Contacts of the helix formed by residues 304 - 338 (chain A) in PDB entry 2VWK
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 GLY 304 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294A GLU* 5.0 9.0 - - - +
298A ALA* 3.8 3.8 - - - -
302A GLY 3.8 0.6 + - - -
303A GLU* 1.3 74.2 - - - +
305A LEU* 1.3 64.0 + - - +
306A GLU 3.5 2.7 - - - -
307A ARG* 3.5 13.0 + - - +
308A VAL* 3.1 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 305 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A MET* 5.1 6.1 - - + -
174A ARG* 4.2 24.0 - - + -
175A ASN 4.1 19.3 - - - +
176A ILE* 4.1 29.1 - - + +
298A ALA* 3.4 31.6 - - + +
299A TRP* 5.2 0.9 - - + -
302A GLY* 3.5 30.4 + - - +
303A GLU 3.4 0.4 - - - -
304A GLY* 1.3 76.2 - - - +
306A GLU* 1.3 69.0 + - + +
308A VAL* 3.1 7.7 + - + +
309A ALA* 3.1 21.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 306 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ILE* 4.3 11.7 - - + -
177A ASP* 3.2 32.9 + - - +
178A LEU* 3.6 31.4 - - + +
180A TYR* 4.0 0.2 + - - -
304A GLY* 3.5 0.6 - - - -
305A LEU* 1.3 76.9 - - + +
307A ARG* 1.3 57.3 + - - +
309A ALA 3.6 0.3 + - - -
310A ARG* 3.1 25.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 307 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A VAL* 4.3 12.3 - - + +
294A GLU* 4.4 16.8 - - - +
304A GLY* 3.5 15.1 + - - +
305A LEU 3.2 0.2 - - - -
306A GLU* 1.3 77.0 - - - +
308A VAL* 1.3 59.3 + - + +
310A ARG* 3.5 7.0 + - - +
311A TYR* 3.1 26.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 308 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLU* 5.0 10.3 - - + -
159A MET* 3.9 21.1 - - + -
290A VAL* 4.8 1.6 - - + -
294A GLU* 4.4 3.8 - - + +
295A ILE* 3.5 40.6 - - + +
298A ALA* 3.8 21.1 - - + -
304A GLY 3.1 16.5 + - - +
305A LEU* 3.1 8.6 + - + +
307A ARG* 1.3 75.9 - - + +
309A ALA* 1.3 54.3 + - - +
311A TYR* 3.1 9.0 + - + +
312A SER* 2.7 34.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 309 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A MET* 3.8 21.4 - - + +
170A VAL* 3.5 4.7 - - + +
176A ILE* 4.3 6.5 - - + -
178A LEU* 3.7 24.5 - - + -
180A TYR* 3.3 6.2 - - - -
181A VAL* 3.9 16.6 - - + -
305A LEU 3.1 12.3 + - - +
306A GLU 3.8 2.0 - - - +
307A ARG 3.4 0.2 - - - -
308A VAL* 1.3 72.5 - - - +
310A ARG* 1.3 61.2 + - - +
312A SER* 4.3 0.4 - - - -
313A MET* 3.0 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 310 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A TYR* 3.1 20.5 + - + +
306A GLU 3.1 13.3 + - - +
307A ARG* 3.7 11.0 - - - +
309A ALA* 1.3 73.2 - - - +
311A TYR* 1.3 61.1 + - - +
313A MET* 3.4 4.4 - - - +
314A GLU* 2.8 36.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 311 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLU* 3.2 31.9 - - - -
276A GLU* 3.5 25.3 + - - -
288A GLU 4.4 8.7 - - - -
289A LYS* 4.4 2.7 - - + -
290A VAL* 3.4 59.6 + - + -
295A ILE* 4.8 11.0 - - + +
307A ARG 3.1 14.5 + - - +
308A VAL* 3.3 10.1 - - + +
310A ARG* 1.3 73.5 - - - +
312A SER* 1.3 60.8 + - - +
314A GLU* 3.0 9.0 + - + +
315A ASP* 2.8 43.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 312 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ASP 5.1 0.7 + - - -
142A ILE 5.4 0.2 - - - -
143A GLU* 3.5 21.4 + - - +
159A MET* 3.7 25.9 + - - +
161A SER* 3.0 34.2 + - - -
170A VAL* 3.9 7.8 - - - +
308A VAL 2.7 20.1 + - - -
309A ALA 3.9 0.7 - - - -
