Contacts of the helix formed by residues 242 - 271 (chain S) in PDB entry 4BOG
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 LYS 242 (chain S).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235S LEU* 3.2 36.6 - - + +
239S SER* 2.7 42.1 + - - +
240S GLY 2.5 7.0 + - - -
241S GLU* 1.4 77.9 - - - +
243S MET* 1.3 54.2 + - - +
244S THR* 3.2 4.0 - - - -
245S LEU* 2.8 53.8 - - + +
246S SER* 2.8 15.1 + - - -
251T CYS* 4.9 8.1 - - - -
252T THR* 5.8 0.7 - - + -
304T LEU* 3.0 33.7 - - + +
307T SER 3.0 14.3 + - - +
308T LEU* 3.5 6.5 - - - +
314T HIS* 4.6 7.2 - - + -
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Residues in contact with MET 243 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240S GLY* 2.4 26.8 + - - +
241S GLU* 2.8 40.4 - - - +
242S LYS* 1.3 75.9 - - - +
244S THR* 1.3 75.0 + - + +
246S SER* 2.7 28.9 - - - -
247S ILE 2.9 6.6 + - - -
299S HIS* 4.4 19.1 - - + +
300S HIS* 3.6 30.4 - - + +
305S THR 5.1 4.5 - - - +
306S HIS* 4.0 34.3 - - + +
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Residues in contact with THR 244 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256R LYS* 5.7 1.1 - - - -
259R THR* 2.2 46.8 + - - -
241S GLU 5.1 1.3 - - - +
242S LYS* 4.3 7.0 - - - -
243S MET* 1.3 88.6 - - + +
245S LEU* 1.3 75.1 + - + +
246S SER 3.0 1.3 - - - -
247S ILE* 2.7 25.9 + - - +
248S SER* 2.8 12.8 + - - -
300S HIS* 5.0 1.8 - - - -
252T THR* 5.8 6.1 - - + +
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Residues in contact with LEU 245 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235S LEU* 5.1 2.7 - - + -
242S LYS* 2.8 54.3 - - + +
244S THR* 1.3 85.1 - - + +
246S SER* 1.3 60.9 + - - +
248S SER* 2.6 29.2 + - - -
249S VAL* 3.0 15.2 - - + +
251T CYS* 4.5 1.3 - - - +
252T THR* 4.0 23.8 - - - +
255T ILE* 2.9 58.6 - - + -
304T LEU* 4.5 7.6 - - + -
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Residues in contact with SER 246 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232S VAL* 4.6 10.0 + - - +
235S LEU* 5.4 10.8 - - - -
242S LYS 2.8 10.0 + - - -
243S MET* 2.7 21.8 - - - -
245S LEU* 1.3 78.4 - - - +
247S ILE* 1.3 60.1 + - - -
249S VAL* 3.0 18.0 + - - +
250S LEU* 3.0 35.0 + - - +
296S ILE* 3.5 12.6 - - - +
299S HIS* 3.9 13.8 + - - -
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Residues in contact with ILE 247 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256R LYS* 5.2 5.4 - - - -
259R THR* 2.8 37.5 - - + +
262R CYS* 3.1 24.9 - - - -
263R VAL* 3.9 17.0 - - + -
243S MET 2.9 6.2 + - - +
244S THR 2.7 15.3 + - - +
246S SER* 1.3 70.2 - - - +
248S SER* 1.3 64.5 + - - +
250S LEU* 2.8 17.8 + - + +
251S LEU* 3.0 15.1 + - + +
296S ILE* 4.4 18.6 - - + +
300S HIS* 3.9 23.5 + - + +
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Residues in contact with SER 248 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259R THR* 5.4 0.7 - - - -
262R CYS* 4.6 11.0 - - - -
244S THR* 2.8 13.1 + - - -
245S LEU* 2.6 21.3 + - - -
247S ILE* 1.3 79.3 - - - +
249S VAL* 1.3 64.5 + - - +
251S LEU* 3.4 6.1 + - - +
252S SER 2.9 15.6 + - - -
255T ILE* 3.8 9.5 - - - +
256T SER* 5.5 2.0 + - - -
259T LEU* 2.8 28.3 - - - +
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Residues in contact with VAL 249 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228S LEU* 3.2 41.3 - - + +
