Contacts of the helix formed by residues 292 - 325 (chain E) in PDB entry 6O81
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 ARG 292 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248E LEU* 5.7 0.5 - - - +
290E SER 5.1 3.1 - - - +
291E LYS* 1.3 79.7 - - - +
293E GLU* 1.3 65.5 + - - +
294E GLU* 3.7 11.7 - - + +
295E GLU* 4.2 23.4 + - + +
296E ALA* 3.3 19.8 + - - +
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Residues in contact with GLU 293 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240E TYR* 3.7 7.1 - - - +
241E THR* 3.6 12.1 + - - -
242E THR* 3.3 44.7 + - + +
248E LEU* 4.9 8.5 - - + +
292E ARG* 1.3 74.2 - - - +
294E GLU* 1.3 63.1 + - - +
296E ALA* 3.4 3.2 + - - +
297E LYS* 2.9 49.6 + - + +
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Residues in contact with GLU 294 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292E ARG* 5.2 12.3 - - - +
293E GLU* 1.3 77.7 - - + +
295E GLU* 1.3 64.9 + - + +
297E LYS* 3.7 16.2 - - - +
298E SER* 2.9 30.3 + - - -
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Residues in contact with GLU 295 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291E LYS* 4.0 17.5 - - - +
292E ARG* 4.2 23.2 + - + +
293E GLU 3.3 0.6 - - - -
294E GLU* 1.3 82.9 - - + +
296E ALA* 1.3 58.6 + - - +
298E SER* 2.9 23.8 + - - +
299E GLU* 2.9 51.4 + - - +
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Residues in contact with ALA 296 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248E LEU* 4.9 13.0 - - + -
287E VAL* 3.9 29.1 - - + +
291E LYS* 4.5 7.2 - - + -
292E ARG 3.3 18.8 + - - +
293E GLU 3.4 3.0 + - - +
295E GLU* 1.3 79.9 + - - +
297E LYS* 1.3 61.0 + - - +
299E GLU* 3.4 10.0 + - - +
300E LEU* 2.9 35.4 + - - +
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Residues in contact with LYS 297 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237E ILE* 3.4 38.0 - - + +
238E GLN* 4.2 11.7 + - - +
240E TYR* 3.3 29.3 + - + +
248E LEU* 4.9 9.9 - - + -
293E GLU* 2.9 44.3 + - + +
294E GLU* 3.7 12.7 - - - +
295E GLU 3.3 0.2 - - - -
296E ALA* 1.3 77.0 - - - +
298E SER* 1.3 57.7 + - - +
300E LEU* 3.4 5.2 + - + +
301E ARG* 2.9 37.3 + - - +
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Residues in contact with SER 298 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294E GLU 2.9 16.6 + - - -
295E GLU* 2.9 20.4 + - - +
297E LYS* 1.3 73.0 - - - +
299E GLU* 1.3 62.0 + - - +
301E ARG* 3.8 8.5 - - - +
302E ALA* 2.9 31.2 + - - +
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Residues in contact with GLU 299 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287E VAL* 5.8 1.2 - - - +
291E LYS* 3.1 36.4 + - - +
295E GLU* 2.9 45.1 + - - +
296E ALA* 3.6 7.5 - - - +
298E SER* 1.3 79.8 + - - +
300E LEU* 1.3 58.4 + - + +
302E ALA* 3.4 5.1 + - - +
303E ALA* 2.9 29.8 + - - +
306E ARG* 4.7 2.3 + - - -
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Residues in contact with LEU 300 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237E ILE* 4.1 19.1 - - + -
248E LEU* 4.2 22.2 - - + -
252E LEU* 4.4 6.1 - - + -
280E LEU* 5.2 2.9 - - + -
283E GLU* 4.0 31.2 - - + +
284E ILE* 3.7 33.0 - - + -
287E VAL* 4.2 12.1 - - + -
296E ALA 2.9 22.7 + - - +
297E LYS* 3.8 7.6 - - + +
299E GLU* 1.3 74.3 - - + +
301E ARG* 1.3 61.6 + - - +
303E ALA* 3.3 4.1 + - + +
304E ILE* 2.9 36.7 + - + +
