Contacts of the helix formed by residues 309 - 336 (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 THR 309 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307B GLU 4.2 8.3 - - - +
308B ILE* 1.3 75.9 - - - +
310B PHE* 1.3 63.8 + - - +
311B GLU* 3.6 8.3 + - - +
312B GLU* 2.9 39.0 + - - +
313B ARG* 3.0 23.0 + - - +
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Residues in contact with PHE 310 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B THR* 1.3 73.6 - - - +
311B GLU* 1.3 59.4 + - + +
313B ARG* 3.4 24.1 + - - +
314B ALA* 2.8 29.2 + - + +
377B THR* 3.9 14.4 - - + -
382B GLU* 3.9 10.5 - - - +
383B PRO* 3.8 27.1 - - + -
388B ARG* 3.4 56.1 - - + +
391B ILE* 3.5 46.8 - - + +
603B ACT 3.7 13.2 - - + +
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Residues in contact with GLU 311 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B THR* 3.2 7.7 + - - +
310B PHE* 1.3 80.8 - - + +
312B GLU* 1.3 64.7 + - + +
314B ALA* 3.3 6.5 + - - +
315B ILE* 3.0 37.1 + - + +
377B THR* 3.2 36.1 - - - +
378B GLN* 3.6 24.9 + - - +
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Residues in contact with GLU 312 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297B ARG* 5.3 9.1 + - - +
298B PHE* 3.3 19.4 - - + -
301B LYS* 3.1 32.0 + - - +
307B GLU 3.9 3.3 - - - +
308B ILE* 3.3 18.3 - - + +
309B THR* 2.9 47.1 + - - +
311B GLU* 1.3 77.3 - - + +
313B ARG* 1.3 57.6 + - - +
315B ILE* 3.5 10.1 + - + +
316B GLY 2.9 22.9 + - - -
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Residues in contact with ARG 313 (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 15.0 + - - +
211B ASP* 4.2 11.2 + - - +
228B PRO* 3.9 26.8 - - + +
230B SER* 3.9 5.8 + - - +
298B PHE* 4.0 7.8 - - + -
308B ILE* 3.6 39.5 + - + -
309B THR 3.0 6.3 + - - +
310B PHE* 3.6 26.3 - - - +
312B GLU* 1.3 75.0 - - - +
314B ALA* 1.3 63.0 + - - +
316B GLY* 3.2 1.7 + - - -
317B ARG* 3.0 27.4 + - - +
391B ILE* 2.7 43.3 + - + +
603B ACT 3.1 35.0 + - - +
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Residues in contact with ALA 314 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B PHE* 2.8 24.2 + - + +
311B GLU* 3.5 8.7 - - - +
313B ARG* 1.3 77.1 - - - +
315B ILE* 1.3 57.3 + - - +
317B ARG* 3.5 4.5 + - - +
318B ARG* 3.1 24.9 + - - +
370B THR* 4.0 3.1 - - - +
374B SER* 3.7 25.2 - - - +
377B THR* 4.8 2.7 - - + +
391B ILE* 3.4 29.5 - - + +
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Residues in contact with ILE 315 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297B ARG* 6.0 5.4 - - - +
311B GLU* 3.0 37.2 + - + +
312B GLU* 3.8 7.9 - - + +
314B ALA* 1.3 73.1 - - - +
316B GLY* 1.3 60.4 + - - +
318B ARG* 3.3 41.0 + - - +
319B THR* 2.9 36.5 + - - +
374B SER* 4.6 4.7 - - - +
378B GLN* 4.2 15.9 - - + +
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Residues in contact with GLY 316 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B SER 5.9 0.4 - - - -
231B CYS* 6.5 1.6 - - - -
294B THR* 3.9 32.3 + - - +
297B ARG* 6.1 0.7 - - - -
298B PHE* 4.5 2.9 - - - -
312B GLU 2.9 16.4 + - - -
313B ARG 3.2 4.8 + - - -
315B ILE* 1.3 77.0 - - - +
