Contacts of the helix formed by residues 243 - 279 (chain D) in PDB entry 1UDY
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 ALA 243 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196D GLY 5.2 0.2 - - - -
239D THR* 4.2 27.4 - - + -
240D GLY* 3.4 16.0 + - - +
241D GLU 3.5 1.0 + - - +
242D GLY* 1.3 76.8 - - - +
244D GLY* 1.3 63.5 + - - +
245D PHE 3.5 2.0 + - - -
246D LYS* 3.4 17.8 + - + +
247D ILE* 3.1 28.1 + - + +
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Residues in contact with GLY 244 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179D LEU* 3.4 25.0 - - - +
194D PHE 3.0 22.6 + - - -
195D THR* 3.8 8.0 - - - +
196D GLY 3.9 5.1 - - - +
242D GLY 3.2 0.4 - - - -
243D ALA* 1.3 76.5 - - - +
245D PHE* 1.3 66.4 + - - +
247D ILE* 3.4 6.4 + - - +
248D ALA* 3.1 17.5 + - - +
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Residues in contact with PHE 245 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144D VAL* 4.0 23.3 - - + -
145D ALA* 4.0 13.7 - - - -
179D LEU* 5.1 1.6 - - + -
190D ALA* 3.2 40.4 + - + +
194D PHE* 4.0 19.4 + + + +
242D GLY 4.8 0.6 + - - -
243D ALA 3.5 0.8 - - - -
244D GLY* 1.3 73.9 - - - +
246D LYS* 1.3 68.8 - - + +
248D ALA* 3.3 6.1 + - - +
249D MET* 2.8 69.5 + - + +
3400D CS8 3.4 61.9 - - - -
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Residues in contact with LYS 246 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110D ILE* 5.3 0.2 - - - +
191D SER* 2.8 47.4 + - - -
242D GLY 3.1 11.7 + - - -
243D ALA* 3.4 17.3 - - + +
245D PHE* 1.3 90.4 - - + +
247D ILE* 1.3 57.4 + - + +
249D MET* 3.7 7.0 - - - +
250D GLY* 2.7 31.2 + - - -
3400D CS8 4.6 23.2 - - + +
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Residues in contact with ILE 247 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107D PRO* 3.9 33.0 - - + +
110D ILE* 3.9 13.6 - - + +
111D GLY* 4.3 7.4 - - - -
177D PHE* 4.5 6.1 - - + -
196D GLY 5.4 3.8 - - - +
238D LEU* 3.7 35.4 - - + -
239D THR* 4.1 22.2 - - - +
243D ALA* 3.1 22.8 + - + +
244D GLY* 3.8 6.3 - - - +
245D PHE 3.3 0.6 - - - -
246D LYS* 1.3 77.8 - - + +
248D ALA* 1.3 57.9 + - - +
250D GLY* 3.3 1.0 + - - -
251D THR* 2.9 32.6 + - - +
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Residues in contact with ALA 248 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133D TYR* 3.6 20.2 + - + +
135D VAL* 4.9 3.8 - - + -
144D VAL* 5.3 1.6 - - + -
177D PHE* 5.0 5.8 - - + -
179D LEU* 4.4 20.2 - - + -
244D GLY 3.1 11.7 + - - +
245D PHE* 3.6 8.1 - - - +
247D ILE* 1.3 79.7 - - - +
249D MET* 1.3 70.2 + - + +
251D THR* 3.1 4.7 + - - -
252D PHE* 3.1 35.8 + - + -
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Residues in contact with MET 249 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144D VAL* 4.3 8.7 - - + -
245D PHE* 2.8 66.7 + - + +
246D LYS* 3.8 4.3 - - - +
248D ALA* 1.3 77.9 - - + +
250D GLY* 1.3 61.9 + - - +
251D THR 3.4 0.3 + - - -
252D PHE* 3.4 27.3 + - + +
253D ASP* 3.4 19.7 + - - +
256D ARG* 6.2 0.4 - - - -
3400D CS8 3.7 79.7 + - + +
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Residues in contact with GLY 250 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110D ILE* 3.7 14.7 - - - +
246D LYS 2.7 22.3 + - - -
247D ILE 3.7 1.6 - - - -
249D MET* 1.3 73.8 - - - +
251D THR* 1.3 62.3 + - - +
253D ASP* 3.6 11.1 + - - +
254D LYS* 3.5 23.9 + - - +
3400D CS8 4.7 5.1 + - - -
