Contacts of the helix formed by residues 201 - 229 (chain M) in PDB entry 1C17
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 LEU 201 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160M LEU* 5.1 14.1 - - + -
164M TYR* 3.3 29.8 - - + +
199M SER* 3.1 22.2 - - - +
200M LEU* 1.3 81.7 - - + +
202M SER* 1.3 67.2 + - - +
204M PRO* 2.9 18.4 - - - +
205M VAL* 2.9 27.8 + - + +
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Residues in contact with SER 202 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51L THR* 3.5 22.1 + - - +
54L PHE* 3.2 35.7 - - - +
199M SER* 3.2 23.7 + - - -
201M LEU* 1.3 86.0 - - - +
203M LYS* 1.3 61.6 - - - +
205M VAL* 3.3 9.8 + - - +
206M SER 3.2 15.8 + - - -
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Residues in contact with LYS 203 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K LEU* 4.7 12.8 - - + -
50K ARG* 6.0 0.2 - - - +
53K PHE* 5.2 10.8 - - + -
50L ARG* 3.2 34.4 - - - +
54L PHE* 3.5 24.5 - - + -
199M SER* 3.2 33.5 + - - +
200M LEU* 5.9 0.2 - - - +
202M SER* 1.3 72.6 - - - +
204M PRO* 1.3 67.9 - - + +
206M SER* 3.1 9.7 + - - -
207M LEU* 2.7 33.6 + - + +
256M PHE* 5.2 0.9 - - + -
259M LEU* 4.7 19.3 - - + -
263M TYR* 4.2 29.1 + - + -
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Residues in contact with PRO 204 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111M TRP* 5.8 1.9 - - - -
200M LEU 3.2 22.7 - - - +
201M LEU* 2.9 19.3 - - - +
203M LYS* 1.3 97.2 - - + +
205M VAL* 1.3 62.6 + - + +
207M LEU* 3.3 5.2 + - + +
208M GLY* 3.2 17.2 + - - -
256M PHE* 3.6 37.1 - - + -
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Residues in contact with VAL 205 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54L PHE* 6.0 1.3 - - + -
111M TRP* 6.2 2.7 - - - -
160M LEU* 6.3 4.3 - - + -
201M LEU* 2.9 23.8 - - + +
202M SER* 3.6 8.7 - - - +
203M LYS 3.2 0.6 - - - -
204M PRO* 1.3 77.5 - - + +
206M SER* 1.3 62.6 + - - +
208M GLY* 3.2 3.3 + - - +
209M LEU* 3.1 22.6 + - + +
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Residues in contact with SER 206 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K PHE* 4.7 6.0 - - - -
54L PHE* 3.1 51.8 + - - +
57L MET* 4.7 10.4 - - - -
202M SER 3.2 1.8 + - - -
203M LYS 3.1 7.7 + - - -
205M VAL* 1.3 80.4 - - - +
207M LEU* 1.3 66.0 + - - +
209M LEU* 3.2 17.0 + - - +
210M ARG* 3.3 13.3 + - - +
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Residues in contact with LEU 207 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K PHE* 5.8 7.4 - - + -
203M LYS* 2.7 33.4 + - + +
204M PRO 3.7 6.1 - - - +
205M VAL 3.3 0.2 - - - -
206M SER* 1.3 79.5 - - - +
208M GLY* 1.3 62.5 + - - +
210M ARG* 3.3 8.4 + - + +
211M LEU* 3.2 25.4 + - - +
252M GLN* 5.5 3.3 - - - +
255M ILE* 4.9 11.9 - - + -
256M PHE* 3.7 48.7 - - + +
259M LEU* 4.1 26.7 - - + -
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Residues in contact with GLY 208 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111M TRP* 4.4 17.5 - - - -
204M PRO 3.2 10.8 + - - -
205M VAL 3.2 3.8 + - - -
