Contacts of the helix formed by residues 228 - 264 (chain B) in PDB entry 2OR0
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 PRO 228 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B TRP* 4.2 0.2 - - - -
210B MSE 5.7 2.5 - - - +
215B GLN* 5.1 1.6 - - - +
226B ASN 4.2 1.8 - - - +
227B MSE 1.4 88.7 - - + +
229B TYR* 1.3 64.9 + - - +
230B SER* 4.3 2.2 - - - +
231B CYS* 3.0 16.5 + - + +
232B MSE 3.0 20.4 + - - +
298B PHE* 3.8 17.7 - - + -
308B ILE* 3.6 35.4 - - + -
313B ARG* 3.9 32.8 - - + +
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Residues in contact with TYR 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B VAL* 6.2 1.1 - - + -
86B TRP* 3.9 27.8 - + + -
87B GLU* 3.5 22.4 - - + -
90B PHE* 5.7 0.2 - - + -
112B TYR* 3.1 40.6 - + - +
163B HIS* 3.8 10.5 + + - -
209B VAL* 3.5 40.1 + - + +
210B MSE 3.8 37.7 + - + +
215B GLN* 4.8 2.8 + - - +
227B MSE 3.4 4.0 + - - -
228B PRO* 1.3 72.1 - - - +
230B SER* 1.3 59.4 + - - +
231B CYS 3.1 0.2 - - - -
232B MSE 4.4 0.2 - - - +
233B PHE* 3.0 59.7 + + + +
390B MSE 4.1 2.9 - - - -
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Residues in contact with SER 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B MSE 4.2 4.7 + - - -
228B PRO* 3.2 1.3 - - - +
229B TYR* 1.3 79.2 - - - +
231B CYS* 1.3 58.7 + - - +
234B PRO* 3.2 20.2 - - - +
298B PHE* 5.8 0.5 - - - -
313B ARG* 3.9 17.3 + - - +
316B GLY 5.9 0.7 - - - -
317B ARG* 3.5 17.6 - - - +
320B GLN* 4.8 1.2 - - - +
390B MSE 3.4 38.6 - - - -
391B ILE* 3.0 27.4 + - - -
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Residues in contact with CYS 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B MSE 4.1 17.5 - - + -
228B PRO* 3.0 13.9 + - + +
230B SER* 1.3 79.8 + - - +
232B MSE 1.3 61.2 + - - +
233B PHE 3.5 0.4 - - - -
234B PRO* 3.5 3.1 - - - +
235B LEU* 3.0 36.3 + - - +
291B LEU 5.8 0.2 - - - -
294B THR* 4.3 10.5 - - + -
295B ALA* 4.2 18.4 - - - -
298B PHE* 3.8 35.0 - - + -
316B GLY 6.5 1.6 - - - -
320B GLN* 5.9 0.7 - - - +
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Residues in contact with MSE 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B LEU* 3.7 40.2 - - + -
57B PRO* 4.1 11.4 - - + -
60B PHE* 4.6 1.8 - - + -
83B VAL* 3.5 16.7 - - + +
86B TRP* 3.5 46.2 - - + -
224B LEU* 4.2 9.9 - - + -
227B MSE 3.5 38.8 - - + -
228B PRO 3.0 10.9 + - - +
229B TYR 3.3 0.2 + - - -
231B CYS* 1.3 75.0 - - - +
233B PHE* 1.3 68.3 + - - +
235B LEU* 3.4 33.6 + - + +
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Residues in contact with PHE 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B GLY 4.8 0.9 - - - +
80B ILE* 6.0 5.2 - - + -
83B VAL* 4.1 20.6 - - + +
84B HIS* 6.1 0.4 - - - -
86B TRP* 5.4 0.4 - - + -
110B SER* 6.3 0.9 - - - -
112B TYR* 3.5 38.1 - + + -
229B TYR* 3.0 50.0 + + + +
232B MSE 1.3 79.6 - - - +
234B PRO* 1.4 72.3 - - + +
235B LEU 3.3 0.2 + - - -
236B GLY* 3.8 6.1 + - - -
237B ILE* 3.7 27.6 + - + +
362B HIS* 4.3 8.3 - + - -
364B VAL* 3.5 27.4 - - + -
390B MSE 4.0 14.4 - - - -
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Residues in contact with PRO 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229B TYR 3.7 0.7 - - - +