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Residues in contact with THR 251 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103D LEU* 3.9 25.6 - - + +
106D VAL* 3.6 25.8 - - + +
107D PRO* 3.4 21.4 - - + +
110D ILE* 3.8 0.9 - - - +
133D TYR* 3.9 13.0 - - + +
247D ILE 2.9 19.9 + - - -
248D ALA* 3.1 9.1 + - - -
250D GLY* 1.3 76.2 - - - +
252D PHE* 1.3 60.7 + - - +
254D LYS* 3.1 4.2 + - - +
255D THR* 2.9 42.4 + - + +
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Residues in contact with PHE 252 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103D LEU* 4.9 1.3 - - + -
133D TYR* 3.5 25.4 - + - -
135D VAL* 4.8 7.6 - - + -
144D VAL* 4.6 4.3 - - + -
248D ALA* 3.1 21.6 + - + -
249D MET* 3.8 25.1 - - + +
251D THR* 1.3 78.6 - - - +
253D ASP* 1.3 56.9 + - - +
255D THR* 3.5 5.8 + - - -
256D ARG* 2.8 58.2 + - - +
376D GLU* 3.5 14.8 - - - -
3400D CS8 3.4 74.7 - - + -
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Residues in contact with ASP 253 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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249D MET 3.4 8.4 + - - +
250D GLY* 3.9 9.4 - - - +
251D THR 3.3 0.8 - - - -
252D PHE* 1.3 75.7 - - - +
254D LYS* 1.3 59.9 + - + +
256D ARG* 4.8 7.3 + - - -
257D PRO* 3.2 21.1 - - - +
319D ILE* 5.4 3.1 - - + -
324D ARG* 4.6 4.3 - - - +
325D ASN* 3.3 30.7 + - - +
326D THR* 3.3 35.2 + - - +
329D ALA* 3.9 7.5 - - - +
330D SER* 5.7 0.2 + - - -
3400D CS8 2.6 32.0 + - - -
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Residues in contact with LYS 254 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65D HIS* 2.9 37.5 + - - -
77D ILE* 3.6 34.0 - - + +
106D VAL* 4.0 17.4 - - + +
109D ILE* 4.5 4.2 - - - +
110D ILE* 3.9 32.5 - - + +
250D GLY 3.5 12.8 - - - +
251D THR 3.1 6.3 + - - +
253D ASP* 1.3 80.2 - - + +
255D THR* 1.3 58.8 + - - +
256D ARG 3.4 0.2 - - - -
257D PRO* 3.5 3.2 - - - +
258D PRO* 3.3 18.7 - - - +
319D ILE* 4.2 25.1 - - + -
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Residues in contact with THR 255 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102D THR* 4.8 5.8 - - + -
103D LEU* 3.8 35.8 - - + +
106D VAL* 4.0 13.5 - - + -
251D THR* 2.9 27.5 + - + +
252D PHE* 3.3 10.8 + - - -
254D LYS* 1.3 76.7 - - - +
256D ARG* 1.3 63.4 + - - +
258D PRO* 3.4 16.1 - - - +
259D VAL* 3.3 16.3 + - - +
376D GLU* 3.1 23.7 + - - +
3400D CS8 5.5 2.6 - - - +
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Residues in contact with ARG 256 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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249D MET* 6.2 0.4 - - - -
252D PHE* 2.8 41.3 + - - +
253D ASP* 4.9 8.5 + - - +
255D THR* 1.3 76.5 - - - +
257D PRO* 1.3 73.3 - - + +
259D VAL* 2.7 22.7 - - - +
260D ALA* 3.1 9.7 + - - +
326D THR* 5.7 1.6 - - - +
329D ALA* 3.9 17.8 - - + +
330D SER* 4.3 4.9 + - - -
333D LYS* 3.3 31.7 - - + +
376D GLU* 2.6 45.3 + - - -
377D GLY* 3.8 1.4 - - - -
382D GLN* 3.6 16.3 + - - +
385D ILE* 3.5 26.7 - - - +
3400D CS8 3.2 28.5 + - - -
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Residues in contact with PRO 257 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77D ILE* 4.1 8.1 - - + -
81D CYS* 3.6 15.5 - - - -
253D ASP 3.2 20.6 - - - +
254D LYS 3.5 4.7 - - - +
256D ARG* 1.3 92.3 - - + +
258D PRO* 1.4 64.6 - - + +
260D ALA* 3.0 10.2 + - + +
261D ALA* 2.8 27.5 + - - +
312D TYR* 3.7 19.0 - - + +
315D ALA* 3.7 26.9 - - + -