206M SER 3.2 0.2 - - - -
207M LEU* 1.3 80.6 - - - +
209M LEU* 1.3 52.3 + - - +
211M LEU* 2.9 20.8 - - - +
212M PHE* 2.7 36.5 + - - +
256M PHE* 5.4 0.8 - - - -
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Residues in contact with LEU 209 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54L PHE 4.5 7.4 - - - +
55L ILE* 5.6 2.2 - - - +
58L GLY* 3.4 36.8 - - - +
59L LEU* 6.5 0.2 - - + -
62L ALA* 6.6 0.2 - - + -
205M VAL* 3.1 14.1 + - + +
206M SER* 3.2 11.9 + - - +
208M GLY* 1.3 77.4 - - - +
210M ARG* 1.3 62.3 + - - +
212M PHE* 3.7 12.7 - - + +
213M GLY* 3.0 20.8 + - - +
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Residues in contact with ARG 210 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57K MET 5.8 0.8 + - - -
60K VAL* 4.6 11.8 + - + +
61K ASP* 3.9 20.6 + - - +
64K PRO* 4.3 22.8 - - - +
57L MET* 3.8 19.9 - - - +
61L ASP* 2.7 47.1 + - - -
65L MET* 4.8 6.5 - - - +
206M SER 3.3 10.0 + - - +
207M LEU* 3.8 10.5 - - + +
208M GLY 3.3 0.2 - - - -
209M LEU* 1.3 78.8 - - - +
211M LEU* 1.3 58.3 + - - +
213M GLY* 3.5 1.0 + - - -
214M ASN* 2.6 43.8 + - - +
252M GLN* 4.1 11.3 - - + +
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Residues in contact with LEU 211 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111M TRP* 4.5 11.4 - - + +
115M MET* 3.7 22.4 - - + -
207M LEU* 3.2 16.9 + - + +
208M GLY* 2.9 26.5 - - - +
210M ARG* 1.3 76.7 - - - +
212M PHE* 1.3 81.5 + - + +
214M ASN* 3.3 1.9 + - - +
215M MET* 2.9 57.0 + - + +
249M ILE* 4.9 3.9 - - - +
252M GLN* 3.2 38.4 - - + +
253M ALA* 4.7 10.3 - - - +
256M PHE* 5.4 6.7 - - + -
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Residues in contact with PHE 212 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111M TRP* 6.3 2.9 - + + -
149M VAL* 3.0 51.8 - - + -
150M THR* 4.8 4.0 - - + -
152M SER* 4.6 2.9 - - - -
153M MET* 3.8 32.1 - - + -
208M GLY 2.7 24.4 + - - +
209M LEU* 3.7 14.6 - - + +
211M LEU* 1.3 79.8 - - + +
213M GLY* 1.3 64.6 + - - +
215M MET* 2.8 29.8 - - - +
216M TYR* 3.2 15.5 + + + +
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Residues in contact with GLY 213 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65L MET* 3.0 39.8 - - - +
209M LEU* 3.0 16.6 + - - -
210M ARG 4.0 0.2 - - - -
212M PHE* 1.3 82.8 - - - +
214M ASN* 1.3 61.6 + - - +
216M TYR* 3.5 5.0 + - - +
217M ALA* 3.3 16.3 + - - +
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Residues in contact with ASN 214 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64K PRO* 5.3 10.6 - - - +
65L MET* 3.9 14.0 - - - +
210M ARG* 2.6 36.6 + - - +
211M LEU* 3.8 4.5 - - - +
213M GLY* 1.3 75.1 - - - +
215M MET* 1.3 59.7 + - - +
217M ALA* 3.4 4.9 + - - +
218M GLY* 2.9 26.7 + - - -
248M ILE* 4.2 9.7 - - + +
252M GLN* 3.1 30.9 - - + +
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Residues in contact with MET 215 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115M MET* 4.1 15.5 - - + -
118M MET* 5.4 7.0 - - - +
149M VAL* 4.2 18.8 - - + -
152M SER* 5.0 6.3 - - - -
211M LEU* 2.9 39.6 + - + +
212M PHE* 2.8 34.3 - - - +