317B ARG* 1.3 55.2 + - - +
319B THR* 3.4 3.0 + - - -
320B GLN* 3.0 29.5 + - - +
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Residues in contact with ARG 317 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B SER* 3.5 26.5 - - - +
234B PRO* 4.2 1.8 - - - +
313B ARG 3.0 15.0 + - - +
314B ALA* 3.6 9.9 - - - +
316B GLY* 1.3 72.5 - - - +
318B ARG* 1.3 66.0 + - - +
320B GLN* 2.9 26.8 + - - +
321B ILE* 2.9 45.1 + - - +
363B ALA 4.8 3.6 + - - -
364B VAL* 3.1 34.2 + - - +
366B VAL 4.9 2.2 + - - -
370B THR* 3.6 28.8 + - + +
389B ALA 5.1 0.6 + - - -
390B MSE 2.9 54.9 + - - +
391B ILE* 4.6 3.8 - - + +
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Residues in contact with ARG 318 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314B ALA 3.1 14.2 + - - +
315B ILE* 3.3 35.4 + - - +
317B ARG* 1.3 75.6 - - - +
319B THR* 1.3 60.6 + - - +
321B ILE* 3.8 3.7 - - - +
322B ALA* 2.9 33.1 + - + +
370B THR* 3.8 9.3 - - + +
371B ASN* 3.3 28.9 + - - +
374B SER* 3.0 35.8 + - - +
375B ALA* 3.8 6.3 - - - +
378B GLN* 2.6 36.5 + - - +
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Residues in contact with THR 319 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290B SER* 3.5 41.4 - - - +
291B LEU* 4.4 1.3 - - - +
293B GLU* 6.0 0.4 - - - +
294B THR* 3.7 12.3 - - - +
315B ILE* 2.9 26.4 + - - +
316B GLY* 3.6 4.5 - - - -
318B ARG* 1.3 79.9 + - - +
320B GLN* 1.3 57.7 + - - +
322B ALA* 3.8 5.4 - - - +
323B ALA* 3.0 28.6 + - - +
326B ARG* 5.2 1.2 + - - -
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Residues in contact with GLN 320 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B SER 4.8 0.8 - - - +
231B CYS 5.9 0.7 - - - +
234B PRO* 3.4 26.4 - - + +
235B LEU 5.1 0.2 - - - +
238B THR* 2.9 44.3 + - - +
291B LEU* 3.6 30.3 - - + -
316B GLY 3.0 17.4 + - - +
317B ARG* 2.9 34.1 + - - +
319B THR* 1.3 73.8 - - - +
321B ILE* 1.3 68.1 + - - +
323B ALA* 3.3 8.1 + - - +
324B ALA* 3.3 1.2 + - - +
364B VAL* 3.1 23.2 + - - +
365B HIS* 3.7 5.5 - - - -
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Residues in contact with ILE 321 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317B ARG* 2.9 39.7 + - - +
318B ARG* 3.8 4.5 - - - +
320B GLN* 1.3 80.4 - - - +
322B ALA* 1.3 64.8 + - - +
324B ALA* 3.2 12.5 + - - +
325B TRP* 3.3 17.0 - - + -
364B VAL 3.4 20.6 - - - +
365B HIS* 3.4 24.7 - - - +
366B VAL 3.8 10.3 - - - +
367B PRO* 3.7 22.2 - - + +
370B THR* 3.7 33.2 - - + +
371B ASN* 5.6 3.6 - - - +
608B ACT 4.7 1.1 - - + -
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Residues in contact with ALA 322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318B ARG* 2.9 21.2 + - + +
319B THR* 3.8 5.4 - - - +
321B ILE* 1.3 78.6 - - - +
323B ALA* 1.3 55.9 + - - +
325B TRP* 3.3 7.5 + - - +
326B ARG* 2.9 52.4 + - - +
371B ASN* 5.9 2.0 - - - +
608B ACT 5.2 9.4 - - + +
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Residues in contact with ALA 323 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B THR* 4.2 3.6 - - + -
242B ILE* 4.1 9.5 - - + +
287B SER* 2.7 55.5 + - - +
290B SER* 5.2 0.9 - - - -
291B LEU* 4.5 6.3 - - + +
319B THR 3.0 17.2 + - - +