316D ALA 4.1 1.3 - - - +
325D ASN* 4.0 8.5 - - - +
329D ALA* 4.2 4.0 - - + +
332D ALA* 5.4 0.2 - - + -
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Residues in contact with PRO 258 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77D ILE* 4.1 8.5 - - + -
80D SER* 4.6 12.3 - - - -
81D CYS* 3.7 19.5 - - - -
84D THR* 3.5 13.1 - - + +
95D GLN* 4.6 0.7 - - - +
99D GLU* 3.8 24.9 - - + +
102D THR* 5.9 4.9 - - + -
254D LYS 3.3 20.6 - - - +
255D THR* 3.4 13.9 - - - +
257D PRO* 1.4 93.2 - - + +
259D VAL* 1.3 63.8 + - - +
261D ALA* 3.1 3.2 + - + -
262D GLY* 3.0 18.0 + - - -
3400D CS8 5.3 2.5 - - + -
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Residues in contact with VAL 259 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95D GLN* 5.6 0.7 - - - -
255D THR 3.3 14.9 + - - +
256D ARG* 2.7 31.9 - - - +
258D PRO* 1.3 76.7 - - - +
260D ALA* 1.3 62.8 + - - +
262D GLY* 3.2 8.8 + - - +
263D ALA 3.3 8.8 + - - -
333D LYS* 3.9 26.0 - - + -
372D TYR* 3.4 30.6 - - + -
375D TYR* 4.1 15.7 - - + -
376D GLU* 4.1 18.6 - - + -
3400D CS8 4.2 15.8 - - + +
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Residues in contact with ALA 260 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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256D ARG 3.1 12.2 + - - +
257D PRO 3.0 11.1 + - - +
259D VAL* 1.3 78.3 - - - +
261D ALA* 1.3 60.1 + - - +
263D ALA* 3.1 13.1 + - - +
264D VAL* 3.0 21.5 + - - +
312D TYR* 4.0 12.6 - - + -
332D ALA* 3.5 33.9 - - + +
333D LYS* 3.8 6.1 - - - +
336D ALA* 3.6 7.5 - - + +
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Residues in contact with ALA 261 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81D CYS* 3.6 31.0 - - + +
84D THR* 3.9 4.5 - - + -
85D GLU* 3.6 14.1 - - - +
257D PRO 2.8 11.5 + - - +
258D PRO 3.1 8.3 + - - +
260D ALA* 1.3 73.8 - - - +
262D GLY* 1.3 64.6 + - - +
264D VAL* 3.4 1.1 + - - +
265D GLY 3.2 16.1 + - - -
312D TYR* 3.5 32.9 - - + -
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Residues in contact with GLY 262 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84D THR* 3.6 16.2 - - - -
88D ALA* 3.1 19.1 - - - +
95D GLN* 4.2 3.8 - - - -
258D PRO 3.0 10.2 + - - -
259D VAL* 3.2 5.1 + - - -
260D ALA 3.1 0.8 - - - -
261D ALA* 1.3 77.5 - - - +
263D ALA* 1.3 62.0 + - - +
265D GLY 3.2 0.2 + - - -
266D LEU* 3.1 21.0 + - - +
372D TYR* 3.7 14.7 + - - -
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Residues in contact with ALA 263 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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259D VAL 3.3 5.5 + - - +
260D ALA* 3.1 12.4 + - - +
262D GLY* 1.3 78.1 - - - +
264D VAL* 1.3 57.7 + - - +
266D LEU* 3.3 3.6 + - - +
267D ALA* 2.9 27.7 + - - +
336D ALA* 3.7 29.8 - - + +
337D ALA 4.3 0.9 - - - +
340D ALA* 3.8 12.7 - - + +
372D TYR* 3.9 29.7 - - + -
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Residues in contact with VAL 264 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85D GLU* 3.3 34.1 - - + +
260D ALA 3.0 18.4 - - - +
261D ALA* 3.8 1.1 - - - -
262D GLY 3.3 0.2 - - - -
263D ALA* 1.3 74.0 - - - +
265D GLY* 1.3 57.5 + - - +
267D ALA* 3.7 8.9 - - + +
268D GLN* 2.9 27.2 + - - +
305D VAL* 4.3 7.1 - - + +
308D ALA* 4.1 28.5 - - + +
309D ARG* 4.0 15.7 - - + +
312D TYR* 3.7 23.8 - - + -
336D ALA* 4.2 2.9 - - + -
339D ILE* 5.2 0.9 - - - -