214M ASN* 1.3 76.8 - - - +
216M TYR* 1.3 57.2 + - - +
218M GLY 3.3 0.3 + - - -
219M GLU* 2.8 26.2 + - - +
245M HIS* 3.0 21.8 + - + -
248M ILE* 4.4 4.5 - - - +
249M ILE* 3.1 41.3 - - + +
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Residues in contact with TYR 216 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65L MET* 6.0 0.7 - - - -
69L GLY* 4.7 21.3 - - - -
73L TYR* 5.4 4.2 - - - -
118M MET* 6.5 0.4 - - - -
145M ALA 5.2 0.7 - - - -
146M ASP* 3.0 51.1 + - + +
149M VAL* 3.6 31.0 - - + -
212M PHE* 3.2 19.8 + + + +
213M GLY* 3.8 5.2 - - - +
215M MET* 1.3 82.0 - - - +
217M ALA* 1.3 64.5 + - + +
219M GLU* 3.4 3.5 + - + +
220M LEU* 2.8 47.4 + - + +
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Residues in contact with ALA 217 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65L MET* 4.8 4.9 - - - -
68L VAL* 3.5 31.9 - - + -
69L GLY* 4.7 5.6 - - - +
72L LEU* 3.2 10.3 - - + +
213M GLY 3.3 11.5 + - - +
214M ASN* 3.7 9.0 - - - +
216M TYR* 1.3 83.4 - - - +
218M GLY* 1.3 55.0 + - - +
220M LEU* 5.1 0.4 - - - -
221M ILE* 2.7 37.6 + - + +
----------------------------------------------------------
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Residues in contact with GLY 218 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214M ASN 2.9 16.9 + - - -
215M MET 3.3 1.8 + - - -
217M ALA* 1.3 77.6 - - - +
219M GLU* 1.3 56.8 + - - +
221M ILE* 3.6 1.8 - - - -
222M PHE* 2.7 57.1 + - - +
245M HIS* 4.3 3.6 - - - -
248M ILE* 3.9 9.9 - - - -
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Residues in contact with GLU 219 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118M MET* 4.3 12.2 - - + +
145M ALA* 3.1 35.6 - - + +
215M MET 2.8 18.1 + - - +
216M TYR* 3.8 6.3 - - + +
217M ALA 3.3 0.2 - - - -
218M GLY* 1.3 77.1 - - - +
220M LEU* 1.3 62.9 + - + +
223M ILE* 2.9 26.7 + - - +
241M TRP* 2.7 51.1 + - - +
245M HIS* 3.6 30.4 + - + -
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Residues in contact with LEU 220 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69L GLY* 5.7 1.6 - - - +
72L LEU* 3.4 21.1 - - + -
73L TYR* 5.2 7.0 - - + -
142M VAL* 3.1 43.9 - - + +
145M ALA* 4.4 5.4 - - + -
146M ASP* 3.2 27.1 - - - +
216M TYR* 2.8 50.1 + - + +
217M ALA* 4.2 0.9 - - - +
219M GLU* 1.3 83.0 - - + +
221M ILE* 1.3 60.2 + - - +
223M ILE* 2.8 21.4 - - + +
224M LEU* 3.3 16.4 - - + +
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Residues in contact with ILE 221 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72K LEU* 4.5 16.2 - - + -
75K MET* 4.9 9.9 - - + -
68L VAL* 6.4 0.7 - - + -
72L LEU* 3.6 15.4 - - + +
76L PHE* 3.7 41.3 - - + -
217M ALA 2.7 27.5 + - - +
218M GLY* 3.6 3.1 - - - -
220M LEU* 1.3 75.6 - - - +
222M PHE* 1.3 90.2 + - + +
224M LEU* 3.0 29.5 - - + +
225M ILE* 3.1 14.6 - - + +
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Residues in contact with PHE 222 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71K GLY* 5.7 8.7 - - - -
75K MET* 6.5 0.7 - - - -
218M GLY* 2.7 47.1 + - - +
219M GLU* 4.9 0.2 - - - -
