Contacts of the helix formed by residues 267 - 292 (chain G) in PDB entry 1K7L
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 GLU 267 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265G ASN* 3.8 3.9 + - - +
266G LYS* 1.3 77.5 - - + +
268G ALA* 1.3 66.0 + - - +
269G GLU* 3.9 14.9 - - + +
270G VAL* 3.1 34.9 + - + +
271G ARG* 3.3 7.2 + - - +
348G ARG* 3.9 17.3 + - - -
451G GLU* 3.4 22.8 - - - +
453G ASP* 2.8 26.7 - - - +
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Residues in contact with ALA 268 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244G MET* 3.6 36.1 - - + -
247G LEU* 3.7 21.1 - - + -
266G LYS 3.3 1.2 + - - -
267G GLU* 1.3 70.2 - - - +
269G GLU* 1.3 63.3 + - - +
271G ARG* 2.7 38.8 + - - +
272G ILE* 2.8 16.9 + - + +
347G LEU* 4.4 4.7 - - + -
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Residues in contact with GLU 269 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244G MET* 4.8 3.5 - - - +
267G GLU* 3.9 26.4 - - + +
268G ALA* 1.3 82.5 + - - +
270G VAL* 1.3 56.1 + - - +
272G ILE* 3.7 4.9 + - - -
273G PHE* 3.0 26.9 + - - +
347G LEU* 3.4 24.3 - - - +
348G ARG* 2.7 45.9 + - + +
351G PHE* 3.5 36.3 - - + -
601G 544 3.8 9.0 - - - -
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Residues in contact with VAL 270 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266G LYS* 4.9 17.0 - - + -
267G GLU* 3.1 34.2 + - + +
268G ALA 3.1 1.2 - - - -
269G GLU* 1.3 75.0 - - - +
271G ARG* 1.3 66.9 + - + +
273G PHE* 3.5 8.2 + - - +
274G HIS* 3.1 21.5 + - + +
351G PHE* 5.0 2.0 - - + -
451G GLU* 3.8 13.5 - - + +
453G ASP* 3.8 26.2 - - + +
454G ALA* 4.1 25.4 - - + +
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Residues in contact with ARG 271 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244G MET* 5.7 2.2 - - - -
247G LEU* 4.2 6.3 - - + +
248G CYS* 3.5 29.5 - - - +
251G GLU* 2.6 43.2 + - - +
258G LEU* 4.5 7.6 + - + +
259G VAL* 5.9 0.6 - - - +
263G ILE* 3.3 35.1 + - + +
264G GLN 3.6 18.8 + - - -
265G ASN* 4.5 3.2 - - - +
266G LYS* 2.8 34.1 + - + +
267G GLU* 3.3 2.6 + - - +
268G ALA* 2.7 29.6 + - - +
270G VAL* 1.3 71.9 - - + +
272G ILE* 1.3 64.9 + - + +
274G HIS* 3.1 9.2 + - - +
275G CYS* 3.0 26.7 + - - -
601G 544 5.5 1.1 - - - -
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Residues in contact with ILE 272 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247G LEU* 4.4 14.1 - - + -
268G ALA 2.8 16.3 + - - +
269G GLU 4.0 3.6 - - - +
271G ARG* 1.3 73.3 - - - +
273G PHE* 1.3 66.6 + - - +
275G CYS* 3.1 3.4 + - - +
276G CYS* 3.0 26.2 + - - -
339G ILE* 4.6 5.8 - - + -
343G PHE* 4.1 22.9 - - + -
344G LEU* 4.8 4.0 - - + -
347G LEU* 3.9 29.6 - - + -
601G 544 3.7 65.3 - - + +
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Residues in contact with PHE 273 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269G GLU 3.0 20.0 + - - +
270G VAL* 3.6 9.6 - - - +
272G ILE* 1.3 76.4 - - - +
274G HIS* 1.3 65.5 + - + +
276G CYS 3.6 0.3 + - - -
277G GLN* 3.3 16.8 + - - +
351G PHE* 4.4 4.9 - + + -
354G ILE* 5.7 1.6 - - + -
444G VAL* 4.8 9.4 - - + -
447G ILE* 4.0 28.7 - - + -
448G LYS* 6.4 1.6 - - - -
454G ALA* 3.6 27.6 - - + -
455G ALA* 3.7 19.1 - - - -
456G LEU* 3.6 28.5 - - + -
601G 544 3.3 55.0 - + + +
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Residues in contact with HIS 274 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257G LYS* 6.6 0.4 - - - -
258G LEU* 4.4 29.5 - - + +
270G VAL* 3.1 14.0 + - + +
271G ARG* 3.4 10.3 - - - +
272G ILE 3.1 0.2 - - - -
273G PHE* 1.3 82.7 - - + +
275G CYS* 1.3 59.2 + - - +
277G GLN* 3.3 16.5 - - - +
278G CYS* 3.0 51.4 + - - -
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Residues in contact with CYS 275 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251G GLU* 5.2 1.8 - - - -