320B GLN* 3.5 9.2 - - - +
321B ILE 3.2 0.4 - - - -
322B ALA* 1.3 76.6 - - - +
324B ALA* 1.3 61.5 + - - +
326B ARG* 3.6 7.1 - - - +
327B ALA* 3.1 10.9 + - - +
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Residues in contact with ALA 324 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B THR* 4.0 11.3 - - + +
241B VAL* 4.3 12.3 - - + -
242B ILE* 5.1 0.7 - - - -
320B GLN 3.3 2.0 + - - -
321B ILE 3.2 7.4 + - - +
323B ALA* 1.3 77.2 - - - +
325B TRP* 1.3 64.9 + - - +
327B ALA* 3.4 2.6 + - - +
328B VAL* 3.1 29.6 + - - +
360B LEU* 4.0 11.4 - - + -
365B HIS* 3.5 39.0 - - + +
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Residues in contact with TRP 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A GLU* 3.7 11.2 - - - -
336A ALA* 3.4 38.8 - - + -
337A ARG* 3.6 38.8 - - + -
321B ILE* 3.3 25.7 + - + +
322B ALA 3.3 7.0 + - - +
324B ALA* 1.3 78.7 - - + +
326B ARG* 1.3 57.8 + - - +
328B VAL* 3.4 2.5 + - - +
329B ARG* 3.0 62.0 + - + +
360B LEU* 3.9 29.3 - - + +
365B HIS 2.9 24.1 + - - -
366B VAL* 5.5 0.2 - - - -
367B PRO* 3.7 24.8 - - + +
608B ACT 3.8 27.3 - - + +
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Residues in contact with ARG 326 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283B GLU* 3.4 48.1 + - + +
286B ALA* 4.0 16.0 + - - +
287B SER* 3.3 31.2 + - - +
290B SER* 4.6 7.8 + - - -
319B THR 5.2 0.8 + - - -
322B ALA* 2.9 39.2 + - - +
323B ALA* 3.6 15.0 - - - +
325B TRP* 1.3 75.8 - - - +
327B ALA* 1.3 57.4 + - - +
329B ARG* 3.6 9.0 + - - +
330B ALA* 3.0 29.8 + - - +
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Residues in contact with ALA 327 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B VAL* 5.0 1.3 - - + -
242B ILE* 4.3 12.1 - - + -
245B THR* 3.5 34.2 - - + +
284B ILE* 4.0 13.2 - - + +
287B SER* 3.6 13.4 + - - +
323B ALA 3.1 16.7 + - - +
324B ALA* 3.8 4.5 - - - +
325B TRP 3.3 0.2 - - - -
326B ARG* 1.3 81.0 - - - +
328B VAL* 1.3 56.4 + - - +
330B ALA* 3.3 2.6 + - - +
331B ALA 3.0 23.6 + - - -
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Residues in contact with VAL 328 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B VAL* 3.6 23.3 - - + -
245B THR* 4.1 5.4 - - + -
324B ALA 3.1 17.6 + - - +
325B TRP 4.0 2.9 - - - +
327B ALA* 1.3 72.5 - - - +
329B ARG* 1.3 61.2 + - + +
331B ALA* 3.2 3.3 + - + +
332B ASP* 2.9 34.3 + - - +
356B ALA* 3.7 22.7 - - + +
357B HIS* 3.6 40.2 - - + +
360B LEU* 4.0 24.2 - - + -
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Residues in contact with ARG 329 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A GLU* 2.8 43.0 + - - +
337A ARG* 5.0 0.2 - - - +
325B TRP* 3.0 44.6 + - + +
326B ARG* 3.9 6.9 - - - +
328B VAL* 1.3 76.6 - - + +
330B ALA* 1.3 62.6 + - - +
332B ASP* 3.3 15.0 + - - +
333B GLU* 3.2 28.0 + - + +
360B LEU* 6.3 1.1 - - + -
608B ACT 3.2 37.6 + - - -
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Residues in contact with ALA 330 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280B SER* 2.8 55.1 + - - +
283B GLU* 3.8 13.0 - - + -
284B ILE* 3.7 9.9 - - + -
326B ARG 3.0 19.0 + - - +
327B ALA 3.6 4.7 - - - +
329B ARG* 1.3 76.5 - - - +