232S VAL* 6.2 3.1 - - + -
235S LEU* 6.1 1.6 - - + -
245S LEU* 3.0 34.3 - - + +
246S SER* 3.0 8.6 + - - +
248S SER* 1.3 80.9 - - - +
250S LEU* 1.3 59.0 + - + +
252S SER* 3.1 4.9 + - - +
253S LEU* 2.5 37.6 + - + +
255T ILE* 3.8 8.1 - - + -
258T LEU* 4.3 2.5 - - + -
259T LEU* 3.2 16.6 - - + -
304T LEU* 5.9 2.7 - - + -
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Residues in contact with LEU 250 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232S VAL* 4.3 14.1 - - + -
246S SER* 3.0 38.3 + - - +
247S ILE* 2.8 11.4 + - + +
249S VAL* 1.3 77.0 - - + +
251S LEU* 1.3 54.2 + - + +
252S SER 3.0 1.1 - - - -
253S LEU* 2.6 56.5 - - + +
254S THR* 2.6 22.9 + - - +
292S THR* 2.5 44.9 - - + +
296S ILE* 3.0 30.1 - - + -
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Residues in contact with LEU 251 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242R LEU* 5.8 3.4 - - + -
262R CYS* 2.8 56.1 - - + +
263R VAL* 3.0 33.4 - - + +
266R ALA* 3.1 24.2 - - + -
267R GLN 4.9 0.2 - - - +
270R PHE* 3.5 6.4 - - + -
247S ILE* 3.0 18.9 + - + +
248S SER* 3.6 7.0 - - - +
250S LEU* 1.3 74.8 - - + +
252S SER* 1.4 63.5 + - - +
254S THR* 2.8 22.6 - - + +
255S VAL* 3.0 13.4 + - - +
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Residues in contact with SER 252 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228S LEU* 4.8 3.3 - - - +
248S SER 2.9 5.8 + - - -
249S VAL* 3.1 11.8 + - - +
250S LEU 3.0 0.4 - - - -
251S LEU* 1.4 70.5 - - - +
253S LEU* 1.3 65.7 + - - -
255S VAL* 2.8 13.7 - - - +
256S PHE* 2.8 48.5 + - - -
259T LEU* 2.8 50.9 - - - +
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Residues in contact with LEU 253 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225S PHE* 5.6 9.0 - - + +
228S LEU* 5.9 7.2 - - + -
229S THR* 4.6 21.8 - - + -
232S VAL* 4.9 4.7 - - + -
249S VAL* 2.5 13.9 + - + +
250S LEU* 2.6 57.7 - - + +
252S SER* 1.3 78.7 + - - +
254S THR* 1.3 95.0 + - - +
256S PHE* 2.9 10.1 + - - +
257S LEU* 2.8 37.7 + - + +
288S SER* 4.8 6.1 - - - +
289S ILE* 5.7 5.6 - - + -
292S THR* 5.2 2.7 - - + -
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Residues in contact with THR 254 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270R PHE* 3.3 23.1 - - + -
250S LEU 2.6 26.0 + - - +
251S LEU* 2.8 16.6 - - + +
253S LEU* 1.3 94.3 - - - +
255S VAL* 1.3 62.3 + - - +
257S LEU* 3.5 5.6 - - - +
258S LEU* 2.6 67.1 + - - +
289S ILE* 4.7 8.9 - - - +
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Residues in contact with VAL 255 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269R VAL* 4.7 9.4 - - + -
270R PHE* 3.3 33.2 - - + -
251S LEU 3.0 12.2 + - - +
252S SER* 2.8 23.3 - - - +
254S THR* 1.3 81.5 - - - +
256S PHE* 1.3 64.5 + - + +
258S LEU* 3.7 5.8 - - + -
259S VAL* 2.3 54.1 + - + +
263T ILE* 5.2 9.6 - - + -
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Residues in contact with PHE 256 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252S SER* 2.8 46.7 + - - +
253S LEU* 2.9 10.7 + - - +
255S VAL* 1.3 83.7 - - + +
257S LEU* 1.3 59.1 + - - +
259S VAL* 3.2 9.7 - - - +
260S ILE* 2.7 30.6 + - + +
259T LEU* 3.6 8.5 - - - -
262T THR* 3.2 38.6 - - + -
263T ILE* 3.1 45.3 - - + -
266T PHE* 5.2 16.8 - + + -
