Contacts of the helix formed by residues 188 - 214 (chain L) in PDB entry 2FRV
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 VAL 188 (chain L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137L LEU* 3.9 24.0 - - + -
184L LEU* 3.8 22.2 - - + -
185L PRO* 3.0 20.6 + - + +
187L GLU* 1.3 72.4 - - - +
189L ASP* 1.3 66.2 + - - +
190L LEU 3.0 1.4 + - - -
191L ILE* 3.1 11.7 + - + +
192L ALA* 3.0 23.1 + - + +
263L ALA* 5.4 6.1 - - + -
264L VAL* 4.3 14.8 - - + +
267L PHE* 3.9 34.3 - - + -
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Residues in contact with ASP 189 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121L VAL* 3.4 13.9 - - + +
122L ASN* 3.0 44.8 + - - +
125L ASN* 2.8 30.0 + - - +
126L ALA* 3.8 9.3 - - - +
184L LEU* 3.3 22.1 - - - +
185L PRO 3.1 10.7 + - - +
186L ALA 3.6 7.6 - - - +
187L GLU 3.3 0.4 - - - -
188L VAL* 1.3 77.7 - - - +
190L LEU* 1.3 54.8 + - - +
192L ALA* 4.1 1.7 - - - +
193L THR* 2.7 31.7 + - - -
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Residues in contact with LEU 190 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126L ALA* 3.9 21.5 - - + +
129L ALA* 3.8 16.4 - - + -
131L PRO* 4.1 15.9 - - + -
134L ALA* 3.6 26.0 - - + -
151L LEU* 3.7 31.2 - - + +
154L VAL* 4.2 16.8 - - + -
155L GLN* 4.2 17.3 - - + +
186L ALA 3.1 13.7 + - - +
187L GLU 3.4 2.2 + - - +
188L VAL 3.0 1.2 - - - -
189L ASP* 1.3 78.7 - - - +
191L ILE* 1.3 61.0 + - - +
192L ALA 3.2 0.2 - - - -
193L THR* 3.3 1.4 + - - +
194L ALA* 3.0 26.7 + - - +
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Residues in contact with ILE 191 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134L ALA* 3.6 30.1 - - + +
137L LEU* 3.8 26.5 - - + -
138L ALA* 3.8 20.9 - - + +
141L LEU* 5.1 8.7 - - + -
151L LEU* 4.6 7.2 - - + -
187L GLU 3.3 15.4 + - - +
188L VAL* 3.6 14.4 - - + +
190L LEU* 1.3 75.0 - - - +
192L ALA* 1.3 61.2 + - + +
194L ALA* 3.1 7.6 + - - +
195L HIS* 2.9 43.3 + - + +
260L ASP* 3.9 22.2 - - - +
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Residues in contact with ALA 192 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113L TYR* 4.7 5.4 - - + -
117L ALA* 5.9 3.5 - - + +
121L VAL* 4.0 29.6 - - + -
188L VAL* 3.0 17.3 + - + +
189L ASP 4.1 3.6 - - - +
191L ILE* 1.3 83.5 - - + +
193L THR* 1.3 56.2 + - - +
195L HIS* 3.9 6.2 - - - +
196L TYR* 3.0 26.5 + - - +
260L ASP* 4.6 6.7 - - + +
264L VAL* 5.2 9.9 - - + -
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Residues in contact with THR 193 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121L VAL* 4.3 2.0 - - - +
123L VAL* 3.9 31.0 - - + +
126L ALA* 4.1 9.0 - - + +
154L VAL* 3.9 17.9 - - + -
158L VAL* 3.9 21.3 - - + -
189L ASP 2.7 23.8 + - - -
190L LEU* 3.8 6.5 - - - -
191L ILE 3.2 1.0 - - - -
192L ALA* 1.3 74.0 - - - +
194L ALA* 1.3 67.3 + - - +
195L HIS 3.1 0.4 - - - -
196L TYR* 3.5 8.6 + - + +
197L LEU* 3.3 33.9 + - + +
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Residues in contact with ALA 194 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151L LEU* 3.6 26.0 - - + -
154L VAL* 3.8 24.0 - - + +
190L LEU 3.0 16.9 + - - +
191L ILE* 3.1 4.7 + - - +
193L THR* 1.3 80.0 - - - +
195L HIS* 1.3 66.9 + - + +