221M ILE* 1.3 88.7 - - + +
223M ILE* 1.3 61.2 + - - +
225M ILE* 2.7 28.1 - - + +
226M ALA* 3.0 12.5 + - - +
241M TRP* 3.9 17.6 - - + +
244M PHE* 3.2 54.5 - + + -
245M HIS* 5.2 2.2 - - + +
248M ILE* 4.5 17.5 - - + -
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Residues in contact with ILE 223 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138M ALA* 5.3 1.3 - - + +
141M VAL* 2.9 46.4 - - + +
142M VAL* 4.7 11.9 - - + +
219M GLU* 2.9 27.4 + - - +
220M LEU* 2.8 35.0 - - + +
222M PHE* 1.3 80.8 - - - +
224M LEU* 1.3 66.3 + - + +
226M ALA 3.4 0.2 + - - -
227M GLY 3.2 4.2 + - - -
237M LEU* 3.2 38.2 - - + +
241M TRP* 3.3 22.8 - - + +
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Residues in contact with LEU 224 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75K MET* 6.1 0.4 - - + -
72L LEU* 3.9 5.4 - - + +
76L PHE* 3.2 31.6 - - + +
77L ALA* 3.1 45.1 - - + +
142M VAL* 6.2 3.6 - - + -
220M LEU 3.3 16.6 - - - +
221M ILE* 3.0 25.8 - - + +
223M ILE* 1.3 82.8 - - + +
225M ILE* 1.3 87.7 + - + +
227M GLY* 3.4 3.0 + - - -
228M LEU* 3.3 23.0 + - + +
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Residues in contact with ILE 225 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75K MET* 3.3 45.1 - - + -
78K VAL* 6.3 2.0 - - + -
221M ILE* 3.1 13.7 - - + +
222M PHE* 2.7 34.8 - - + +
224M LEU* 1.3 89.9 - - + +
226M ALA* 1.3 65.6 + - + +
228M LEU* 3.3 18.6 + - + +
229M LEU* 3.0 52.1 - - + +
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Residues in contact with ALA 226 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222M PHE 3.0 19.0 + - - +
225M ILE* 1.3 78.6 - - + +
227M GLY* 1.3 53.7 + - - +
229M LEU* 4.2 3.4 - - - +
230M PRO* 2.5 37.2 - - - +
237M LEU* 3.4 36.2 - - + +
240M PRO* 4.9 9.1 - - + +
241M TRP* 4.0 9.0 - - + +
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Residues in contact with GLY 227 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223M ILE 3.2 3.4 + - - -
224M LEU 3.4 3.1 + - - -
226M ALA* 1.3 78.4 - - - +
228M LEU* 1.3 57.2 + - - +
230M PRO* 3.1 17.4 - - - +
233M SER* 2.9 23.3 + - - -
237M LEU* 3.0 33.6 - - - +
----------------------------------------------------------
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Residues in contact with LEU 228 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76L PHE 6.0 1.6 - - - +
224M LEU* 3.3 13.9 + - + +
225M ILE* 3.3 19.9 + - + +
227M GLY* 1.3 75.9 - - - +
229M LEU* 1.3 68.5 + - + +
230M PRO 3.5 5.4 - - - +
----------------------------------------------------------
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Residues in contact with LEU 229 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75K MET 5.4 1.6 - - - +
78K VAL* 3.4 29.4 - - + -
79K ALA* 2.7 48.4 - - - +
225M ILE* 3.0 50.2 + - + +
226M ALA* 4.2 2.2 - - - +
228M LEU* 1.3 80.9 - - + +
230M PRO* 1.3 67.9 - - + +
231M TRP* 4.8 5.5 + - - -
----------------------------------------------------------
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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