Contacts of the helix formed by residues 221 - 250 (chain A) in PDB entry 4KQS
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 GLY 221 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A ILE* 3.6 4.0 - - - +
220A ASP* 1.3 81.5 + - - +
222A GLU* 1.4 64.9 + - - -
223A LYS* 3.4 3.6 - - - -
224A GLU* 3.5 13.4 + - - +
225A HIS* 3.1 27.1 + - - -
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Residues in contact with GLU 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A ASP 3.6 3.7 + - - -
221A GLY* 1.4 70.8 - - - -
223A LYS* 1.4 53.0 + - - +
225A HIS* 3.4 6.6 + - - +
226A ALA* 2.9 35.2 + - - +
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Residues in contact with LYS 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221A GLY 3.4 0.6 - - - -
222A GLU* 1.4 74.8 - - - +
224A GLU* 1.4 59.4 + - - +
226A ALA* 3.3 7.1 + - - +
227A ASN* 3.0 40.0 + - - +
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Residues in contact with GLU 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A MET* 3.6 7.2 - - + +
219A ILE* 3.3 35.6 - - + +
221A GLY* 3.5 15.7 + - - +
222A GLU 3.4 0.2 - - - -
223A LYS* 1.4 77.0 - - + +
225A HIS* 1.3 56.8 + - - +
227A ASN* 3.5 9.0 + - - +
228A ALA* 3.1 28.9 + - - +
335A PRO* 3.6 37.5 - - + +
336A LEU* 3.8 13.2 - - + +
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Residues in contact with HIS 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A TYR* 2.7 35.1 + - - +
211A ALA* 3.6 20.3 - - + +
214A MET* 3.8 21.0 - - + +
215A TYR* 3.5 34.9 + + - +
219A ILE* 2.7 29.4 + - + -
220A ASP 3.8 8.7 - - - -
221A GLY 3.1 28.4 + - - +
222A GLU* 3.8 6.3 - - - +
224A GLU* 1.3 74.6 - - - +
226A ALA* 1.4 55.9 + - - +
228A ALA* 3.5 1.5 + - - +
229A LYS* 2.9 31.1 + - - +
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Residues in contact with ALA 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A GLU 2.9 18.5 + - - +
223A LYS* 3.3 8.5 + - - +
225A HIS* 1.4 73.4 - - - +
227A ASN* 1.4 60.9 + - - +
229A LYS* 3.4 12.2 + - - +
230A LYS* 3.1 42.2 + - - +
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Residues in contact with ASN 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A LYS* 3.0 27.0 + - - +
224A GLU* 3.9 8.6 - - - +
225A HIS 3.4 0.4 - - - -
226A ALA* 1.4 73.9 - - - +
228A ALA* 1.4 65.7 + - - +
230A LYS* 3.2 20.6 + - - +
231A ILE* 3.5 4.7 + - - +
332A TYR* 3.5 56.3 + - + +
334A ALA 4.4 12.7 + - - +
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Residues in contact with ALA 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A TYR* 4.8 3.1 - - + -
210A ILE* 4.7 0.2 - - + -
214A MET* 3.9 24.0 - - + -
224A GLU 3.1 18.1 + - - +
225A HIS* 3.7 4.7 - - - +
227A ASN* 1.4 74.1 - - - +
229A LYS* 1.3 62.8 + - - +
231A ILE* 3.2 5.0 + - - +
232A LEU* 3.0 37.8 + - + +
332A TYR 4.8 0.4 + - - -
336A LEU* 4.8 2.2 - - + +
341A PHE* 4.0 25.1 - - + -
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Residues in contact with LYS 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A GLN* 5.2 9.7 + - - +
166A GLN* 5.2 2.6 - - - +
203A PHE* 4.0 21.8 - - + -
207A TYR* 3.6 50.9 + - + -
225A HIS 2.9 20.4 + - - +
226A ALA* 3.4 10.3 - - - +