197L LEU* 3.6 5.2 + - - +
198L GLU* 3.3 20.8 + - - +
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Residues in contact with HIS 195 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113L TYR* 3.6 15.9 - - + +
138L ALA* 5.8 4.9 - - + +
142L SER* 6.0 1.3 - - - -
144L LYS* 5.1 5.1 - - - -
146L THR* 5.3 7.5 + - - +
191L ILE* 2.9 30.2 + - + +
192L ALA 4.0 2.2 - - - +
193L THR 3.1 0.4 - - - -
194L ALA* 1.3 82.9 - - + +
196L TYR* 1.3 53.6 + - - +
198L GLU* 3.1 18.9 + - - +
199L ALA* 2.6 36.2 + - - +
252L PHE* 4.2 1.7 - - - -
255L GLN 5.9 0.2 - - - -
256L VAL* 3.4 27.2 - - + +
259L THR* 5.5 0.9 - - - -
260L ASP* 2.2 46.0 + - - +
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Residues in contact with TYR 196 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113L TYR* 2.9 42.1 - - + -
114L HIS* 3.2 47.5 + + - +
117L ALA* 5.1 3.6 - - + -
118L LEU* 4.3 28.0 - - + +
123L VAL* 6.1 2.0 - - + -
169L ILE* 4.0 22.5 - - + +
170L PHE* 5.3 8.5 - + - -
192L ALA 3.0 16.9 + - - +
193L THR* 3.8 9.4 - - + +
195L HIS* 1.3 74.0 - - - +
197L LEU* 1.3 78.9 + - + +
200L LEU* 3.4 21.8 + - + +
48S LEU* 4.8 8.1 + - - +
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Residues in contact with LEU 197 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154L VAL* 3.9 24.5 - - + -
157L LYS* 4.3 28.5 - - + +
158L VAL* 5.9 1.1 - - + -
193L THR* 3.3 23.2 + - + +
194L ALA* 4.0 5.4 - - - +
195L HIS 3.3 0.4 - - - -
196L TYR* 1.3 90.2 - - + +
198L GLU* 1.3 61.6 + - - +
200L LEU* 3.1 30.6 + - + +
201L ARG* 3.7 9.2 + - - +
33S ASP* 4.6 13.0 - - + +
37S LEU* 4.5 21.3 - - + -
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Residues in contact with GLU 198 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144L LYS* 2.5 36.0 + - - -
194L ALA 3.3 11.3 + - - +
195L HIS* 3.1 27.8 + - - +
197L LEU* 1.3 75.6 - - - +
199L ALA* 1.3 62.4 - - - +
200L LEU 3.1 0.2 - - - -
201L ARG* 3.1 19.9 + - + +
202L VAL* 3.2 20.2 + - + +
252L PHE* 3.7 15.4 - - + -
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Residues in contact with ALA 199 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109L LEU* 4.6 5.8 - - + +
113L TYR* 3.5 31.4 - - + -
114L HIS* 3.7 19.3 - - + +
195L HIS 2.6 19.8 + - - +
196L TYR 3.9 0.4 - - - +
197L LEU 3.4 0.2 - - - -
198L GLU* 1.3 71.3 - - - +
200L LEU* 1.3 57.7 + - - +
202L VAL* 3.8 6.0 - - - +
203L GLN* 2.9 31.7 + - - +
252L PHE* 4.1 12.1 - - + -
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Residues in contact with LEU 200 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114L HIS* 3.5 25.1 - - + +
196L TYR* 3.4 32.5 + - + +
197L LEU* 3.1 19.7 + - + +
198L GLU 3.1 1.2 - - - -
199L ALA* 1.3 77.1 - - - +
201L ARG* 1.3 59.1 + - - +
203L GLN* 2.9 34.4 + - + +
204L VAL* 3.7 4.7 - - - +
25S LEU* 5.3 8.3 - - + -
32S VAL* 3.8 29.1 - - + +
33S ASP* 4.3 25.4 - - + +
36S ILE* 6.3 2.2 - - + -
48S LEU* 6.5 1.1 - - + -
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Residues in contact with ARG 201 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197L LEU 4.1 10.3 - - - +
198L GLU* 3.1 11.0 + - + +
200L LEU* 1.3 77.4 - - - +
202L VAL* 1.3 65.8 + - + +
203L GLN 3.3 0.9 - - - -