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Residues in contact with ARG 301 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234E GLN* 2.8 58.5 + - + +
235E GLN* 5.4 2.2 - - - +
237E ILE* 3.9 20.2 - - + -
238E GLN* 3.5 34.2 + - - +
297E LYS* 2.9 23.9 + - - +
298E SER* 3.8 7.9 - - - +
300E LEU* 1.3 76.8 - - - +
302E ALA* 1.3 57.2 + - - +
304E ILE* 3.4 7.3 + - - +
305E ASP* 2.9 43.0 + - - +
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Residues in contact with ALA 302 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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298E SER 2.9 18.5 + - - +
299E GLU* 3.8 4.9 - - - +
301E ARG* 1.3 75.7 - - - +
303E ALA* 1.3 58.7 + - - +
305E ASP* 3.4 7.8 + - - +
306E ARG* 2.9 54.1 + - + +
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Residues in contact with ALA 303 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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279E PHE* 4.7 5.1 - - + -
283E GLU* 4.1 27.1 - - + +
299E GLU 2.9 18.9 + - - +
300E LEU* 3.7 8.5 - - + +
302E ALA* 1.3 74.7 - - - +
304E ILE* 1.3 61.1 + - + +
306E ARG* 3.5 20.0 + - - +
307E TYR* 2.9 31.8 + - - +
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Residues in contact with ILE 304 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230E LEU* 3.8 30.1 - - + +
233E LEU* 4.6 12.1 - - + -
234E GLN* 3.4 33.9 - - + +
237E ILE* 3.8 19.1 - - + -
279E PHE* 5.6 5.4 - - + -
280E LEU* 3.7 31.2 - - + -
283E GLU* 6.5 0.9 - - + -
300E LEU* 2.9 21.2 + - + +
301E ARG* 3.8 4.3 - - - +
303E ALA* 1.3 75.1 - - + +
305E ASP* 1.3 57.3 + - - +
307E TYR* 3.4 6.1 + - + +
308E VAL* 2.9 30.4 + - + +
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Residues in contact with ASP 305 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231E ARG* 4.3 9.4 + - - -
234E GLN* 2.5 30.3 + - - +
301E ARG* 2.9 29.3 + - - +
302E ALA* 3.7 7.5 - - - +
304E ILE* 1.3 76.6 - - - +
306E ARG* 1.3 57.1 + - + +
308E VAL* 3.3 7.6 - - - +
309E GLN* 2.9 31.4 + - - +
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Residues in contact with ARG 306 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299E GLU 4.7 2.0 + - - -
302E ALA* 2.9 42.3 + - + +
303E ALA* 3.5 26.6 - - - +
305E ASP* 1.3 76.6 - - + +
307E TYR* 1.3 57.0 + - - +
309E GLN* 3.3 6.0 + - - +
310E GLU* 3.0 37.5 + - + +
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Residues in contact with TYR 307 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226E CYS* 5.3 2.7 - - - -
230E LEU* 3.7 25.4 - - + -
275E ASN* 4.5 5.4 + - - +
276E ALA* 4.3 21.1 + - + -
279E PHE* 3.5 51.7 - + + +
303E ALA 2.9 18.6 + - - +
304E ILE* 3.7 4.3 - - + +
306E ARG* 1.3 76.8 - - - +
308E VAL* 1.3 60.7 + - - +
310E GLU* 3.7 10.0 - - - +
311E LYS* 3.0 67.0 + - + +
441E TYR* 3.5 32.2 - + + +
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Residues in contact with VAL 308 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226E CYS* 5.8 2.5 - - - -
227E ILE* 4.0 21.3 - - + +
230E LEU* 3.7 19.3 - - + -
231E ARG* 3.8 29.2 - - - +
234E GLN* 5.1 0.2 - - - +
304E ILE 2.9 21.0 + - - +
305E ASP* 3.3 12.3 - - - +
307E TYR* 1.3 81.1 - - + +
309E GLN* 1.3 62.5 + - - +
311E LYS* 5.1 0.7 - - - -
312E ILE* 2.9 53.4 + - + +
313E VAL* 5.4 0.2 - - - +
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Residues in contact with GLN 309 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305E ASP 2.9 20.6 + - - +
