Contacts of the helix formed by residues 222 - 250 (chain A) in PDB entry 1XHU
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 THR 222 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A PHE* 5.6 1.4 - - - +
219A PHE* 3.9 6.0 - - - -
221A GLY* 1.3 74.1 - - - -
223A ARG* 1.3 62.8 + - - +
224A GLU* 3.4 17.2 + - + +
225A GLU* 2.8 61.6 + - - +
226A TRP 3.1 9.7 + - - -
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Residues in contact with ARG 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A PHE* 5.4 1.4 - - - -
155A MET* 3.4 24.2 - - + +
161A PHE* 3.5 27.4 + - + +
162A ASP* 6.0 0.2 - - - +
163A LEU 5.9 0.4 - - - +
164A PHE 3.1 21.4 + - - -
165A ASP* 2.9 25.9 + - - -
191A PHE* 2.8 63.1 + - - +
219A PHE* 5.8 0.2 - - - -
222A THR* 1.3 75.1 + - - +
224A GLU* 1.3 61.6 + - - +
226A TRP* 3.4 9.0 + - - +
227A ALA* 3.2 22.5 + - - +
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Residues in contact with GLU 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ILE* 5.2 2.8 - - + +
161A PHE* 3.3 55.1 - - + +
222A THR* 3.0 15.3 + - + +
223A ARG* 1.3 79.8 - - - +
225A GLU* 1.3 63.5 + - + +
227A ALA* 3.8 3.2 + - - +
228A LYS* 3.3 21.6 + - + +
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Residues in contact with GLU 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A PHE* 4.5 8.5 - - + -
221A GLY* 3.8 8.7 - - - -
222A THR* 2.8 43.0 + - + +
224A GLU* 1.3 79.4 - - + +
226A TRP* 1.3 55.7 + - - +
228A LYS* 3.5 4.9 + - + +
229A SER* 2.7 41.2 + - - +
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Residues in contact with TRP 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LEU* 4.0 7.4 - - + -
152A CYS* 4.3 4.5 - - - -
155A MET* 6.4 0.4 - - - -
190A LEU* 3.6 29.6 - - + -
191A PHE* 3.4 53.0 - + - +
193A SER 2.6 26.9 + - - -
195A PRO* 3.3 21.4 - - + +
198A LEU* 3.5 32.1 - - + -
219A PHE* 3.9 17.9 - + + -
222A THR 3.1 10.8 + - - +
223A ARG* 3.5 17.7 - - - +
224A GLU 3.4 0.2 - - - -
225A GLU* 1.3 72.6 - - - +
227A ALA* 1.3 73.4 + - - +
229A SER* 3.1 2.1 + - - -
230A TYR* 2.8 51.9 + + + +
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Residues in contact with ALA 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A CYS* 3.5 35.2 - - + +
155A MET* 4.2 16.6 - - + -
156A ILE* 4.1 17.9 - - + -
161A PHE* 4.8 1.1 - - + -
223A ARG* 3.2 13.4 + - - +
224A GLU* 3.8 7.4 - - - +
226A TRP* 1.3 80.6 - - - +
228A LYS* 1.3 60.9 + - - +
231A LEU* 3.1 25.8 + - - +
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Residues in contact with LYS 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ILE* 4.3 13.9 - - + +
224A GLU* 3.3 14.8 + - + +
225A GLU* 3.8 6.7 - - + +
226A TRP 3.2 0.6 - - - -
227A ALA* 1.3 78.4 - - - +
229A SER* 1.3 64.7 - - - +
231A LEU* 3.4 5.3 + - - +
232A LYS* 3.2 20.9 + - - +
256B TYR* 5.1 14.0 - - - +
257B ILE* 5.5 2.1 - - - -
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Residues in contact with SER 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A GLU* 5.5 3.1 - - - -
195A PRO* 4.0 16.8 - - - -
196A SER* 5.5 2.5 + - - -
219A PHE* 5.4 4.8 - - - -
225A GLU* 2.7 29.2 + - - +
226A TRP* 3.8 2.2 - - - -
228A LYS* 1.3 72.1 - - - +
230A TYR* 1.3 62.2 + - - +
232A LYS* 3.1 17.8 + - - +
233A HIS* 2.9 26.0 + - - +
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Residues in contact with TYR 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ALA* 2.6 34.7 + - - +
148A LEU* 3.2 31.0 - - + +
149A ALA* 3.4 28.0 - - + -
152A CYS* 3.6 20.6 - - - -
195A PRO* 3.5 25.0 - - + +
198A LEU* 4.2 18.8 - - + -
200A ILE* 4.5 15.3 - - + -
208A ILE* 4.7 1.5 - - + +
226A TRP* 2.8 29.9 + + + +
227A ALA 4.1 1.1 - - - +
229A SER* 1.3 70.8 - - - +
231A LEU* 1.3 57.8 + - - +
233A HIS* 3.0 8.9 + + - +
234A PHE* 2.7 42.6 + + + +
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Residues in contact with LEU 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ALA* 3.0 45.8 - - + +
152A CYS* 3.8 5.8 - - + -
