* 1.3 77.2 - - - +
266D ARG* 1.3 62.7 + - - +
268D ARG* 2.7 40.0 + - - +
269D LEU* 3.2 40.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 266 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C TYR* 4.0 28.9 + - + -
80C TYR* 4.6 3.6 - - - -
244C VAL 4.0 15.3 - - - -
245C PHE* 2.7 54.3 + - + +
246C TYR* 4.5 3.0 + - - +
248C PRO* 4.0 20.0 - - - +
260D GLU* 2.8 30.9 + - - -
262D GLU* 2.8 35.9 + - + +
263D HIS* 2.9 26.5 + - - +
265D GLU* 1.3 78.0 - - - +
267D LYS* 1.3 66.7 + - - +
268D ARG 3.2 0.2 + - - -
269D LEU* 3.2 2.3 + - - +
270D GLY* 2.9 24.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 267 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C TYR* 3.2 24.0 + - + -
78D HIS 2.8 19.6 + - - -
79D ASN* 4.6 0.6 - - - +
80D GLY 2.6 36.0 + - - +
81D PRO* 3.8 20.8 - - + +
83D GLU 3.1 12.8 - - - +
263D HIS* 3.1 39.5 + - - +
264D ASP 3.4 0.2 + - - -
266D ARG* 1.3 90.0 - - - +
268D ARG* 1.3 58.8 + - - +
270D GLY* 3.7 0.4 - - - -
271D LEU* 3.1 22.3 + - - +
40I TYR* 3.5 18.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 268 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264D ASP 3.2 12.9 + - - +
265D GLU* 2.7 49.9 + - - +
266D ARG 3.1 1.0 - - - -
267D LYS* 1.3 75.2 - - - +
269D LEU* 1.3 81.1 + - - +
271D LEU* 3.2 13.9 + - - +
272D LYS* 3.2 19.0 + - - +
33I ASP* 3.2 25.7 + - - -
36I ILE* 4.2 8.6 - - + +
37I THR* 3.3 31.1 + - - +
40I TYR* 3.7 39.7 + - + -
41I GLU* 6.3 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 269 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C ASN* 5.1 5.2 - - - +
76C TYR* 3.6 22.9 - - - +
77C ILE* 4.0 17.9 - - + -
245C PHE* 3.7 12.6 - - + -
265D GLU* 3.2 22.6 + - - +
266D ARG 3.7 5.4 - - - +
268D ARG* 1.3 101.9 - - - +
270D GLY* 1.3 66.8 + - - +
272D LYS* 3.1 16.7 + - + +
273D THR* 2.8 29.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 270 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245C PHE* 3.6 32.8 - - - -
246C TYR* 3.1 14.4 - - - -
266D ARG 2.9 11.9 + - - -
267D LYS 3.8 1.1 - - - -
268D ARG 3.1 0.2 - - - -
269D LEU* 1.3 77.2 - - - +
271D LEU* 1.3 55.9 + - - +
273D THR* 3.2 1.6 + - - -
274D VAL* 2.9 35.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 271 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C TYR* 2.8 15.4 + - - +
82D PHE* 3.7 26.7 - - + -
267D LYS 3.1 7.1 + - - +
268D ARG* 3.5 9.6 - - - +
269D LEU 3.2 0.4 - - - -
270D GLY* 1.3 76.1 - - - +
272D LYS* 1.3 62.0 + - - +
274D VAL* 4.7 3.4 - - + +
275D ILE* 3.1 51.3 + - + +
36I ILE* 4.0 22.0 - - + -
39I TRP* 3.8 35.4 - - + -
40I TYR* 5.0 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 272 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268D ARG* 3.5 18.1 - - - +
269D LEU* 3.1 24.0 + - + +
271D LEU* 1.3 77.1 - - - +
273D THR* 1.3 57.9 + - - +
275D ILE* 3.6 1.8 - - - +
276D ILE* 3.0 38.7 + - + +
73E SER* 5.5 3.4 + - - -
29I GLN* 4.6 10.9 + - - +
32I PHE* 3.6 36.6 - - + -
33I ASP* 3.2 39.8 + - - +
36I ILE* 3.9 18.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 273 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C ALA* 3.5 17.9 - - + -
245C PHE* 3.8 24.2 - - + -
269D LEU* 2.8 17.8 + - - +
270D GLY* 3.5 4.9 - - - -
272D LYS* 1.3 74.0 - - - +
274D VAL* 1.3 61.4 + - - +