227A ASN 3.3 0.2 - - - -
228A ALA* 1.3 76.1 - - - +
230A LYS* 1.4 56.3 + - - +
232A LEU* 4.6 2.0 - - - +
233A LEU* 2.9 56.5 + - + +
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Residues in contact with LYS 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226A ALA* 3.1 30.3 + - - +
227A ASN* 3.2 10.7 + - - +
229A LYS* 1.4 74.9 - - - +
231A ILE* 1.3 63.8 + - - +
233A LEU* 4.9 1.8 - - - +
234A GLU* 3.6 22.9 + - - +
328A LEU* 3.9 6.6 - - + +
332A TYR* 3.7 50.7 - - + +
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Residues in contact with ILE 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227A ASN 3.5 3.8 + - - +
228A ALA 3.2 5.4 + - - +
230A LYS* 1.3 77.8 - - - +
232A LEU* 1.3 58.1 + - - +
234A GLU* 3.3 6.4 + - - +
235A MET* 3.0 40.1 + - + +
325A ILE* 4.5 6.1 - - + +
328A LEU* 3.6 29.6 - - + +
329A ILE* 3.8 23.3 - - + -
332A TYR* 3.8 13.5 - - + -
333A ALA 3.8 24.2 - - - +
341A PHE* 3.7 45.3 - - + -
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Residues in contact with LEU 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206A PHE* 3.3 44.7 - - + +
207A TYR* 3.9 16.4 - - + +
210A ILE* 3.6 32.8 - - + -
228A ALA* 3.0 26.9 + - + +
229A LYS 4.2 1.3 - - - +
231A ILE* 1.3 73.1 - - - +
233A LEU* 1.4 61.2 + - - +
235A MET* 3.2 10.7 + - - +
236A GLY 2.9 23.9 + - - -
341A PHE* 4.0 19.1 - - + -
344A LEU* 3.8 25.1 - - + -
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Residues in contact with LEU 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A LYS* 4.2 19.9 - - + +
202A ALA* 3.5 16.4 - - + +
203A PHE* 3.7 61.5 - - + +
207A TYR* 4.5 4.3 - - + -
229A LYS* 2.9 45.5 + - + +
230A LYS* 4.9 1.8 - - - +
232A LEU* 1.4 71.1 - - - +
234A GLU* 1.3 59.3 + - + +
236A GLY 3.4 0.5 + - - -
237A GLU* 3.0 26.3 + - - +
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Residues in contact with GLU 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A LYS 3.6 8.4 + - - +
231A ILE 3.3 9.6 + - - +
232A LEU 3.3 0.4 - - - -
233A LEU* 1.3 78.2 - - + +
235A MET* 1.4 62.5 + - - +
237A GLU* 3.3 25.1 + - - +
238A PHE* 3.2 16.8 + - - +
317A TYR* 5.4 0.3 + - - -
321A SER* 5.0 0.2 + - - -
324A HIS* 3.1 24.9 + - - -
325A ILE* 3.7 17.6 - - + +
328A LEU* 3.5 27.1 - - + -
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Residues in contact with MET 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A PHE* 3.7 16.2 - - + -
231A ILE* 3.0 25.1 + - + +
232A LEU* 3.4 19.7 - - - +
234A GLU* 1.4 76.1 - - - +
236A GLY* 1.3 55.7 + - - +
238A PHE* 3.3 5.7 + - - +
239A PHE* 3.0 27.4 + - - +
325A ILE* 3.7 31.0 - - + -
341A PHE* 4.4 11.9 - - - +
344A LEU* 3.5 37.7 - - + -
345A ALA* 3.7 23.1 - - - +
348A ILE* 3.8 16.4 - - + +
349A TYR* 5.0 1.1 - - + -
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Residues in contact with GLY 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A VAL 5.4 0.4 - - - -
201A THR* 3.9 5.2 - - - +
202A ALA* 3.8 17.3 - - - -
206A PHE* 3.5 24.6 - - - -
232A LEU 2.9 14.1 + - - -
233A LEU 3.4 2.7 + - - -
235A MET* 1.3 73.5 - - - +
237A GLU* 1.3 64.1 + - - +
239A PHE* 3.3 2.4 + - - +
240A GLN* 3.1 23.9 + - - +