204L VAL* 3.4 17.3 + - - +
205L LYS* 3.6 15.7 + - - +
31S TYR* 3.5 47.2 - - + +
33S ASP* 2.7 40.1 + - - -
34S GLU* 3.9 14.6 + - - +
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Residues in contact with VAL 202 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109L LEU* 3.8 22.4 - - + -
198L GLU* 3.2 20.3 + - + +
199L ALA* 3.5 4.7 + - - +
201L ARG* 1.3 75.6 - - + +
203L GLN* 1.3 69.3 + - - +
205L LYS* 2.8 24.2 + - + +
206L ALA* 3.3 8.7 + - - +
248L GLU 5.1 0.9 - - - +
249L VAL* 3.9 28.5 - - + -
252L PHE* 3.7 38.6 - - + -
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Residues in contact with GLN 203 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106L HIS* 3.1 36.5 + - + +
109L LEU* 4.4 8.0 - - + +
110L VAL* 3.5 28.3 - - + +
114L HIS* 4.5 3.8 - - + -
199L ALA 2.9 18.0 + - - +
200L LEU* 2.9 32.0 + - + +
202L VAL* 1.3 77.1 - - - +
204L VAL* 1.3 67.7 + - - +
206L ALA* 3.4 3.5 + - - -
207L ALA* 3.2 9.0 + - - +
25S LEU* 2.8 36.8 + - - +
26S ARG* 3.1 27.9 + - - -
32S VAL* 5.4 0.6 - - - +
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Residues in contact with VAL 204 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200L LEU 3.7 7.6 - - - +
201L ARG* 3.4 10.1 + - - +
202L VAL 3.0 0.6 - - - -
203L GLN* 1.3 98.2 - - - +
205L LYS* 1.3 59.4 + - + +
207L ALA* 3.6 5.9 + - - +
208L ARG* 3.2 50.2 + - - +
25S LEU 3.7 9.9 - - - +
26S ARG* 4.4 13.4 - - + +
27S THR 4.4 8.5 - - - +
28S VAL* 3.9 15.3 - - + -
31S TYR* 4.5 14.8 - - + -
234S ASN* 5.2 1.0 + - - +
235S GLN* 4.7 2.2 - - - +
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Residues in contact with LYS 205 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201L ARG* 3.8 16.4 + - - +
202L VAL* 2.8 16.2 + - + +
204L VAL* 1.3 79.6 - - + +
206L ALA* 1.3 57.2 + - - +
208L ARG* 3.4 18.1 + - - +
209L ALA* 3.2 27.4 + - - +
245L LEU* 4.0 22.2 - - + +
248L GLU* 2.7 42.5 + - + +
249L VAL* 3.8 13.9 - - + +
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Residues in contact with ALA 206 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102L ALA* 4.3 10.4 - - - +
105L MET* 5.0 1.1 - - + -
106L HIS* 3.6 37.7 - - + +
109L LEU* 5.2 2.2 - - + -
202L VAL 3.3 6.8 + - - +
203L GLN* 3.7 4.9 - - - +
205L LYS* 1.3 73.9 - - - +
207L ALA* 1.3 63.1 + - - +
209L ALA* 3.8 6.4 + - - +
210L MET* 3.3 20.4 + - - +
249L VAL* 4.0 25.5 - - + +
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Residues in contact with ALA 207 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106L HIS* 3.8 8.7 - - - +
203L GLN 3.2 13.9 + - - +
204L VAL 3.7 4.0 - - - +
206L ALA* 1.3 78.0 - - - +
208L ARG* 1.3 58.9 + - - +
210L MET* 3.3 5.7 + - - +
211L ALA* 3.1 26.0 + - - +
217L ASN* 3.7 17.3 - - - +
26S ARG* 3.3 36.1 - - - +
234S ASN* 3.9 8.3 - - - +
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Residues in contact with ARG 208 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204L VAL* 3.2 32.1 + - - +
205L LYS* 3.7 25.3 - - - +
206L ALA 3.4 0.4 - - - -
207L ALA* 1.3 75.3 - - - +
209L ALA* 1.3 61.8 + - - +
211L ALA* 3.2 4.7 + - - +
212L ILE* 3.2 18.2 + - - +
241L GLU* 5.5 0.4 - - - -
245L LEU* 3.7 28.9 - - + +
28S VAL* 4.1 5.1 - - - +