311A TYR* 1.3 73.7 - - - +
313A MET* 1.3 63.7 + - - +
315A ASP* 3.3 22.1 + - - +
316A ALA 3.3 1.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 313 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A SER* 4.4 2.7 - - - -
168A ALA* 3.8 30.8 - - + +
169A ARG 4.4 2.0 - - - +
170A VAL* 3.5 8.6 - - + +
180A TYR* 3.8 42.2 - - + -
309A ALA 3.0 20.3 + - - +
310A ARG* 3.4 5.2 - - - +
312A SER* 1.3 76.0 - - - +
314A GLU* 1.3 85.6 + - + +
316A ALA* 3.1 7.6 + - - +
317A LYS* 3.0 34.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 314 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A TYR* 6.0 0.9 - - - -
287A LYS 5.1 8.0 - - - +
288A GLU* 5.6 11.7 - - + +
310A ARG* 2.8 25.1 + - + +
311A TYR* 3.0 8.9 + - + +
313A MET* 1.3 90.6 - - + +
315A ASP* 1.3 65.3 + - - +
317A LYS* 4.4 8.7 - - - +
318A VAL* 2.9 42.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 315 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ASP* 3.7 27.6 - - + +
143A GLU* 2.9 26.2 - - - +
275A LEU* 3.4 23.9 - - + +
276A GLU* 3.8 5.9 - - - +
311A TYR* 2.8 42.2 + - - +
312A SER* 3.3 10.8 + - - +
314A GLU* 1.3 70.3 - - - +
316A ALA* 1.3 55.1 + - - +
318A VAL* 3.9 1.6 - - - +
319A THR* 2.7 38.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 316 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A ALA* 3.9 4.5 - - - +
140A PHE* 5.1 1.1 - - - +
141A ASP* 5.3 4.5 - - - +
161A SER* 4.0 14.1 + - - +
162A TYR* 3.5 42.4 - - - +
163A ALA* 3.4 8.3 - - + +
168A ALA* 4.7 0.2 - - + -
312A SER 3.3 0.8 + - - -
313A MET* 3.1 10.4 + - - +
315A ASP* 1.3 79.7 - - - +
317A LYS* 1.3 58.1 + - - +
319A THR* 3.1 7.4 + - - -
320A TYR* 2.8 26.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 317 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A ALA* 3.6 10.9 - - + +
167A GLY 6.4 0.2 - - - -
168A ALA* 4.3 8.3 - - + -
313A MET* 3.0 32.7 + - + +
314A GLU* 3.4 12.1 + - - +
316A ALA* 1.3 74.9 - - - +
318A VAL* 1.3 58.4 + - + +
320A TYR* 3.3 3.7 + - + +
321A GLU* 2.9 53.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 318 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275A LEU* 4.1 17.9 - - + +
279A TYR* 3.9 49.3 - - + -
287A LYS 5.9 2.5 - - - +
314A GLU* 2.9 34.5 + - + +
315A ASP* 3.9 2.9 - - - +
317A LYS* 1.3 72.6 - - + +
319A THR* 1.3 57.1 + - - +
321A GLU* 3.1 9.5 + - - +
322A LEU* 2.7 51.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 319 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A ALA* 3.6 17.0 - - + -
140A PHE 4.6 7.1 + - - +
141A ASP* 5.2 4.5 + - - +
207A ILE* 3.7 19.4 - - + +
208A THR* 4.1 1.6 - - - -
209A TYR* 4.0 23.7 + - + +
260A LEU* 3.4 13.7 - - + +
275A LEU* 3.8 18.9 - - - +
315A ASP* 2.7 25.9 + - - +
316A ALA* 3.1 6.3 + - - -
318A VAL* 1.3 75.9 - - - +
320A TYR* 1.3 57.2 + - - +
322A LEU* 4.5 1.1 - - - -
323A GLY* 2.9 23.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 320 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A MET* 3.5 38.1 + - + +
139A ALA* 3.5 14.9 - - + +
163A ALA* 3.3 28.7 - - + -
164A ASP* 3.5 22.4 - - - -
165A GLU* 2.5 40.3 + - - +
207A ILE* 4.2 8.0 - - + +
316A ALA 2.8 16.1 + - - +
317A LYS* 3.4 9.4 - - + +
319A THR* 1.3 73.6 - - - +
321A GLU* 1.3 65.7 + - + +
323A GLY* 3.1 3.6 + - - -
324A LYS* 2.9 44.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 321 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A TYR* 3.8 26.2 + - + -