276D ILE* 3.9 3.7 - - - +
277D LEU* 2.9 54.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 274 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C LEU* 3.9 17.0 - - + +
241C ALA* 4.8 10.5 - - + -
242C LEU* 3.6 35.4 - - + +
246C TYR* 3.7 13.0 - - + -
270D GLY* 2.9 24.9 + - - +
271D LEU* 4.3 4.9 - - + +
273D THR* 1.3 72.1 - - - +
275D ILE* 1.3 60.7 + - + +
278D SER* 2.5 42.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 275 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271D LEU* 3.1 38.0 + - + +
272D LYS 3.6 2.9 - - - +
274D VAL* 1.3 80.2 - - + +
276D ILE* 1.3 66.2 + - + +
278D SER* 3.3 4.9 - - - -
279D SER* 3.1 28.9 + - - +
32I PHE* 4.2 17.7 - - + -
36I ILE* 3.6 29.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 276 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272D LYS* 3.0 20.7 + - + +
273D THR* 4.0 3.8 - - - +
275D ILE* 1.3 75.8 - - + +
277D LEU* 1.3 65.1 + - + +
279D SER* 3.1 9.2 + - - -
280D LEU* 2.9 39.4 + - + +
66E LEU* 4.2 24.2 - - + +
69E ALA* 5.4 4.7 - - + -
70E GLY* 5.4 8.7 - - - +
28I PHE* 3.8 23.1 - - + -
29I GLN* 6.0 1.6 - - - +
32I PHE* 3.8 28.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 277 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C PHE* 4.3 22.8 - - + +
237C MET* 3.9 38.6 - - + -
238C LEU* 4.0 16.8 - - + +
241C ALA* 3.8 15.9 - - + -
273D THR* 2.9 43.6 + - + +
276D ILE* 1.3 76.0 - - + +
278D SER* 1.3 57.7 + - - +
280D LEU* 3.2 13.0 + - + +
281D TYR* 2.9 30.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 278 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C LEU* 3.7 18.8 - - - +
274D VAL* 2.5 30.5 + - - +
275D ILE* 3.3 6.1 - - - -
277D LEU* 1.3 76.2 - - - +
279D SER* 1.3 59.1 + - - +
281D TYR* 3.4 8.2 + - - +
282D LEU* 3.0 38.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 279 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275D ILE* 3.1 20.2 + - - +
276D ILE* 3.4 8.4 - - - -
278D SER* 1.3 76.2 - - - +
280D LEU* 1.3 56.4 + - - +
282D LEU* 3.2 9.1 + - - +
283D LEU* 2.8 45.7 + - - +
66E LEU* 3.7 21.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 280 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C PHE* 3.7 42.1 - - + -
276D ILE* 2.9 32.3 + - + +
277D LEU* 3.5 16.6 - - + +
279D SER* 1.3 76.8 - - - +
281D TYR* 1.3 57.1 + - - +
283D LEU* 3.8 4.7 - - + +
284D SER* 2.8 33.1 + - - -
63E MET* 4.2 17.5 - - + +
66E LEU* 3.2 45.3 - - + +
67E SER* 4.1 8.7 - - - +
70E GLY* 5.9 2.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 281 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231C VAL* 3.7 32.3 - - + +
234C PHE* 3.9 10.9 - - + +
235C LEU* 3.6 46.4 - - + +
238C LEU* 5.2 7.9 - - + -
277D LEU 2.9 14.8 + - - +
278D SER* 3.4 12.6 - - - +
279D SER 3.2 0.2 - - - -
280D LEU* 1.3 75.2 - - - +
282D LEU* 1.3 73.7 + - + +
284D SER* 2.5 23.4 + - - -
285D ILE* 3.1 36.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 282 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278D SER* 3.0 22.5 + - - +
279D SER* 3.7 5.8 - - - +
281D TYR* 1.3 86.8 - - + +
283D LEU* 1.3 67.0 + - + +
285D ILE* 3.0 30.1 + - + +
286D TRP* 3.2 11.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 283 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279D SER* 2.8 39.5 + - - +