230B SER 3.2 30.5 - - - +
231B CYS 3.5 3.8 - - - +
233B PHE* 1.4 93.4 - - + +
235B LEU* 1.3 57.0 + - - +
236B GLY 3.3 0.2 - - - -
237B ILE* 3.2 8.1 + - + +
238B THR* 2.9 32.6 + - - -
317B ARG* 4.2 0.4 - - - +
320B GLN* 3.4 34.1 - - + +
364B VAL* 4.1 17.5 - - + -
390B MSE 3.5 21.5 - - + -
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Residues in contact with LEU 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57B PRO* 4.0 28.0 - - + +
60B PHE* 4.0 15.3 - - + -
61B ALA* 3.9 16.2 - - + -
231B CYS* 3.0 24.5 + - - +
232B MSE 3.5 28.3 - - + +
233B PHE 3.2 0.8 - - - -
234B PRO* 1.3 76.3 - - - +
236B GLY* 1.3 58.6 + - - +
239B ALA* 2.8 33.3 + - - +
291B LEU* 3.7 43.9 - - + +
292B ILE* 5.2 0.7 - - - -
295B ALA* 4.4 12.3 - - + -
320B GLN* 5.1 0.4 - - - +
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Residues in contact with GLY 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B PHE* 3.7 18.7 - - - -
64B VAL* 3.5 3.4 - - - +
79B GLY* 3.4 36.9 - - - -
83B VAL* 4.7 0.2 - - - -
232B MSE 3.8 3.4 + - - -
233B PHE 3.8 3.6 + - - -
234B PRO 3.3 0.4 - - - -
235B LEU* 1.3 80.8 - - - +
237B ILE* 1.3 60.4 + - - +
239B ALA* 4.3 3.4 - - - -
240B ALA* 3.1 18.0 + - - +
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Residues in contact with ILE 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B TRP* 3.4 26.0 - - + -
79B GLY* 4.9 2.0 - - - +
80B ILE* 3.7 30.7 - - + -
233B PHE* 3.7 33.3 + - + +
234B PRO 3.2 7.2 + - - +
236B GLY* 1.3 75.0 - - - +
238B THR* 1.3 65.4 + - - +
240B ALA* 3.2 7.5 + - - +
241B VAL* 3.1 21.5 + - - +
362B HIS* 3.7 30.1 - - + +
364B VAL* 3.6 15.9 - - + -
365B HIS* 3.5 18.8 - - + -
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Residues in contact with THR 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B PRO 2.9 15.2 + - - -
237B ILE* 1.3 69.7 - - - +
239B ALA* 1.3 66.9 + - - +
241B VAL* 3.1 3.6 + - - +
242B ILE* 2.9 30.0 + - + +
291B LEU* 3.9 20.6 - - + -
320B GLN* 2.9 43.8 + - - +
323B ALA* 4.2 0.7 - - + -
324B ALA* 4.0 18.2 - - + +
365B HIS* 2.8 24.6 + - - -
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Residues in contact with ALA 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61B ALA* 3.7 32.8 - - + +
64B VAL* 3.8 11.4 - - + -
65B MSE 3.2 22.2 - - + +
235B LEU 2.8 22.0 + - - +
236B GLY* 3.8 4.5 - - - +
238B THR* 1.3 76.9 - - - +
240B ALA* 1.3 56.9 + - - +
242B ILE 3.4 0.3 + - - -
243B GLY* 2.9 25.3 + - - -
291B LEU* 3.6 9.2 - - + +
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Residues in contact with ALA 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64B VAL* 3.6 6.9 - - + +
68B ALA* 3.3 7.5 - - + +
75B GLY 3.7 24.0 - - - +
76B TRP* 3.8 24.2 - - + +
236B GLY 3.1 15.3 + - - +
237B ILE* 3.5 9.0 - - - +
238B THR 3.2 0.4 - - - -
239B ALA* 1.3 73.5 - - - +
241B VAL* 1.3 59.4 + - - +
244B ILE* 2.8 38.0 + - + +
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Residues in contact with VAL 241 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B TRP* 3.9 14.8 - - + -
237B ILE 3.1 14.2 + - - +