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Residues in contact with LEU 257 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225S PHE* 4.5 16.2 - - + -
253S LEU* 2.8 32.6 + - + +
254S THR* 3.5 8.1 - - - +
256S PHE* 1.3 70.2 - - + +
258S LEU* 1.3 78.8 + - + +
259S VAL 2.8 1.6 - - - -
260S ILE* 2.6 39.4 + - + +
261S VAL* 2.7 24.4 + - + +
285S VAL* 4.2 37.2 - - + +
288S SER* 5.4 6.5 - - - -
289S ILE* 4.8 15.7 - - + -
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Residues in contact with LEU 258 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235R PRO* 5.8 8.7 - - + -
239R ILE* 5.6 7.9 - - + -
270R PHE* 4.6 24.2 - - + -
277R ARG* 6.0 5.8 - - - +
254S THR* 2.6 59.6 + - - +
255S VAL* 3.7 6.3 - - + +
257S LEU* 1.3 87.5 - - + +
259S VAL* 1.3 62.9 + - + +
261S VAL* 3.4 8.7 + - - +
262S GLU* 3.2 23.0 + - - +
289S ILE* 4.6 9.9 - - + -
----------------------------------------------------------
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Residues in contact with VAL 259 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277R ARG* 5.3 0.4 - - - +
255S VAL* 2.3 48.9 + - + +
256S PHE* 3.2 10.1 - - - +
258S LEU* 1.3 77.9 - - + +
260S ILE* 1.3 62.3 + - - +
262S GLU* 2.5 55.3 + - - +
263S LEU* 3.4 10.8 + - + +
266T PHE* 4.5 16.8 - - + -
270T GLN* 4.6 10.8 - - - +
----------------------------------------------------------
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Residues in contact with ILE 260 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218S VAL* 5.9 8.3 - - + +
221S PRO* 3.8 35.2 - - + -
225S PHE* 4.5 12.3 - - + -
256S PHE* 2.7 24.7 + - + +
257S LEU* 2.6 36.5 + - + +
259S VAL* 1.3 72.9 - - - +
261S VAL* 1.3 59.6 + - + +
263S LEU* 3.1 26.2 + - + +
264S ILE* 2.9 33.5 + - + +
281S THR* 6.5 0.4 - - + -
266T PHE* 5.6 4.7 - - + -
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Residues in contact with VAL 261 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231R ASN* 4.4 17.0 - - + +
257S LEU* 2.7 22.0 + - + +
258S LEU* 3.7 10.8 - - - +
260S ILE* 1.3 75.0 - - + +
262S GLU* 1.3 50.8 + - + +
264S ILE* 2.9 20.2 - - + -
265S PRO* 2.1 53.8 - - + +
278S MET* 5.0 13.7 - - + -
281S THR* 6.3 0.7 - - - -
282S MET* 5.5 7.2 - - + -
285S VAL* 5.6 8.3 - - + -
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Residues in contact with GLU 262 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277R ARG* 2.5 39.6 + - - +
258S LEU* 3.2 10.8 + - - +
259S VAL* 2.5 53.3 + - - +
260S ILE 3.1 0.4 - - - -
261S VAL* 1.3 77.9 - - - +
263S LEU* 1.3 63.2 + - + +
265S PRO* 3.5 6.2 - - - +
266S SER* 3.1 21.5 + - - -
----------------------------------------------------------
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Residues in contact with LEU 263 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214S PHE* 5.6 3.6 - - + -
217S ASN* 5.8 7.6 - - - +
259S VAL 3.6 13.7 - - - +
260S ILE* 3.3 19.7 - - + +
262S GLU* 1.3 76.9 - - + +
264S ILE* 1.3 52.0 + - + +
266S SER* 3.1 7.6 + - - -
267S THR* 2.5 42.2 + - + +
266T PHE* 2.9 48.9 - - + -
270T GLN* 4.3 12.8 - - + +
----------------------------------------------------------
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Residues in contact with ILE 264 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214S PHE* 4.3 15.7 - - + -