331B ALA* 1.3 61.5 + - - +
333B GLU* 3.3 9.6 + - - -
334B ILE* 3.5 4.0 + - - +
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Residues in contact with ALA 331 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B THR* 3.9 27.6 - - + +
248B ALA* 4.6 13.9 - - + +
284B ILE* 4.4 2.1 - - - +
327B ALA 3.0 17.6 + - - +
328B VAL* 3.6 5.2 - - - +
330B ALA* 1.3 74.6 - - - +
332B ASP* 1.3 58.7 + - - +
334B ILE* 3.2 13.6 + - - +
335B PHE* 2.9 29.8 + - - +
349B MSE 4.7 2.1 - - - +
353B TRP* 4.7 7.0 - - + -
356B ALA* 5.2 5.6 - - + -
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Residues in contact with ASP 332 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A ASP* 3.6 17.3 - - - +
357A HIS* 5.1 2.3 - - + -
611A ACT 3.8 19.7 - - - +
328B VAL* 2.9 16.9 + - - +
329B ARG* 3.3 18.2 + - - +
331B ALA* 1.3 76.9 - - - +
333B GLU* 1.3 55.8 + - - +
335B PHE* 3.9 0.7 - - - +
336B ALA* 2.9 32.6 + - - +
353B TRP* 2.8 19.4 + - - +
357B HIS* 2.5 43.0 + - - -
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Residues in contact with GLU 333 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A TRP* 3.8 1.7 - - - -
329A ARG* 2.9 42.8 + - - -
611A ACT 2.9 12.5 - - - +
276B ALA* 5.4 3.6 - - + +
280B SER* 3.5 20.0 - - - +
329B ARG 3.2 15.2 + - - +
330B ALA* 3.6 1.8 - - - +
331B ALA 3.3 0.6 - - - -
332B ASP* 1.3 76.8 - - - +
334B ILE* 1.3 60.5 + - - +
336B ALA* 4.0 2.0 - - - +
337B ARG* 3.0 54.1 + - - +
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Residues in contact with ILE 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B THR 5.7 0.2 - - - +
249B LEU* 3.7 36.1 - - + +
252B HIS* 3.8 28.1 + - + +
276B ALA 5.1 0.2 - - - +
277B ILE* 4.5 18.2 - - + +
280B SER* 3.7 31.6 - - - +
281B ALA 5.0 0.2 - - - +
284B ILE* 4.7 5.6 - - + -
330B ALA 3.5 6.2 + - - +
331B ALA* 3.2 12.6 + - - +
333B GLU* 1.3 75.0 - - - +
335B PHE* 1.3 67.1 + - - +
337B ARG* 3.0 18.5 + - + +
338B ALA* 3.3 10.0 + - - +
349B MSE 3.3 21.5 - - + -
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Residues in contact with PHE 335 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A ILE* 4.5 3.8 - - + -
357A HIS* 5.0 9.9 - - + -
361A ALA* 6.0 1.9 - - - +
331B ALA 2.9 16.2 + - - +
332B ASP 4.0 2.2 - - - +
334B ILE* 1.3 77.0 - - - +
336B ALA* 1.3 63.4 + - - +
337B ARG 3.1 0.2 - - - -
338B ALA* 3.1 16.7 + - + +
339B GLY 4.5 2.3 + - - +
342B ALA* 3.5 35.6 - - + +
343B LEU* 4.3 22.4 - - + -
349B MSE 3.8 25.2 - - + +
350B GLN* 3.7 25.1 - - + -
353B TRP* 3.6 62.4 - + + +
----------------------------------------------------------
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Residues in contact with ALA 336 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A TRP* 3.5 32.6 - - + -
357A HIS* 5.8 3.1 - - - +
360A LEU* 3.8 21.9 - - + +
361A ALA* 5.1 6.0 - - - +
611A ACT 3.6 18.4 - - + +
332B ASP 2.9 20.1 + - - +
333B GLU 4.0 1.6 - - - +
334B ILE 3.2 0.2 - - - -
335B PHE* 1.3 78.7 - - - +
337B ARG* 1.3 58.9 + - - +
338B ALA 3.5 0.6 + - - -
339B GLY 4.9 1.9 + - - -
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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