238B THR* 3.1 8.3 + - - +
240B ALA* 1.3 72.3 - - - +
242B ILE* 1.3 64.6 - - - +
244B ILE* 3.2 12.3 + - + +
245B THR* 3.0 23.8 + - + +
324B ALA* 4.1 17.9 - - + +
327B ALA* 5.0 0.7 - - + -
328B VAL* 3.6 31.4 - - + -
356B ALA* 4.4 6.3 - - - +
359B GLY* 4.0 14.4 - - - -
360B LEU* 5.2 0.9 - - + +
365B HIS* 3.7 22.4 - - + -
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Residues in contact with ILE 242 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B MSE 4.2 7.9 - - + -
238B THR* 2.9 22.4 + - + +
239B ALA 3.7 4.0 - - - +
241B VAL* 1.3 75.3 - - - +
243B GLY* 1.3 57.4 + - - +
245B THR* 2.7 24.2 + - - -
246B GLU* 2.9 23.8 + - - +
284B ILE* 4.3 10.1 - - + +
287B SER* 3.5 39.0 - - - +
288B ARG* 3.7 25.8 - - + +
291B LEU* 3.9 20.4 - - + -
323B ALA* 4.1 11.9 - - + +
324B ALA* 5.1 1.3 - - - +
327B ALA* 4.3 9.0 - - + -
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Residues in contact with GLY 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B MSE 3.4 23.5 - - - +
68B ALA* 3.8 7.4 - - - -
69B ALA* 3.3 11.4 - - - +
239B ALA 2.9 17.2 + - - -
240B ALA 3.8 2.2 - - - -
242B ILE* 1.3 73.2 - - - +
244B ILE* 1.3 56.6 + - - +
246B GLU* 3.3 12.9 + - - +
247B GLY 2.8 23.9 + - - -
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Residues in contact with ILE 244 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B ALA* 3.7 10.9 - - + +
72B GLY* 3.6 35.0 - - - +
76B TRP* 4.9 4.0 - - + -
183B LEU* 4.1 11.9 - - + -
240B ALA* 2.8 32.1 + - + +
241B VAL* 3.4 12.8 - - + +
243B GLY* 1.3 73.0 - - - +
245B THR* 1.3 56.8 + - - +
247B GLY 3.2 0.9 + - - -
248B ALA* 2.9 23.0 + - - +
352B PHE* 3.0 41.8 - - + +
355B ASP* 4.0 20.2 - - + +
356B ALA* 3.6 14.8 - - + +
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Residues in contact with THR 245 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B VAL 3.0 14.1 + - - +
242B ILE 2.7 16.6 + - - -
244B ILE* 1.3 73.4 - - - +
246B GLU* 1.3 59.8 + - - +
248B ALA* 3.3 8.7 + - - +
249B LEU* 3.1 26.3 + - - +
284B ILE* 3.5 23.5 - - - +
327B ALA* 3.5 41.1 - - + +
328B VAL* 4.0 4.0 - - + +
331B ALA* 3.9 16.2 - - + +
334B ILE* 5.7 0.2 - - - +
356B ALA* 4.0 17.3 - - + -
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Residues in contact with GLU 246 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65B MSE 4.0 4.3 - - - +
69B ALA* 4.5 7.6 - - + +
242B ILE* 2.9 20.8 + - - +
243B GLY* 3.5 19.3 - - - +
245B THR* 1.3 76.2 + - - +
247B GLY* 1.3 56.0 + - - +
249B LEU* 3.4 12.7 + - + +
250B ALA* 2.9 28.9 + - - +
284B ILE* 3.5 19.7 - - + +
285B ASN* 5.5 1.0 - - - -
288B ARG* 2.8 53.7 + - - +
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Residues in contact with GLY 247 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B ALA* 3.6 28.1 - - - +
243B GLY 2.8 17.2 + - - -
244B ILE 3.2 4.4 + - - -
246B GLU* 1.3 71.2 - - - +
248B ALA* 1.3 57.5 - - - +
250B ALA* 3.4 6.2 + - - +
251B CYS* 3.0 33.3 + - - -
352B PHE* 3.8 9.8 - - - -
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Residues in contact with ALA 248 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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244B ILE 2.9 9.9 + - - +