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Residues in contact with GLY 265 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85D GLU* 3.4 31.9 - - - -
88D ALA* 4.2 1.3 - - - -
89D TYR* 3.5 18.6 - - - +
261D ALA 3.2 9.4 + - - -
262D GLY 3.2 3.8 + - - -
263D ALA 3.1 0.4 - - - -
264D VAL* 1.3 77.5 - - - +
266D LEU* 1.3 64.3 + - - +
268D GLN* 3.3 6.0 + - - +
269D ARG 3.0 17.8 + - - -
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Residues in contact with LEU 266 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88D ALA* 4.2 7.2 - - - +
92D THR* 3.7 19.3 - - + +
262D GLY 3.1 6.8 + - - +
263D ALA* 3.6 8.5 - - - +
265D GLY* 1.3 77.2 - - - +
267D ALA* 1.3 56.2 + - - +
269D ARG* 3.2 7.3 + - + +
270D ALA* 3.0 25.7 + - + +
340D ALA* 5.2 4.9 - - + +
344D ALA* 5.8 1.6 - - + -
365D LEU* 3.4 41.7 - - + +
368D ASP* 4.0 9.9 - - + +
369D ALA* 3.5 41.5 - - + +
372D TYR* 3.8 17.3 - - + -
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Residues in contact with ALA 267 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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263D ALA 2.9 16.6 + - - +
264D VAL* 3.8 6.1 - - - +
266D LEU* 1.3 74.8 - - - +
268D GLN* 1.3 60.6 + - - +
270D ALA* 3.1 9.0 + - - +
271D LEU* 2.8 29.5 + - - +
305D VAL* 3.9 18.4 - - + -
339D ILE* 4.0 20.2 - - + -
340D ALA* 4.3 9.8 - - - +
343D LEU* 3.7 12.9 - - + +
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Residues in contact with GLN 268 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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390A HIS* 5.6 0.4 - - - -
394A TYR* 4.3 5.9 + - - -
32D ARG* 5.8 1.1 - - - +
85D GLU* 4.8 2.5 - - - +
89D TYR* 4.0 18.2 - - + -
264D VAL 2.9 19.1 + - - +
265D GLY* 3.3 7.2 + - - +
267D ALA* 1.3 74.9 - - - +
269D ARG* 1.3 63.7 + - - +
271D LEU* 3.2 16.5 + - - +
272D ASP* 2.9 53.0 + - - +
305D VAL* 3.4 15.5 - - - +
306D GLU* 5.7 0.2 - - - +
309D ARG* 3.0 32.2 + - - +
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Residues in contact with ARG 269 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36D ILE* 3.9 29.9 + - - +
39D ALA* 6.0 1.8 - - - +
89D TYR* 2.7 68.4 + - + +
90D GLY* 3.2 21.6 + - - -
265D GLY 3.0 12.4 + - - +
266D LEU* 3.4 11.7 - - + +
268D GLN* 1.3 77.8 - - - +
270D ALA* 1.3 61.1 + - - +
272D ASP* 3.5 0.7 + - - +
273D GLU* 2.7 55.9 + - - +
361D PRO* 4.3 14.7 - - - +
365D LEU* 3.9 24.5 - - + +
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Residues in contact with ALA 270 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266D LEU* 3.0 13.4 + - + +
267D ALA* 3.1 10.7 + - - +
269D ARG* 1.3 78.0 - - - +
271D LEU* 1.3 63.4 + - - +
273D GLU* 3.3 2.8 + - - +
274D ALA* 2.9 24.6 + - - +
301D MET* 4.9 0.2 - - - -
343D LEU* 3.8 29.4 - - + +
344D ALA* 4.4 5.8 - - + +
347D ALA* 3.7 12.8 - - + +
365D LEU* 3.9 17.0 - - + +
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Residues in contact with LEU 271 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327A TYR* 5.8 1.1 - - - +
390A HIS* 3.6 33.9 - - + +
394A TYR* 4.5 1.6 - - - +
267D ALA 2.8 12.5 + - - +
268D GLN* 3.6 19.3 - - - +
270D ALA* 1.3 76.5 - - - +
272D ASP* 1.3 54.2 + - - +
274D ALA* 3.6 3.8 - - + +
275D THR* 2.6 39.7 + - - +
298D LEU* 4.1 10.5 - - + +
301D MET* 3.8 29.2 - - + -
302D ALA* 3.5 26.7 - - + +
305D VAL* 4.0 15.9 - - + -
343D LEU* 4.0 7.3 - - + +