283A PHE* 4.3 18.6 - - + -
317A LYS* 2.9 41.8 + - + +
318A VAL* 3.7 5.7 + - - +
320A TYR* 1.3 80.0 - - + +
322A LEU* 1.3 66.3 + - - +
324A LYS* 3.1 18.4 + - - +
325A GLU* 3.2 15.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 322 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A TYR* 5.2 3.8 - - + -
260A LEU* 3.8 16.2 - - + -
264A ILE* 5.4 2.0 - - + -
275A LEU* 4.1 18.6 - - + +
278A VAL* 4.1 33.2 - - + -
279A TYR* 4.5 9.9 - - + +
282A ILE* 4.5 4.7 - - + -
283A PHE* 4.2 23.1 - - + -
318A VAL* 2.7 42.4 + - + +
319A THR 3.8 3.8 - - - +
321A GLU* 1.3 71.4 - - - +
323A GLY* 1.3 60.4 + - - +
325A GLU* 3.1 5.4 + - - +
326A PHE* 3.1 44.3 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 323 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A MET* 4.2 6.3 - - - +
207A ILE* 4.1 15.0 - - - -
258A PHE* 4.1 2.9 - - - -
260A LEU* 3.8 15.0 - - - +
319A THR 2.9 15.8 + - - -
320A TYR 3.1 4.7 + - - -
322A LEU* 1.3 77.9 - - - +
324A LYS* 1.3 56.1 + - - +
327A PHE* 3.1 35.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 324 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A MET* 3.9 21.3 - - + -
165A GLU* 4.8 3.6 - - - +
320A TYR* 2.9 39.6 + - + +
321A GLU* 3.1 12.0 + - - +
323A GLY* 1.3 74.9 - - - +
325A GLU* 1.3 63.4 + - + +
327A PHE* 5.1 0.4 - - - -
328A PRO* 3.5 17.5 - - - +
481A TYR* 5.5 0.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 325 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A ILE* 4.5 15.7 - - + +
283A PHE* 3.8 35.1 - - + -
321A GLU 3.2 5.8 + - - +
322A LEU* 3.1 11.9 + - - +
324A LYS* 1.3 80.2 - - - +
326A PHE* 1.3 73.2 + - + +
328A PRO* 3.4 11.4 - - - +
329A MET* 4.7 3.8 + - - +
481A TYR* 4.5 18.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 326 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A PHE* 4.0 16.2 - - + -
260A LEU* 4.0 4.0 - - + -
263A VAL* 3.8 19.0 - - + +
264A ILE* 3.5 33.7 - - + -
267A THR* 4.0 28.7 - - + -
282A ILE* 3.3 37.5 - - + -
322A LEU* 3.1 38.0 + - + +
325A GLU* 1.3 82.2 - - + +
327A PHE* 1.3 66.0 + - - +
328A PRO 3.5 0.2 - - - -
329A MET* 3.5 12.9 + - + +
330A GLU* 3.1 22.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 327 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A MET* 3.5 33.9 - - + -
135A LEU* 4.1 11.4 - - + -
137A MET* 4.0 23.1 - - + -
205A VAL* 3.8 32.3 - - + -
256A ILE* 4.7 2.9 - - + -
258A PHE* 3.7 26.1 - + + -
323A GLY 3.1 20.1 + - - +
324A LYS 5.0 0.2 - - - +
326A PHE* 1.3 75.6 - - - +
328A PRO* 1.4 63.6 - - + +
330A GLU* 2.9 4.3 + - - +
331A ALA* 2.7 38.3 + - + +
341A LEU* 3.6 22.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 328 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324A LYS 3.5 15.3 - - - +
325A GLU 3.4 15.5 - - - +
327A PHE* 1.4 97.6 - - + +
329A MET* 1.3 54.8 - - - +
331A ALA* 3.2 9.8 + - + +
332A GLN* 2.9 34.8 + - - +
478A LEU* 6.0 3.8 - - + -
481A TYR* 3.6 33.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 329 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A GLU 4.7 2.6 + - - +
326A PHE* 3.5 18.4 + - + +
328A PRO* 1.3 79.6 - - - +
330A GLU* 1.3 64.3 + - - +
332A GLN* 3.1 3.7 + - + -
333A LEU* 3.1 24.5 + - + +
481A TYR* 3.2 50.5 - - + +
484A ARG* 3.9 19.5 - - - +
485A ALA* 3.4 26.7 - - + +
488A ILE* 4.7 14.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 330 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A PHE* 4.2 11.7 - - + -