280D LEU* 3.8 6.5 - - - +
282D LEU* 1.3 72.2 - - + +
284D SER* 1.3 58.9 + - - +
286D TRP* 3.0 7.9 + - - +
287D VAL* 2.8 33.1 + - + +
58E PHE* 5.7 0.7 - - + -
59E MET* 3.6 47.6 - - + +
62E ALA* 4.6 12.8 - - + -
63E MET* 4.2 27.4 - - + +
66E LEU* 4.5 12.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 284 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227C PHE* 4.8 2.4 - - - +
230C LEU* 4.5 4.5 - - - -
231C VAL* 3.4 27.4 - - - +
234C PHE* 3.7 20.5 - - - -
280D LEU 2.8 17.7 + - - -
281D TYR* 2.5 23.7 + - - -
283D LEU* 1.3 77.6 - - - +
285D ILE* 1.3 55.4 + - - +
287D VAL* 3.7 2.5 - - - +
288D LYS* 2.9 30.1 + - - +
63E MET* 4.0 13.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 285 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 6.1 0.9 - - - +
231C VAL* 3.8 14.6 - - + -
281D TYR* 3.2 51.6 - - + +
282D LEU* 3.0 19.6 + - + +
284D SER* 1.3 81.7 + - - +
286D TRP* 1.3 64.2 + - - +
288D LYS* 3.3 4.7 + - + +
289D LYS* 3.1 50.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 286 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282D LEU 3.2 6.6 + - - +
283D LEU* 3.0 9.5 + - - +
285D ILE* 1.3 81.8 - - - +
287D VAL* 1.3 66.4 + - + +
289D LYS* 4.6 4.5 - - + -
290D PHE* 3.4 20.6 + + + -
52E GLY 4.8 0.9 - - - -
55E TYR* 3.9 21.4 - + + -
56E ALA* 3.5 35.0 - - + -
59E MET* 3.2 44.6 - - + -
60E VAL* 6.1 0.2 - - + -
36H PRO* 4.6 5.9 + - + -
37H LEU* 3.0 61.0 + - + +
40H ILE* 6.6 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 287 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227C PHE* 3.9 30.3 - - + -
283D LEU* 2.8 25.8 + - - +
284D SER* 3.8 6.5 - - - +
286D TRP* 1.3 79.7 - - + +
288D LYS* 1.3 64.5 + - - +
290D PHE* 3.1 13.0 + - + +
291D LYS* 3.0 27.4 + - + +
59E MET* 4.1 23.8 - - + +
60E VAL* 4.3 22.2 - - + +
63E MET* 4.1 17.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 288 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 3.6 28.0 + - - +
227C PHE* 4.3 9.8 - - - +
228C LYS* 4.0 31.1 - - - +
231C VAL* 3.9 8.1 - - + -
284D SER 2.9 18.6 + - - +
285D ILE* 3.6 6.5 - - + +
287D VAL* 1.3 75.6 - - - +
289D LYS* 1.3 71.9 + - + +
291D LYS* 3.2 7.0 + - - +
292D TRP* 3.0 70.5 + - + +
296D LYS* 4.2 21.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 289 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285D ILE* 3.1 32.9 + - + +
286D TRP* 4.6 4.7 - - + -
287D VAL 3.3 0.2 - - - -
288D LYS* 1.3 88.6 - - + +
290D PHE* 1.3 57.8 + - - +
292D TRP* 3.4 4.4 + - - +
293D ALA* 2.9 30.0 + - - +
296D LYS* 5.7 2.8 - - - +
37H LEU* 3.4 36.0 - - + +
38H GLN 5.5 1.0 + - - -
40H ILE* 3.9 33.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 290 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A MET* 4.0 20.6 - - + -
286D TRP* 3.4 27.1 + + + +
287D VAL* 3.1 10.9 + - + +
289D LYS* 1.3 80.2 - - - +
291D LYS* 1.3 76.4 + - + +
293D ALA* 3.3 19.7 - - - +
52E GLY* 4.0 9.9 - - - -
56E ALA* 3.3 35.7 - - + -
57E TYR* 5.4 1.8 - + - -
60E VAL* 6.0 4.7 - - + -
31H PRO* 3.3 33.3 - - + +
32H TYR* 4.2 35.2 - + - -
37H LEU* 3.4 9.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 291 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A MET* 3.8 35.7 - - + +
449A SER* 5.8 2.0 + - - -
223C SER* 4.6 25.0 + - - +