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Residues in contact with GLU 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A GLU* 5.0 2.3 - - - +
193A TYR* 4.7 1.5 + - + -
194A LYS* 3.5 45.4 - - - +
197A VAL* 3.7 26.5 - - + +
198A LYS* 5.9 0.9 - - - +
202A ALA* 4.2 1.9 - - + +
233A LEU 3.0 13.7 + - - +
234A GLU* 3.3 27.9 + - - +
236A GLY* 1.3 73.7 - - - +
238A PHE* 1.4 63.0 + - - +
240A GLN* 3.3 4.0 + - - +
241A ILE* 3.1 38.9 + - + +
317A TYR* 4.0 13.3 + - - +
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Residues in contact with PHE 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A GLU 3.2 11.0 + - - +
235A MET 3.3 6.3 + - - +
237A GLU* 1.4 75.4 - - - +
239A PHE* 1.3 60.6 + - - +
241A ILE* 3.2 3.7 + - - +
242A GLN* 2.9 47.2 + - + +
314A PHE* 4.6 5.8 - + - -
317A TYR* 3.6 28.4 + + - -
318A GLU* 3.3 42.8 - - + -
321A SER* 3.5 11.7 - - - +
348A ILE* 3.6 30.7 - - + -
349A TYR* 3.2 50.9 - + - +
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Residues in contact with PHE 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A LYS* 4.6 11.2 - - - -
59A ASN* 5.1 3.6 - - - -
60A ARG* 4.0 6.7 - - - -
201A THR* 4.5 4.3 - - + -
206A PHE* 3.5 38.1 - + + -
235A MET 3.0 9.5 + - - +
236A GLY 3.6 4.9 - - - +
237A GLU 3.3 0.2 - - - -
238A PHE* 1.3 80.2 - - - +
240A GLN* 1.4 56.5 - - - +
242A GLN* 3.4 20.0 + - - +
243A ASP* 3.0 25.4 + - + +
348A ILE* 3.7 28.0 - - + -
351A ARG* 6.0 1.3 - - + -
353A LYS 5.5 2.2 - - - -
404A IPE 3.4 64.6 - - + -
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Residues in contact with GLN 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A TYR* 3.6 2.9 - - - +
197A VAL* 3.5 36.1 - - + -
200A LYS* 3.6 17.6 - - - +
201A THR* 2.7 27.8 + - + +
236A GLY 3.1 16.0 + - - +
237A GLU 3.8 4.0 - - - +
238A PHE 3.3 0.2 - - - -
239A PHE* 1.4 73.4 - - - +
241A ILE* 1.3 60.7 + - - +
243A ASP* 3.1 21.1 + - - -
244A ASP* 2.9 58.4 + - - +
404A IPE 3.1 16.8 - - - +
405A RIS 3.7 11.3 + - - -
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Residues in contact with ILE 241 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A GLU* 5.5 1.8 - - - +
193A TYR* 3.3 26.2 - - + +
237A GLU* 3.1 28.3 + - + +
238A PHE 3.4 7.2 - - - +
240A GLN* 1.3 74.4 - - - +
242A GLN* 1.4 57.8 + - - +
244A ASP* 3.2 4.5 + - - +
245A TYR* 2.9 26.7 + - - +
269A TRP* 3.5 46.1 - - + +
314A PHE* 4.1 9.6 - - + -
317A TYR* 3.1 53.4 - - + +
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Residues in contact with GLN 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A PHE* 2.9 27.0 + - + +
239A PHE* 3.6 25.4 - - - +
241A ILE* 1.4 76.8 - - - +
243A ASP* 1.3 55.8 + - - +
245A TYR* 3.2 2.4 + - - +
246A LEU* 2.9 48.3 + - + +
314A PHE* 3.8 20.3 - - + -
318A GLU* 3.6 13.5 + - - -
348A ILE 3.1 23.9 + - - +
351A ARG* 2.9 46.0 + - - +
353A LYS 4.6 1.9 - - - +
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Residues in contact with ASP 243 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A PHE* 3.0 17.1 + - + +
240A GLN* 3.1 19.7 + - - +
242A GLN* 1.3 75.7 - - - +
244A ASP* 1.4 55.1 + - - +
246A LEU* 3.4 10.8 + - - +
247A ASP* 3.0 27.5 + - - +
257A LYS* 2.8 29.8 + - - -
403A MG 2.2 28.0 - - - -
404A IPE 3.9 14.4 + - + +