254G LEU* 5.2 6.5 - - - -
258G LEU* 4.3 20.9 - - - -
271G ARG 3.0 16.3 + - - +
272G ILE 3.1 8.0 + - - +
274G HIS* 1.3 78.9 - - - +
276G CYS* 1.3 63.8 + - - +
278G CYS* 3.4 9.0 + - - +
279G THR* 3.2 22.2 + - - -
601G 544 3.6 50.2 + - + -
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Residues in contact with CYS 276 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272G ILE* 3.0 19.4 + - - +
274G HIS 3.3 0.2 - - - -
275G CYS* 1.3 76.5 - - - +
277G GLN* 1.3 52.4 + - - +
279G THR* 3.0 8.9 - - - -
280G SER* 2.8 29.4 + - - -
601G 544 3.2 110.2 - - + +
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Residues in contact with GLN 277 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273G PHE* 3.3 12.6 + - - +
274G HIS* 3.3 21.3 - - - +
276G CYS* 1.3 76.7 - - - +
278G CYS* 1.3 66.1 + - - +
279G THR 3.0 1.1 - - - -
280G SER* 3.7 2.1 - - - +
281G VAL* 2.9 32.1 + - - +
455G ALA 3.5 6.8 + - - +
456G LEU* 2.7 23.7 - - - +
457G HIS* 2.4 51.0 + - - +
460G LEU* 3.0 22.0 - - + -
601G 544 3.9 13.9 - - + +
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Residues in contact with CYS 278 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274G HIS* 3.0 47.3 + - - -
275G CYS* 3.7 10.3 - - - +
276G CYS 3.3 0.2 - - - -
277G GLN* 1.3 74.4 + - - +
279G THR* 1.3 63.0 + - - +
281G VAL* 3.5 5.5 + - - +
282G GLU* 3.2 31.7 + - + +
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Residues in contact with THR 279 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275G CYS 3.2 11.5 + - - -
276G CYS 3.0 12.7 + - - -
277G GLN 3.0 0.4 - - - -
278G CYS* 1.3 79.5 - - - +
280G SER* 1.3 52.3 + - - +
282G GLU* 3.9 4.9 - - - +
283G THR* 2.7 44.9 + - - +
317G ILE* 6.1 2.0 - - + -
321G LEU* 5.1 9.4 - - + -
601G 544 3.7 35.8 + - + +
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Residues in contact with SER 280 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276G CYS 2.8 10.9 + - - -
277G GLN 3.1 6.3 + - - -
279G THR* 1.3 71.6 - - - +
281G VAL* 1.3 61.1 + - - +
283G THR* 3.3 0.9 + - - -
284G VAL* 2.8 36.9 + - - +
314G TYR* 4.1 4.4 + - - -
317G ILE* 4.3 14.1 - - - +
460G LEU* 3.7 15.5 - - - -
601G 544 2.9 50.2 + - - +
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Residues in contact with VAL 281 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277G GLN* 2.9 25.7 + - - +
278G CYS* 4.0 5.8 - - - +
280G SER* 1.3 72.8 - - - +
282G GLU* 1.3 67.9 + - + +
284G VAL* 3.2 6.2 + - - +
285G THR* 2.8 35.8 + - + +
457G HIS* 3.6 47.3 - - + +
459G LEU* 4.0 19.5 - - + +
460G LEU* 4.2 10.3 - - + -
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Residues in contact with GLU 282 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278G CYS* 3.2 18.9 + - + +
279G THR* 4.0 4.7 - - - +
281G VAL* 1.3 84.3 - - + +
283G THR* 1.3 56.6 + - - +
285G THR* 2.6 30.9 + - - +
286G GLU* 2.9 24.5 + - + +
334G TYR* 5.0 11.9 - - + +
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Residues in contact with THR 283 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218G PHE* 4.6 5.2 - - + -
279G THR* 2.7 34.2 + - - +
280G SER 3.8 3.1 - - - -
282G GLU* 1.3 74.6 - - - +
284G VAL* 1.3 61.6 + - - +
286G GLU* 3.3 13.3 + - - +
287G LEU* 2.9 29.6 + - + +
317G ILE* 3.5 30.5 - - + -
320G MET* 4.1 21.5 - - + -
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Residues in contact with VAL 284 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280G SER 2.8 29.5 + - - +
281G VAL 3.6 5.4 - - - +
283G THR* 1.3 75.7 - - - +
285G THR* 1.3 57.5 + - - +
287G LEU* 3.5 2.1 + - - +
288G THR* 2.9 38.0 + - - +
309G LEU* 5.4 2.5 - - + +
313G VAL* 3.2 34.3 - - + -
314G TYR* 5.6 0.4 - - + -
317G ILE* 4.1 6.7 - - + -