153A ALA* 3.9 11.9 - - - +
156A ILE* 3.5 30.5 - - + -
227A ALA 3.1 12.6 + - - +
228A LYS 3.6 5.4 - - - +
230A TYR* 1.3 82.6 - - + +
232A LYS* 1.3 59.1 + - - +
234A PHE* 3.5 3.7 + - + +
235A VAL* 3.0 31.2 + - - +
253B PHE* 3.9 16.8 - - + -
256B TYR* 3.7 31.0 - - + -
257B ILE* 5.2 2.0 - - + -
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Residues in contact with LYS 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A LYS 3.2 11.5 + - - +
229A SER* 3.1 20.2 + - - +
231A LEU* 1.3 75.4 - - - +
233A HIS* 1.3 56.9 + - - +
235A VAL* 3.3 3.9 + - - +
236A THR* 2.5 35.2 + - - +
257B ILE* 3.5 46.4 - - + +
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Residues in contact with HIS 233 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A PRO 3.3 23.5 + - - +
196A SER* 3.4 27.9 + - - -
197A GLU 5.1 0.4 - - - -
198A LEU* 2.7 28.1 + - + -
200A ILE* 4.3 15.0 + - + +
229A SER 2.9 12.7 + - - +
230A TYR* 3.2 13.2 - + - +
232A LYS* 1.3 76.6 - - - +
234A PHE* 1.3 65.4 + - - +
236A THR* 3.1 14.8 + - - -
237A GLN* 3.1 51.7 + - + +
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Residues in contact with PHE 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ALA* 3.1 46.9 - - + -
146A TYR* 3.5 23.3 - + + -
149A ALA* 3.8 15.9 - - + -
200A ILE* 3.9 12.8 - - + -
202A TRP* 4.0 21.0 - + - -
230A TYR* 2.7 31.8 + - + +
231A LEU* 3.6 9.4 - - + +
233A HIS* 1.3 74.8 - - - +
235A VAL* 1.3 53.1 + - + +
237A GLN* 3.3 2.3 + - - +
238A ALA* 2.8 36.1 + - + +
249B PHE* 3.5 44.4 - + + -
253B PHE* 4.7 6.3 - + - -
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Residues in contact with VAL 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A LEU 3.0 18.3 + - - +
232A LYS 3.7 5.6 - - - +
233A HIS 3.3 0.2 - - - -
234A PHE* 1.3 76.4 - - + +
236A THR* 1.3 57.1 + - - +
238A ALA* 3.4 7.0 - - - +
239A GLU* 2.8 35.1 + - - +
249B PHE 4.3 5.2 - - - +
250B VAL* 3.4 29.8 - - + -
253B PHE* 4.0 22.7 - - + -
254B LYS* 3.9 23.1 - - + +
257B ILE* 4.0 21.8 - - + -
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Residues in contact with THR 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A LYS* 2.5 23.7 + - - +
233A HIS* 3.1 7.9 + - - -
235A VAL* 1.3 73.8 - - - +
237A GLN* 1.3 61.6 + - - +
239A GLU* 3.3 16.0 + - - +
240A GLN* 2.7 37.0 + - - +
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Residues in contact with GLN 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A ILE* 4.6 8.5 - - + +
202A TRP* 3.7 22.0 + - + +
233A HIS* 3.1 48.6 + - + +
234A PHE 3.7 3.1 - - - +
236A THR* 1.3 76.3 - - - +
238A ALA* 1.3 57.8 + - - +
240A GLN* 3.3 15.9 - - - +
241A ARG* 2.7 36.9 + - - +
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Residues in contact with ALA 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A TRP* 3.5 21.9 - - + -
234A PHE* 2.8 18.6 + - + +
235A VAL 3.4 8.7 - - - +
237A GLN* 1.3 79.2 - - - +
239A GLU* 1.3 67.6 + - - +
241A ARG* 3.0 9.6 + - - +
242A ALA* 3.0 11.0 + - - +
245B MET* 4.0 8.8 - - + +
246B ILE* 6.1 0.2 - - - -
249B PHE* 4.0 18.8 - - + +
250B VAL* 4.0 17.3 - - + -
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Residues in contact with GLU 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A VAL* 2.8 23.2 - - - +
236A THR* 3.5 16.4 - - - +
238A ALA* 1.3 73.5 - - - +
240A GLN* 1.3 67.4 + - - +
242A ALA* 2.7 27.4 + - - +
243A ILE* 3.1 9.2 + - + +
246B ILE* 5.1 7.5 - - + +
250B VAL* 3.7 21.2 - - + +
254B LYS* 3.4 32.4 + - - -
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Residues in contact with GLN 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A THR 2.7 21.4 + - - +
237A GLN* 3.3 21.8 - - - +
239A GLU* 1.3 72.1 - - - +
241A ARG* 1.3 57.1 + - - +
243A ILE* 2.9 37.1 + - - +
244A SER* 3.0 14.0 + - - +
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Residues in contact with ARG 241 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A TRP* 3.5 48.3 - - + +
203A ALA* 4.2 5.7 - - - +