405A RIS 2.9 18.7 + - - -
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Residues in contact with ASP 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A TYR* 2.7 28.2 + - - -
200A LYS* 4.9 2.8 + - - -
240A GLN* 2.9 37.9 + - - +
241A ILE 3.5 6.7 - - - +
243A ASP* 1.4 74.0 - - - +
245A TYR* 1.3 65.2 + - - +
247A ASP* 3.4 14.9 - - - +
261A ASP* 4.0 13.5 - - - +
268A SER* 3.4 23.5 + - - +
269A TRP* 3.0 22.2 + - + +
270A LEU* 3.5 14.9 - - - +
405A RIS 4.5 1.9 + - - -
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Residues in contact with TYR 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A ILE 2.9 14.2 + - - +
242A GLN* 3.6 6.5 - - + +
244A ASP* 1.3 75.9 - - - +
246A LEU* 1.3 75.4 + - + +
248A LEU* 3.4 2.9 + - - +
249A PHE* 2.9 72.1 + + + +
269A TRP* 5.4 1.3 - - + -
270A LEU* 4.1 17.0 - - + +
311A PRO* 3.7 32.3 + - + +
314A PHE* 3.6 53.6 - + + -
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Residues in contact with LEU 246 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A GLN* 2.9 40.8 + - + +
243A ASP* 3.7 9.4 - - - +
245A TYR* 1.3 86.2 - - + +
247A ASP* 1.3 66.2 + - - +
248A LEU 3.1 0.4 - - - -
250A GLY* 2.9 39.7 + - - +
255A THR* 4.3 14.4 + - + +
257A LYS* 6.2 3.4 - - - -
351A ARG 4.4 2.0 - - - +
352A ARG* 3.6 42.4 - - + +
353A LYS 4.0 14.6 - - - +
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Residues in contact with ASP 247 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A ASP 3.0 12.7 + - - +
244A ASP 3.4 8.5 - - - +
245A TYR 3.3 0.2 - - - -
246A LEU* 1.3 77.4 - - - +
248A LEU* 1.3 61.1 + - + +
250A GLY 5.6 0.2 - - - +
257A LYS* 5.8 5.7 - - - +
259A GLY* 3.2 40.7 + - - +
260A THR* 3.2 9.4 + - - -
261A ASP* 3.0 55.8 + - + +
262A ILE* 4.7 0.5 + - - +
403A MG 4.0 9.9 - - - -
405A RIS 4.7 2.1 + - - -
----------------------------------------------------------
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Residues in contact with LEU 248 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A ASP 4.0 0.4 + - - -
245A TYR 3.4 2.0 + - - -
247A ASP* 1.3 84.3 - - + +
249A PHE* 1.3 78.3 + - + +
250A GLY 3.5 5.2 + - - +
262A ILE* 3.7 27.4 - - + -
270A LEU* 3.9 13.9 - - + -
298A VAL* 5.2 7.2 - - + -
302A LYS* 3.8 44.7 + - + +
305A TYR* 3.4 33.9 - - + -
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Residues in contact with PHE 249 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A TYR* 2.9 61.9 + + + +
246A LEU* 4.5 0.4 - - - -
248A LEU* 1.3 90.9 - - + +
250A GLY* 1.3 63.0 + - - +
251A ASP 4.1 0.2 + - - -
270A LEU* 3.9 22.7 - - + -
302A LYS* 4.3 17.7 - - + +
305A TYR* 3.9 21.3 - + + -
306A GLU* 3.8 30.5 - - + -
310A LEU* 5.0 0.2 - - + -
311A PRO* 3.8 23.1 - - + -
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Residues in contact with GLY 250 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A LEU* 2.9 46.4 + - - +
248A LEU 4.4 4.9 - - - +
249A PHE* 1.3 80.8 - - - +
251A ASP* 1.3 63.0 + - - -
252A PRO* 3.4 10.2 - - - +
255A THR* 4.2 4.0 - - - -
----------------------------------------------------------
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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