306E ARG* 3.5 8.3 - - - +
307E TYR 3.2 0.2 - - - -
308E VAL* 1.3 77.1 - - - +
310E GLU* 1.3 64.8 + - - +
313E VAL* 3.0 56.7 + - - +
314E LEU* 4.3 10.0 - - + +
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Residues in contact with GLU 310 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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306E ARG* 3.0 23.9 + - - +
307E TYR* 3.7 11.8 - - - +
309E GLN* 1.3 76.5 - - - +
311E LYS* 1.3 81.8 + - + +
312E ILE 3.0 3.1 + - - -
314E LEU* 3.0 44.0 + - + +
315E ALA 3.1 9.5 + - - -
519E LYS* 5.8 1.6 + - - -
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Residues in contact with LYS 311 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279E PHE* 6.0 2.4 - - - -
307E TYR* 3.0 48.5 + - + +
308E VAL* 3.8 1.1 - - - -
310E GLU* 1.3 88.4 - - + +
312E ILE* 1.3 70.6 + - - +
315E ALA* 4.3 9.9 - - + -
439E GLU* 4.3 5.9 - - + +
440E THR* 5.3 1.4 - - - +
441E TYR* 3.5 48.8 - - + +
503E GLU* 5.1 10.8 - - - +
519E LYS* 3.6 40.6 + - - +
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Residues in contact with ILE 312 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223E ASN* 3.8 20.4 - - + +
226E CYS* 5.7 2.2 - - + -
227E ILE* 4.2 23.3 - - + -
308E VAL* 2.9 39.7 + - + +
310E GLU 3.0 0.8 + - - -
311E LYS* 1.3 87.5 - - - +
313E VAL* 1.3 73.9 + - + +
314E LEU 3.5 0.7 - - - -
315E ALA* 3.7 1.4 + - - +
316E ALA* 2.9 31.7 + - + +
344E ARG* 5.6 1.3 - - - +
439E GLU* 4.7 6.1 - - - +
441E TYR* 3.5 25.4 - - + +
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Residues in contact with VAL 313 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308E VAL 5.4 0.2 - - - +
309E GLN* 3.0 44.9 + - - +
312E ILE* 1.3 89.6 - - + +
314E LEU* 1.3 69.4 + - + +
316E ALA* 3.8 0.7 - - - +
317E GLN* 2.9 40.9 + - - +
344E ARG* 4.1 23.1 + - - +
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Residues in contact with LEU 314 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309E GLN* 3.9 16.8 - - + +
310E GLU* 3.0 25.7 + - + +
313E VAL* 1.3 95.6 - - + +
315E ALA* 1.3 58.7 + - - +
317E GLN* 3.4 17.7 + - + +
318E ALA* 2.9 30.5 + - - +
321E ARG* 5.4 0.2 + - - -
503E GLU* 5.2 0.4 - - - -
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Residues in contact with ALA 315 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310E GLU 3.1 11.7 + - - +
311E LYS* 4.3 9.4 - - - -
312E ILE 4.0 4.7 - - - +
313E VAL 3.3 0.2 - - - -
314E LEU* 1.3 77.7 - - - +
316E ALA* 1.3 55.3 + - - +
318E ALA* 3.8 0.7 - - - +
319E ILE* 2.9 37.6 + - - +
439E GLU* 3.8 22.0 - - + -
503E GLU* 3.5 35.9 - - - +
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Residues in contact with ALA 316 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312E ILE* 2.9 21.0 + - + +
313E VAL 3.8 0.7 - - - +
314E LEU 3.3 0.2 - - - -
315E ALA* 1.3 76.8 - - - +
317E GLN* 1.3 52.6 + - - +
319E ILE* 3.5 1.3 + - - +
320E SER* 2.5 39.4 + - - -
341E LEU* 3.8 25.2 - - + +
344E ARG* 3.5 30.3 - - - +
439E GLU* 5.0 3.7 + - - +
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Residues in contact with GLN 317 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313E VAL* 2.9 27.8 + - - +
314E LEU* 3.8 19.8 - - + +
316E ALA* 1.3 76.1 - - - +
318E ALA* 1.3 58.8 + - - +
320E SER* 3.4 5.9 + - - -
321E ARG* 2.9 41.4 + - + +
344E ARG* 3.5 24.9 - - - +
348E GLU* 4.7 8.0 - - - +