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Residues in contact with ASP 272 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394A TYR* 2.8 33.4 + - + -
32D ARG* 4.5 4.3 + - - -
89D TYR* 2.8 35.9 + - - +
268D GLN* 2.9 33.4 + - - +
269D ARG 3.9 2.7 - - - +
271D LEU* 1.3 72.5 - - - +
273D GLU* 1.3 67.6 + - + +
275D THR* 3.2 1.0 + - - -
276D LYS* 2.9 41.1 + - - +
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Residues in contact with GLU 273 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89D TYR* 5.5 0.2 + - - -
269D ARG* 2.7 55.3 + - + +
270D ALA 3.7 3.6 - - - +
272D ASP* 1.3 76.1 - - - +
274D ALA* 1.3 62.2 + - - +
276D LYS* 3.4 22.4 + - - +
277D TYR* 3.0 25.6 + - - +
351D PHE* 3.7 21.3 - - + -
361D PRO* 3.9 21.8 - - + +
362D VAL* 4.1 6.7 - - + -
365D LEU* 4.7 6.1 - - + -
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Residues in contact with ALA 274 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270D ALA 2.9 17.9 + - - +
271D LEU* 3.6 5.4 - - + +
273D GLU* 1.3 76.4 - - - +
275D THR* 1.3 62.0 + - - +
277D TYR* 3.8 1.7 - - - +
278D ALA* 3.0 25.2 + - - +
298D LEU* 4.9 5.2 - - + -
301D MET* 4.2 15.5 - - + -
347D ALA* 4.1 14.8 - - - +
350D VAL* 3.7 30.2 - - + +
351D PHE* 4.2 3.3 - - - -
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Residues in contact with THR 275 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390A HIS* 2.9 28.4 + - + +
391A ILE* 4.4 8.3 - - + -
394A TYR* 3.6 33.2 - - + -
271D LEU* 2.6 24.5 + - - +
272D ASP 3.2 4.0 + - - -
274D ALA* 1.3 77.1 - - - +
276D LYS* 1.3 63.6 + - - +
278D ALA* 3.1 16.1 + - - +
279D LEU* 3.1 36.2 + - + +
298D LEU* 4.6 9.0 - - + +
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Residues in contact with LYS 276 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394A TYR* 4.1 19.1 - - + -
89D TYR* 4.9 4.6 + - - -
272D ASP* 2.9 38.8 + - - +
273D GLU* 3.8 24.5 + - - +
275D THR* 1.3 71.6 - - - +
277D TYR* 1.3 60.8 + - - +
279D LEU* 3.4 16.2 + - - +
280D GLU* 3.6 15.1 + - - +
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Residues in contact with TYR 277 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2399C FAD 5.0 0.6 + - - -
273D GLU 3.0 17.8 + - - +
274D ALA 3.8 3.1 - - - +
276D LYS* 1.3 72.5 - - - +
278D ALA* 1.3 62.0 + - - +
279D LEU 3.0 2.2 - - - -
280D GLU* 2.9 16.7 + - - -
281D ARG* 2.9 75.3 + - + +
288D LEU* 4.3 1.6 - - + -
350D VAL* 3.4 28.5 - - + -
351D PHE* 3.6 55.2 + + + -
354D ASN* 3.3 21.9 + - - -
360D TYR* 5.0 6.1 - + - -
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Residues in contact with ALA 278 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274D ALA 3.0 17.0 + - - +
275D THR 3.1 5.4 + - - +
277D TYR* 1.3 76.7 - - - +
279D LEU* 1.3 59.1 + - - +
280D GLU 3.2 1.1 + - - -
281D ARG 4.0 0.3 - - - +
287D LEU* 3.9 2.3 - - - +
288D LEU* 3.4 28.1 + - + -
289D ALA* 3.1 35.3 + - + +
294D ILE* 4.6 5.2 - - + -
298D LEU* 4.0 22.2 - - + -
350D VAL* 5.3 2.9 - - + -
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Residues in contact with LEU 279 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A ILE* 4.2 21.8 - - + +
394A TYR* 4.2 17.9 - - + +
395A LYS* 4.5 21.8 - - + +
275D THR* 3.1 44.4 + - + +
276D LYS* 3.8 7.9 - - - +
277D TYR 3.0 1.4 - - - -
278D ALA* 1.3 76.9 - - + +
280D GLU* 1.3 58.1 + - - +
287D LEU* 3.4 30.4 - - + +
289D ALA* 3.7 22.9 - - + -
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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