218S VAL* 6.2 3.1 - - + -
260S ILE* 2.9 22.4 - - + +
261S VAL* 2.9 41.3 - - + +
263S LEU* 1.3 74.5 - - + +
265S PRO* 1.3 69.1 - - + +
267S THR* 2.7 11.6 - - - +
268S SER* 2.5 45.8 + - - -
273S LEU* 6.3 1.1 - - + -
278S MET* 3.6 37.5 - - + -
281S THR* 5.5 7.4 - - + -
----------------------------------------------------------
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Residues in contact with PRO 265 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231R ASN* 5.9 1.3 - - - +
261S VAL* 2.1 43.3 - - + +
262S GLU* 3.7 7.2 - - - +
264S ILE* 1.3 86.9 - - + +
266S SER* 1.3 61.6 + - - +
268S SER* 4.5 4.9 - - - -
269S SER* 3.0 31.0 + - - +
----------------------------------------------------------
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Residues in contact with SER 266 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262S GLU 3.1 12.4 + - - -
263S LEU* 3.1 11.0 + - - -
265S PRO* 1.3 77.2 - - - +
267S THR* 1.3 53.4 + - - +
269S SER* 3.5 1.8 - - - -
270S ALA* 2.7 40.6 + - - +
----------------------------------------------------------
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Residues in contact with THR 267 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214S PHE* 3.1 39.0 - - + -
263S LEU* 2.5 32.8 + - + +
264S ILE* 2.7 26.0 - - - +
266S SER* 1.3 73.1 + - - +
268S SER* 1.3 50.9 + - - +
270S ALA* 2.8 7.8 + - - -
271S VAL* 2.4 52.8 + - - +
----------------------------------------------------------
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Residues in contact with SER 268 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46S VAL* 4.5 0.2 - - - +
214S PHE* 5.7 2.0 - - - -
264S ILE* 2.5 34.0 + - - -
265S PRO* 4.3 3.6 - - - -
267S THR* 1.3 74.4 - - - +
269S SER* 1.3 60.8 + - - +
271S VAL* 2.4 32.2 - - - +
272S PRO* 3.4 6.1 - - - +
273S LEU* 2.8 34.5 - - - +
278S MET* 6.2 0.7 - - - -
----------------------------------------------------------
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Residues in contact with SER 269 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46S VAL* 3.1 16.9 - - - +
265S PRO* 3.0 22.6 + - - +
266S SER 3.5 1.6 - - - -
268S SER* 1.3 77.5 + - - +
270S ALA* 1.3 56.5 + - - +
271S VAL 3.4 0.2 - - - -
----------------------------------------------------------
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Residues in contact with ALA 270 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44S ASP* 4.6 0.5 - - - +
46S VAL* 2.7 26.0 - - - +
266S SER* 2.7 26.0 + - - +
267S THR* 2.8 9.8 + - - +
269S SER* 1.3 75.1 - - - +
271S VAL* 1.3 56.4 + - + +
----------------------------------------------------------
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Residues in contact with VAL 271 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45S GLU* 4.1 16.6 - - + +
46S VAL* 3.2 3.8 - - + -
135S PHE* 4.8 13.2 - - + -
214S PHE* 6.0 4.3 - - + -
267S THR* 2.4 36.8 + - - +
268S SER* 2.4 24.7 + - - +
269S SER 3.4 0.6 - - - -
270S ALA* 1.3 74.3 - - + +
272S PRO* 1.3 71.9 - - + +
273S LEU* 4.0 2.7 + - + +
----------------------------------------------------------
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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