459G LEU* 4.1 19.3 - - + -
460G LEU* 4.4 9.6 - - + -
463G ILE* 4.1 22.9 - - + -
690H LEU* 4.7 8.7 - - + -
693H LEU* 4.9 1.3 - - + -
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Residues in contact with THR 285 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281G VAL* 2.8 35.0 + - + +
282G GLU* 2.6 29.0 + - - +
284G VAL* 1.3 76.9 - - - +
286G GLU* 1.3 66.8 + - - +
288G THR* 3.3 8.5 + - - -
289G GLU* 3.1 24.6 + - - +
459G LEU* 4.9 2.9 - - + -
693H LEU* 4.5 26.5 - - + -
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Residues in contact with GLU 286 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217G ASN* 3.1 28.8 - - - +
218G PHE* 3.6 23.9 - - + -
219G ASN* 3.4 33.0 + - - +
282G GLU* 2.9 26.5 + - + +
283G THR* 3.3 16.7 + - - +
285G THR* 1.3 85.2 + - - +
287G LEU* 1.3 58.9 + - - +
289G GLU* 3.4 4.4 + - - +
290G PHE* 2.9 27.4 + - - +
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Residues in contact with LEU 287 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218G PHE* 3.6 16.2 - - + -
283G THR* 2.9 34.5 + - + +
284G VAL* 3.7 4.5 - - - +
286G GLU* 1.3 74.5 - - - +
288G THR* 1.3 55.6 + - - +
290G PHE* 2.9 4.8 + - + +
291G ALA* 2.7 37.2 + - - +
309G LEU* 4.5 8.7 - - + -
313G VAL* 3.2 45.1 - - + +
316G ALA* 3.6 15.9 - - + -
320G MET* 3.6 21.5 - - + -
379G VAL* 3.9 12.6 - - + -
383G ILE* 4.0 11.5 - - + +
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Residues in contact with THR 288 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284G VAL* 2.9 20.3 + - - +
285G THR* 3.3 11.0 + - - -
287G LEU* 1.3 75.6 - - - +
289G GLU* 1.3 61.4 + - - +
291G ALA* 3.3 3.5 + - - +
292G LYS* 3.1 32.4 + - + +
309G LEU* 3.6 22.9 - - + +
690H LEU* 4.4 5.4 - - + +
693H LEU* 3.9 39.1 - - + +
694H LEU* 3.7 27.0 - - + +
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Residues in contact with GLU 289 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217G ASN* 3.2 28.7 + - + +
285G THR 3.1 16.4 + - - +
286G GLU* 3.7 5.4 - - - +
288G THR* 1.3 76.8 - - - +
290G PHE* 1.3 64.3 + - - +
292G LYS* 3.0 43.5 + - - +
293G ALA* 3.6 8.8 + - - +
693H LEU* 4.2 4.0 - - - +
696H GLU 3.7 18.4 - - - +
697H GLY* 4.2 10.3 - - - -
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Residues in contact with PHE 290 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210G ILE* 3.3 33.0 - - + -
213G ALA* 3.3 24.2 - - + -
214G TYR* 3.2 33.4 - + + -
217G ASN* 3.1 12.8 + - + +
218G PHE* 3.7 21.3 - + + -
286G GLU 2.9 14.2 + - - +
287G LEU* 2.9 8.3 + - + +
289G GLU* 1.3 76.2 - - - +
291G ALA* 1.3 62.9 + - - +
293G ALA* 3.4 9.0 + - - +
294G ILE* 3.3 26.9 + - + +
376G SER 3.8 14.1 - - - -
379G VAL* 4.3 9.9 - - + -
380G ALA* 4.3 9.6 - - + -
383G ILE* 4.5 14.1 - - + -
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Residues in contact with ALA 291 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287G LEU 2.7 18.6 + - - +
288G THR* 3.5 6.5 - - - +
289G GLU 3.2 0.2 - - - -
290G PHE* 1.3 71.7 - - - +
292G LYS* 1.3 55.4 - - - +
293G ALA 3.0 5.4 - - - -
294G ILE* 3.0 28.7 + - + +
297G PHE* 3.1 53.2 - - + +
309G LEU* 4.2 11.2 - - + -
383G ILE* 4.6 6.7 - - + -
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Residues in contact with LYS 292 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288G THR* 3.1 16.6 + - + +
289G GLU* 3.0 41.3 - - - +
290G PHE 3.3 0.4 - - - -
291G ALA* 1.3 75.7 - - - +
293G ALA* 1.3 57.6 + - - +
294G ILE 3.3 3.4 + - - +
297G PHE* 4.3 8.1 - - + -
298G ALA* 3.9 25.2 - - + +
305G GLN* 6.1 0.4 - - - +
693H LEU 4.4 5.6 - - - +
694H LEU* 2.8 35.6 + - + +
695H GLN 3.2 16.2 + - - -
696H GLU* 3.4 12.9 - - - +
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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