263A VAL* 3.3 26.4 - - - +
326A PHE 3.1 9.0 + - - +
327A PHE 2.9 7.9 + - - +
329A MET* 1.3 81.9 - - - +
331A ALA* 1.3 57.4 + - - +
333A LEU* 3.5 19.6 - - - +
334A SER* 3.1 28.2 + - - -
341A LEU* 3.7 13.5 - - + +
344A VAL* 3.5 19.2 - - + +
345A SER* 3.5 43.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 331 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A MET* 3.8 30.2 - - + +
327A PHE* 2.7 22.2 + - + +
328A PRO* 3.4 14.1 - - + +
330A GLU* 1.3 71.9 - - - +
332A GLN* 1.3 65.2 + - - +
334A SER* 3.4 6.5 + - - -
335A ARG* 3.0 27.9 + - - +
341A LEU* 3.6 8.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 332 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A MET 5.4 2.2 + - - -
328A PRO 2.9 17.1 + - - +
329A MET* 3.1 10.3 + - + +
331A ALA* 1.3 81.0 + - - +
333A LEU* 1.3 52.5 - - - +
335A ARG* 3.1 37.5 + - - +
336A LEU* 2.7 35.5 + - - +
478A LEU* 4.7 19.4 - - - +
481A TYR* 3.5 24.9 - - + +
482A ARG* 3.5 23.0 - - - +
485A ALA* 3.8 18.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 333 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A MET* 3.1 18.0 + - + +
330A GLU* 3.5 28.5 - - - +
331A ALA 3.5 0.2 - - - -
332A GLN* 1.3 75.0 - - - +
334A SER* 1.3 58.0 + - - +
336A LEU* 4.3 8.1 - - + +
337A VAL* 2.8 39.6 + - + +
344A VAL* 3.7 14.6 - - + -
352A LEU* 4.8 15.3 - - + -
485A ALA* 3.5 34.7 - - + +
488A ILE* 4.0 31.9 - - + -
489A LEU* 4.7 5.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 334 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A PRO* 4.1 4.1 + - - +
129A MET* 3.0 32.2 - - - +
330A GLU 3.1 18.2 + - - -
331A ALA 3.4 1.7 + - - -
333A LEU* 1.3 77.3 - - - +
335A ARG* 1.3 57.9 + - - +
338A GLY* 3.1 23.9 + - - -
339A GLN 3.2 28.6 + - - +
341A LEU* 3.7 18.4 + - - -
344A VAL* 3.6 11.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 335 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ILE* 3.4 30.3 - - + +
128A PRO 3.7 12.3 - - - +
129A MET 3.9 13.5 - - - +
130A GLU* 4.1 20.8 + - + +
331A ALA 3.0 19.5 + - - +
332A GLN* 3.3 35.3 + - - +
334A SER* 1.3 79.3 + - - +
336A LEU* 1.3 61.4 + - - +
338A GLY 3.9 2.6 + - - -
482A ARG* 3.8 35.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 336 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A GLN 2.7 18.7 + - - +
333A LEU* 3.8 7.4 - - + +
335A ARG* 1.3 77.1 - - - +
337A VAL* 1.3 61.0 + - + +
356A PHE* 3.5 20.9 - - + -
359A ARG* 5.9 1.2 - - - +
456A LEU* 4.1 14.8 - - + -
485A ALA* 3.4 38.1 - - + +
486A ILE* 3.8 28.5 - - + +
489A LEU* 3.8 24.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 337 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A LEU* 2.8 28.9 + - + +
336A LEU* 1.3 76.4 - - + +
338A GLY* 1.3 56.8 + - - +
339A GLN* 4.0 13.9 + - + +
344A VAL* 4.2 9.9 - - + -
352A LEU* 3.6 37.9 - - + +
355A TRP* 3.4 47.0 - - + +
356A PHE* 4.0 9.7 - - + +
359A ARG* 4.2 8.6 + - - +
489A LEU* 4.3 13.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 338 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A LEU* 3.9 4.9 - - - +
126A LEU 4.9 0.2 - - - -
127A ILE* 4.9 3.4 - - - -
128A PRO* 3.8 15.8 - - - +
334A SER 3.1 9.4 + - - -
335A ARG 3.9 4.0 + - - -
336A LEU 3.4 3.2 + - - -
337A VAL* 1.3 78.5 - - - +
339A GLN* 1.3 71.4 + - - +
359A ARG* 2.9 37.1 + - - -
----------------------------------------------------------
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