224C TYR* 3.6 15.2 + - - -
227C PHE* 3.9 45.7 - - + -
287D VAL* 3.0 27.1 + - + +
288D LYS* 3.8 5.8 - - - +
290D PHE* 1.3 85.7 - - + +
292D TRP* 1.3 67.4 + - + +
293D ALA 3.4 0.7 + - - -
294D GLY* 4.2 3.5 + - - -
60E VAL* 6.1 3.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 292 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C SER 4.0 14.1 - - - -
26C ILE 5.5 0.2 - - - -
219C ILE* 3.5 23.3 - - + -
224C TYR* 3.0 50.2 + + + +
225C PHE* 3.6 30.5 - + - -
227C PHE* 5.7 0.9 - - + -
228C LYS* 4.2 13.3 - - + +
288D LYS* 3.0 57.3 + - + +
289D LYS* 3.6 4.7 - - - +
291D LYS* 1.3 78.9 - - + +
293D ALA* 1.3 64.9 + - - +
294D GLY 3.3 2.2 - - - -
295D ILE* 3.1 24.5 + - + +
296D LYS* 2.9 44.0 + - + +
83G LEU* 4.9 6.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 293 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289D LYS 2.9 13.2 + - - +
290D PHE* 3.3 18.2 - - + +
291D LYS 3.2 1.2 - - - -
292D TRP* 1.3 76.1 - - - +
294D GLY* 1.3 64.7 + - - +
296D LYS* 4.4 5.2 - - - -
297D THR* 3.1 31.7 + - + +
31H PRO* 3.8 14.1 - - + +
34H GLN* 3.8 19.7 - - + +
37H LEU* 5.3 6.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 294 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444A TYR* 6.1 4.5 - - - -
445A MET* 5.8 3.1 - - - -
224C TYR* 5.9 1.1 - - - -
291D LYS 4.2 2.5 + - - -
292D TRP 3.3 1.0 - - - -
293D ALA* 1.3 79.6 - - - +
295D ILE* 1.3 63.4 + - - +
297D THR* 3.7 3.1 + - - -
298D ARG* 3.4 19.8 + - - +
28H ALA* 4.1 11.4 - - - +
29H VAL 3.8 21.1 - - - -
31H PRO* 3.6 13.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 295 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443A ASP* 4.9 7.6 - - + -
219C ILE* 4.1 26.0 - - + -
224C TYR* 3.8 35.4 - - + +
292D TRP* 3.1 21.6 + - + +
294D GLY* 1.3 75.3 - - - +
296D LYS* 1.3 65.8 + - - +
298D ARG* 3.1 44.2 - - - +
80G GLN* 3.1 8.7 + - - +
83G LEU* 3.7 28.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 296 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288D LYS* 4.2 21.0 - - - +
289D LYS* 5.7 3.5 - - - +
292D TRP* 2.9 36.0 + - + +
293D ALA* 3.3 6.9 + - - +
295D ILE* 1.3 76.5 - - - +
297D THR* 1.3 61.7 + - + +
80G GLN* 3.2 16.8 + - - -
83G LEU* 3.4 35.9 + - + +
84G THR* 3.3 22.9 + - + +
85G HIS* 4.3 16.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 297 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293D ALA* 3.1 14.7 + - - +
294D GLY 3.7 3.8 + - - -
296D LYS* 1.3 78.2 - - + +
298D ARG* 1.3 69.2 + - - +
299D LYS* 3.5 22.2 + - - +
39E PHE* 3.9 11.9 - - - -
42E VAL* 3.6 31.8 - - + +
29H VAL 4.8 3.1 + - - -
34H GLN* 3.3 34.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 298 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A GLU* 5.7 2.5 - - - -
24C SER* 4.1 2.8 + - - -
217C ASP* 2.7 42.4 + - - -
219C ILE* 5.3 3.4 - - - +
294D GLY 3.4 8.8 + - - +
295D ILE* 3.1 38.5 + - - +
296D LYS 3.3 0.8 - - - -
297D THR* 1.3 83.4 + - - +
299D LYS* 1.3 65.6 + - - +
300D PHE* 3.5 27.2 - - + -
39E PHE* 5.1 0.4 - - - -
80G GLN* 2.9 46.0 + - - +
83G LEU* 3.9 12.1 - - - +
26H SER* 5.0 6.5 - - - -
27H TYR 3.8 13.5 - - - +
28H ALA* 4.3 12.8 - - + +
----------------------------------------------------------
Back to top of page
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