245B THR* 3.3 11.2 + - - +
247B GLY* 1.3 75.1 - - - +
249B LEU* 1.3 61.4 + - - +
251B CYS* 3.2 2.2 + - - -
252B HIS 3.0 18.0 + - - -
331B ALA* 4.6 13.7 - - + -
349B MSE 3.4 32.7 - - + +
352B PHE* 3.7 23.2 - - + +
353B TRP* 4.5 9.2 - - + +
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Residues in contact with LEU 249 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245B THR 3.1 13.2 + - - +
246B GLU* 3.6 13.2 - - + +
247B GLY 3.3 0.2 - - - -
248B ALA* 1.3 78.5 - - - +
250B ALA* 1.3 57.0 + - - +
252B HIS* 3.2 8.2 + - + +
253B ILE* 2.9 50.4 + - + +
277B ILE* 4.0 26.0 - - + +
281B ALA* 4.1 25.4 - - + -
284B ILE* 4.8 8.5 - - + -
334B ILE* 3.7 34.0 - - + +
349B MSE 5.0 0.2 - - - -
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Residues in contact with ALA 250 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B ALA* 5.7 3.4 - - + +
246B GLU 2.9 16.7 + - - +
247B GLY* 3.7 8.3 - - - +
248B ALA 3.4 0.2 - - - -
249B LEU* 1.3 72.9 - - - +
251B CYS* 1.3 59.9 + - - +
253B ILE* 3.5 11.6 + - - +
254B ALA* 2.9 30.0 + - - +
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Residues in contact with CYS 251 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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247B GLY 3.0 22.3 + - - -
248B ALA 3.6 7.9 - - - +
250B ALA* 1.3 74.7 - - - +
252B HIS* 1.3 66.1 + - - +
254B ALA* 3.3 7.3 + - - +
255B VAL* 3.1 28.0 + - + +
348B PRO* 3.9 16.8 - - + -
349B MSE 3.6 28.3 - - + +
352B PHE* 3.6 30.3 - - - -
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Residues in contact with HIS 252 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248B ALA 3.0 13.1 + - - +
249B LEU* 3.2 8.7 + - + +
251B CYS* 1.3 77.0 - - - +
253B ILE* 1.3 67.0 + - + +
255B VAL* 3.1 10.1 + - - +
256B GLN* 2.9 53.4 + - + +
273B VAL* 4.7 7.4 - - + +
277B ILE* 3.5 33.4 - - + +
334B ILE* 3.8 17.4 - - + +
337B ARG 4.5 6.1 - - - -
338B ALA* 4.1 35.1 - - + +
349B MSE 3.8 16.0 - - + -
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Residues in contact with ILE 253 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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249B LEU* 2.9 47.2 + - + +
250B ALA* 3.7 9.0 - - - +
252B HIS* 1.3 78.2 - - + +
254B ALA* 1.3 57.7 + - - +
256B GLN* 3.2 10.0 + - - +
257B LYS* 3.0 51.0 + - + +
277B ILE* 5.6 5.8 - - + -
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Residues in contact with ALA 254 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250B ALA 2.9 21.2 + - - +
251B CYS* 3.8 7.2 - - - +
252B HIS 3.3 0.4 - - - -
253B ILE* 1.3 73.0 - - - +
255B VAL* 1.3 66.0 + - - +
257B LYS* 4.4 6.7 - - - -
258B ASP* 2.9 44.1 + - - +
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Residues in contact with VAL 255 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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251B CYS* 3.1 20.6 + - + +
252B HIS* 3.1 5.3 + - - +
254B ALA* 1.3 78.7 - - + +
256B GLN* 1.3 84.0 + - - +
258B ASP* 4.1 3.1 - - - +
259B ARG* 3.2 30.5 + - - +
347B THR* 6.2 4.0 - - - -
348B PRO* 6.2 4.7 - - + -