237A GLN 2.7 16.0 + - - +
238A ALA 3.0 8.7 + - - +
240A GLN* 1.3 68.6 - - - +
242A ALA* 1.3 56.8 + - - +
244A SER* 3.0 18.6 + - - -
245A MET* 2.7 54.2 + - + +
249A PHE* 3.6 26.1 - - - -
202B TRP* 6.1 0.2 - - - -
206B MET* 3.8 13.9 - - - +
245B MET* 3.6 21.8 - - + -
4E G 4.8 5.1 + - - -
5E G 2.9 33.5 + - - -
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Residues in contact with ALA 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A ALA 3.0 9.9 + - - +
239A GLU* 2.7 18.9 + - - +
241A ARG* 1.3 73.9 - - - +
243A ILE* 1.3 60.7 + - + +
245A MET* 3.7 7.0 + - - +
246A ILE* 3.4 15.9 - - - +
242B ALA* 3.7 39.8 - - + +
245B MET* 4.4 7.8 - - + +
246B ILE* 4.1 20.0 - - + -
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Residues in contact with ILE 243 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A GLU* 3.1 11.4 + - + +
240A GLN* 2.9 26.2 + - - +
242A ALA* 1.3 75.9 - - + +
244A SER* 1.3 64.1 + - - +
245A MET 3.1 1.6 - - - -
246A ILE* 2.8 38.3 - - + +
247A ASP* 3.1 22.6 - - - +
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Residues in contact with SER 244 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A GLN* 3.0 12.7 + - - +
241A ARG* 3.0 35.9 + - - -
243A ILE* 1.3 77.8 - - - +
245A MET* 1.3 56.2 + - - +
247A ASP* 3.4 10.5 + - - +
248A LYS* 3.0 33.3 + - - +
249A PHE* 5.4 0.7 - - - -
4E G 6.2 0.2 - - - -
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Residues in contact with MET 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A ARG* 2.7 47.2 + - + +
242A ALA* 3.8 7.9 - - - +
243A ILE 3.1 0.4 - - - -
244A SER* 1.3 74.5 + - - +
246A ILE* 1.3 55.5 + - - +
249A PHE* 2.9 52.2 + - + +
250A VAL* 3.9 2.4 + - - +
202B TRP* 3.7 30.3 - - + -
206B MET* 5.5 0.2 - - + -
238B ALA* 3.9 15.6 - - + +
241B ARG* 3.7 26.7 - - + -
242B ALA* 4.6 8.1 - - + -
245B MET* 3.6 30.3 - - - +
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Residues in contact with ILE 246 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A ALA 3.4 13.7 - - - +
243A ILE* 2.8 35.0 - - + +
245A MET* 1.3 72.0 - - - +
247A ASP* 1.3 71.3 + - - +
250A VAL* 2.9 47.7 + - + +
251A LYS* 3.1 10.0 + - + +
238B ALA 5.9 0.2 - - - -
239B GLU* 4.2 21.1 - - + +
242B ALA* 4.9 7.0 - - + -
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Residues in contact with ASP 247 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A ILE* 3.1 29.3 - - - +
244A SER* 3.4 8.8 + - - +
245A MET 3.3 0.2 - - - -
246A ILE* 1.3 86.7 - - - +
248A LYS* 1.3 59.8 + - + +
251A LYS* 3.6 13.8 - - + +
252A PRO* 2.8 29.6 - - - +
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Residues in contact with LYS 248 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A SER* 3.0 15.0 + - - +
247A ASP* 1.3 81.1 - - + +
249A PHE* 1.3 82.2 + - + +
252A PRO* 3.2 19.1 - - - +
253A PHE* 3.9 6.4 - - - -
146B TYR* 3.3 33.4 + - - +
4E G 4.9 2.6 - - - -
5E G 2.8 45.7 + - - +
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Residues in contact with PHE 249 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A ARG* 3.6 23.1 - - - -
244A SER 5.0 0.2 - - - -
245A MET* 2.9 53.2 + - + +
248A LYS* 1.3 104.0 - - + +
250A VAL* 1.3 62.7 + - - +
253A PHE* 3.9 9.4 - - - -
146B TYR* 3.6 32.1 - + - -
202B TRP* 4.6 0.2 - + - -
206B MET* 3.2 34.5 - - + -
234B PHE* 3.2 39.0 - + + -
235B VAL* 4.1 3.6 - - - +
238B ALA* 4.0 10.8 - - + +
5E G 4.8 4.5 - - - -
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Residues in contact with VAL 250 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A ILE* 2.9 39.7 + - + +
248A LYS 3.6 1.4 - - - -
249A PHE* 1.3 84.9 - - - +
251A LYS* 1.3 62.7 + - + +
252A PRO* 3.4 1.8 - - - -
253A PHE* 2.8 25.1 + - - +
254A LYS* 2.8 27.3 + - + +
235B VAL* 3.5 25.9 - - + +
238B ALA* 3.8 20.4 - - + -
239B GLU* 4.0 17.0 - - + +
----------------------------------------------------------
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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