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Residues in contact with ALA 318 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314E LEU 2.9 18.9 + - - +
317E GLN* 1.3 76.6 - - - +
319E ILE* 1.3 58.5 + - - +
321E ARG* 3.3 27.4 + - - +
322E PHE* 2.9 39.2 + - + -
503E GLU* 3.7 31.9 - - + +
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Residues in contact with ILE 319 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315E ALA 2.9 22.1 + - - +
316E ALA 4.0 2.9 - - - +
318E ALA* 1.3 75.9 - - - +
320E SER* 1.3 57.1 + - - +
322E PHE* 3.3 1.9 + - - -
323E ALA* 2.9 27.7 + - - +
341E LEU* 3.9 29.8 - - + -
345E ILE* 3.7 22.9 - - + -
437E CYS* 4.2 2.9 - - + -
438E CYS 4.0 13.0 - - - +
439E GLU* 4.1 13.0 - - + -
501E ILE* 3.3 39.7 - - + +
502E THR* 3.6 17.9 - - - +
503E GLU* 3.7 2.9 - - - +
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Residues in contact with SER 320 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316E ALA 2.5 23.9 + - - -
317E GLN 3.8 2.7 - - - -
319E ILE* 1.3 77.9 - - - +
321E ARG* 1.3 56.4 + - - +
323E ALA* 3.7 1.3 - - - +
324E TYR* 2.9 29.3 + - - +
341E LEU* 4.8 1.0 - - - +
344E ARG* 4.3 8.0 - - - +
345E ILE* 3.7 32.5 - - - +
348E GLU* 3.3 35.7 + - - +
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Residues in contact with ARG 321 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314E LEU 5.4 0.2 + - - -
317E GLN* 2.9 25.3 + - + +
318E ALA* 3.6 28.1 - - - +
320E SER* 1.3 78.2 - - - +
322E PHE* 1.3 78.6 + - + +
324E TYR* 3.4 16.5 + - - +
325E GLN* 3.6 14.9 + - - +
348E GLU* 5.5 3.8 - - - +
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Residues in contact with PHE 322 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318E ALA* 2.9 26.2 + - + +
319E ILE 3.3 0.2 + - - -
321E ARG* 1.3 96.8 - - + +
323E ALA* 1.3 58.5 + - - +
325E GLN* 3.4 28.0 - - - +
326E LYS* 4.0 3.6 + - - +
501E ILE* 3.9 17.7 - - + +
502E THR 3.3 17.7 - - - -
503E GLU 3.2 26.2 - - - -
504E LEU 4.5 2.9 - - - -
505E GLY* 3.5 23.8 - - - -
506E MET* 3.4 29.6 - - + +
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Residues in contact with ALA 323 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319E ILE 2.9 17.5 + - - +
320E SER 4.0 2.0 - - - +
322E PHE* 1.3 75.4 - - - +
324E TYR* 1.3 63.7 + - - +
325E GLN 3.3 0.7 - - - -
326E LYS* 3.3 7.8 + - + +
327E ILE* 3.2 33.2 + - + +
345E ILE* 3.9 30.7 - - + -
349E ALA* 6.1 0.2 - - - -
402E LEU* 5.8 2.5 - - + -
435E LEU* 6.2 1.1 - - + -
501E ILE* 4.3 18.8 - - + +
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Residues in contact with TYR 324 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320E SER 2.9 17.7 + - - +
321E ARG* 3.4 11.2 + - - +
322E PHE 3.4 0.4 - - - -
323E ALA* 1.3 78.6 - - - +
325E GLN* 1.3 62.3 + - + +
326E LYS 3.2 1.1 + - - -
327E ILE* 3.5 11.2 - - - +
348E GLU* 5.4 1.6 - - + -
349E ALA* 4.4 15.0 - - - -
352E GLU* 3.3 51.6 + - + -
353E GLY* 4.7 2.3 + - - -
354E ARG* 3.5 57.0 + - + +
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Residues in contact with GLN 325 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321E ARG 3.6 9.6 + - - +
322E PHE* 3.4 36.2 - - - +
324E TYR* 1.3 80.9 - - + +
326E LYS* 1.3 59.8 + - - +
327E ILE 4.9 0.9 - - - -
354E ARG* 4.6 8.1 + - - +
506E MET* 3.4 24.0 - - + +
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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