31S TYR* 5.7 1.0 + - - -
234S ASN* 2.8 31.9 + - + +
235S GLN* 2.4 42.8 - - - +
236S VAL* 3.6 20.6 - - + +
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Residues in contact with ALA 209 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102L ALA* 5.2 3.6 - - + -
205L LYS 3.2 16.4 + - - +
206L ALA* 3.9 8.7 - - - +
208L ARG* 1.3 72.8 - - - +
210L MET* 1.3 65.5 + - - +
212L ILE* 3.0 19.1 + - - +
213L PHE 3.8 1.4 + - - -
242L PHE* 3.2 43.1 - - + +
245L LEU* 4.0 17.7 - - + +
246L TYR* 4.8 5.6 - - - +
249L VAL* 6.1 0.2 - - + -
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Residues in contact with MET 210 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69L THR* 3.8 9.0 - - + -
70L TYR* 3.4 33.7 - - + -
99L THR* 4.0 21.0 - - + +
102L ALA* 4.0 14.7 - - + +
103L GLN* 3.5 38.6 - - + +
106L HIS* 5.8 2.0 - - - -
206L ALA 3.3 11.5 + - - +
207L ALA* 3.3 10.2 + - - +
208L ARG 3.2 0.6 - - - -
209L ALA* 1.3 82.1 - - - +
211L ALA* 1.3 50.6 + - - +
212L ILE 3.3 0.2 + - - -
213L PHE* 3.4 4.5 + - - +
214L GLY* 2.7 30.8 + - - -
217L ASN* 3.4 19.7 - - + +
220L THR* 3.5 16.4 - - + -
242L PHE* 5.0 1.1 - - - -
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Residues in contact with ALA 211 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207L ALA 3.1 10.0 + - - +
208L ARG 3.4 11.2 - - - +
209L ALA 3.2 0.2 - - - -
210L MET* 1.3 73.4 - - - +
212L ILE* 1.3 64.4 + - - +
213L PHE 3.3 0.4 - - - -
214L GLY* 3.8 3.1 - - - +
215L ALA 3.2 12.4 + - - +
216L LYS* 4.0 15.7 - - - +
234S ASN* 3.4 27.8 - - + +
236S VAL* 3.6 13.9 - - + -
237S ASN* 3.1 21.8 + - - +
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Residues in contact with ILE 212 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208L ARG 3.2 14.5 + - - +
209L ALA* 3.0 10.9 + - - +
211L ALA* 1.3 77.1 - - - +
213L PHE* 1.3 64.3 - - + +
230L ASN* 3.3 7.8 + - - -
233L SER* 3.6 11.4 - - - -
238L ARG* 3.4 45.7 + - + +
241L GLU* 3.8 16.4 - - + +
242L PHE* 3.7 38.6 - - + +
245L LEU* 3.9 15.7 - - + -
236S VAL* 3.9 14.1 - - + -
237S ASN* 3.1 20.6 + - - +
----------------------------------------------------------
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Residues in contact with PHE 213 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95L MET* 4.1 26.7 - - + -
98L LEU* 3.8 32.8 - - + -
99L THR* 3.3 21.8 - - - +
209L ALA 4.4 0.4 - - - -
210L MET* 3.4 4.0 + - - +
212L ILE* 1.3 81.8 - - + +
214L GLY* 1.3 57.5 + - - +
222L PHE* 3.2 19.7 - - - +
230L ASN* 2.7 21.8 + - - +
233L SER* 3.4 33.7 - - - -
239L ILE* 4.6 8.5 - - + -
242L PHE* 3.1 52.3 - + + -
429L LEU* 4.3 8.5 - - + -
432L LEU* 4.4 7.4 - - + -
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Residues in contact with GLY 214 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99L THR* 4.4 1.7 + - - -
210L MET 2.7 21.1 + - - -
212L ILE 3.6 0.2 - - - -
213L PHE* 1.3 72.3 - - - +
215L ALA* 1.3 62.7 + - - +
216L LYS 2.9 11.9 + - - -
220L THR* 3.3 15.5 - - - -
221L GLN 3.0 19.5 + - - -
222L PHE* 3.7 17.9 - - - -
----------------------------------------------------------
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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