349B MSE 6.1 3.4 - - + -
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Residues in contact with GLN 256 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252B HIS* 2.9 55.4 + - + +
253B ILE* 3.2 7.6 + - - +
255B VAL* 1.3 92.5 - - - +
257B LYS* 1.3 65.5 + - + +
259B ARG* 2.8 38.6 + - - +
260B VAL* 3.2 26.0 + - - +
267B ILE* 3.8 19.7 - - + -
277B ILE* 6.1 1.3 - - + -
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Residues in contact with LYS 257 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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253B ILE* 3.0 37.7 + - + +
254B ALA* 4.2 5.8 - - - +
256B GLN* 1.3 79.1 - - + +
258B ASP* 1.3 59.9 + - - +
260B VAL* 3.4 6.4 + - - +
261B ALA* 2.9 28.8 + - - +
267B ILE* 4.7 4.2 - - + +
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Residues in contact with ASP 258 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254B ALA* 2.9 34.3 + - - +
255B VAL* 4.1 2.9 - - - +
257B LYS* 1.3 76.1 - - - +
259B ARG* 1.3 65.5 + - - +
261B ALA* 3.5 7.8 + - - +
262B ILE* 3.0 36.6 + - + +
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Residues in contact with ARG 259 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255B VAL* 3.2 23.4 + - - +
256B GLN* 2.8 49.4 + - - +
258B ASP* 1.3 79.6 - - - +
260B VAL* 1.3 62.1 + - - +
262B ILE* 3.1 9.1 + - - +
263B THR* 2.9 44.3 + - + +
265B GLN* 6.4 1.1 - - - -
267B ILE* 4.7 7.3 - - - +
268B LYS* 5.7 4.4 - - - +
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Residues in contact with VAL 260 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B GLN 3.2 6.0 + - - +
257B LYS* 3.8 7.4 - - - +
259B ARG* 1.3 79.9 - - + +
261B ALA* 1.3 62.2 + - - +
263B THR* 4.1 3.1 - - - +
264B GLY* 2.7 32.9 + - - +
265B GLN 3.3 30.7 - - - +
266B LYS* 4.5 4.5 - - - +
267B ILE* 3.4 40.8 - - + +
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Residues in contact with ALA 261 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257B LYS 2.9 17.8 + - - +
258B ASP* 3.7 9.2 - - - +
259B ARG 3.3 0.2 - - - -
260B VAL* 1.3 76.3 - - - +
262B ILE* 1.3 63.1 + - + +
264B GLY* 4.3 3.1 + - - -
----------------------------------------------------------
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Residues in contact with ILE 262 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258B ASP* 3.0 29.6 + - + +
259B ARG* 3.1 7.2 + - - +
261B ALA* 1.3 80.6 - - + +
263B THR* 1.3 68.4 + - + +
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Residues in contact with THR 263 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259B ARG* 2.9 38.5 + - + +
260B VAL* 4.1 1.7 - - - +
262B ILE* 1.3 83.0 - - + +
264B GLY* 1.3 59.8 + - - +
265B GLN* 3.1 45.0 + - - +
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Residues in contact with GLY 264 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260B VAL* 2.7 25.7 + - - +
261B ALA 4.3 3.1 + - - -
262B ILE 3.6 1.4 - - - -
263B THR* 1.3 71.3 - - - +
265B GLN* 1.3 59.6 + - - +
266B LYS* 4.0 1.4 + - - +
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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