Contacts of the helix formed by residues 188 - 214 (chain F) 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 F).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137F LEU* 3.9 24.0 - - + -
184F LEU* 3.8 22.9 - - + -
185F PRO* 3.0 20.2 + - + +
187F GLU* 1.3 73.9 - - - +
189F ASP* 1.3 66.8 + - - +
190F LEU 3.0 1.4 + - - -
191F ILE* 3.1 11.4 + - + +
192F ALA* 3.0 23.0 + - + +
263F ALA* 5.4 6.3 - - + -
264F VAL* 4.3 14.6 - - + +
267F PHE* 3.9 34.5 - - + -
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Residues in contact with ASP 189 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121F VAL* 3.4 15.4 - - + +
122F ASN* 3.0 45.2 + - - +
125F ASN* 2.8 30.0 + - - +
126F ALA* 3.8 8.8 - - - +
184F LEU* 3.3 21.5 - - - +
185F PRO 3.1 10.7 + - - +
186F ALA 3.6 8.1 - - - +
187F GLU 3.3 0.2 - - - -
188F VAL* 1.3 77.2 - - - +
190F LEU* 1.3 54.6 + - - +
192F ALA* 4.1 1.4 - - - +
193F THR* 2.7 31.7 + - - -
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Residues in contact with LEU 190 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126F ALA* 3.9 20.9 - - + +
129F ALA* 3.8 17.5 - - + -
131F PRO* 4.1 15.3 - - + -
134F ALA* 3.6 27.1 - - + -
151F LEU* 3.7 30.7 - - + +
154F VAL* 4.2 17.7 - - + -
155F GLN* 4.2 15.9 - - + +
158F VAL* 6.4 0.2 - - + -
186F ALA 3.1 15.6 + - - +
187F GLU 3.4 2.2 + - - +
188F VAL 3.0 0.8 - - - -
189F ASP* 1.3 78.9 - - - +
191F ILE* 1.3 60.2 + - - +
192F ALA 3.2 0.2 - - - -
193F THR* 3.3 1.2 + - - +
194F ALA* 3.0 27.0 + - - +
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Residues in contact with ILE 191 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134F ALA* 3.6 30.3 - - + +
137F LEU* 3.8 26.5 - - + -
138F ALA* 3.8 20.6 - - + +
141F LEU* 5.1 9.0 - - + -
151F LEU* 4.6 7.4 - - + -
187F GLU 3.3 16.9 + - - +
188F VAL* 3.6 13.7 - - + +
190F LEU* 1.3 76.2 - - - +
192F ALA* 1.3 60.8 + - - +
194F ALA* 3.1 7.1 + - - +
195F HIS* 2.9 43.6 + - + +
260F ASP* 3.9 22.0 - - - +
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Residues in contact with ALA 192 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113F TYR* 4.7 6.3 - - + -
117F ALA* 5.9 4.1 - - + +
121F VAL* 4.0 29.4 - - + -
188F VAL* 3.0 16.7 + - + +
189F ASP 4.1 3.6 - - - +
191F ILE* 1.3 83.1 - - + +
193F THR* 1.3 55.6 + - - +
195F HIS* 3.7 6.1 - - - +
196F TYR* 3.0 27.0 + - - +
260F ASP* 4.6 7.0 - - + +
264F VAL* 5.2 9.4 - - + -
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Residues in contact with THR 193 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121F VAL* 4.3 2.0 - - - +
123F VAL* 3.9 30.9 - - + +
126F ALA* 4.1 8.5 - - + +
154F VAL* 3.9 18.6 - - + -
158F VAL* 3.9 20.9 - - + -
189F ASP 2.7 23.8 + - - -
190F LEU* 3.8 6.1 - - - -
191F ILE 3.2 0.4 - - - -
192F ALA* 1.3 75.0 - - - +
194F ALA* 1.3 67.4 + - - +
195F HIS 3.1 0.2 - - - -
196F TYR* 3.5 7.8 + - + +
197F LEU* 3.3 33.6 + - + +
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Residues in contact with ALA 194 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151F LEU* 3.6 25.4 - - + -
154F VAL* 3.8 22.8 - - + +
190F LEU 3.0 17.8 + - - +
191F ILE* 3.1 5.1 + - - +
193F THR* 1.3 81.4 - - - +
195F HIS* 1.3 66.5 + - + +
197F LEU* 3.6 5.1 + - - +
198F GLU* 3.3 21.0 + - - +
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Residues in contact with HIS 195 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113F TYR* 3.6 15.9 - - + +
138F ALA* 5.8 4.7 - - + +
144F LYS* 5.1 4.9 - - - -
146F THR* 5.3 8.3 + - - +
191F ILE* 2.9 30.8 + - + +
192F ALA 4.0 1.6 - - - +
194F ALA* 1.3 83.4 - - + +
196F TYR* 1.3 55.1 + - - +
198F GLU* 3.1 17.9 + - - +
199F ALA* 2.6 36.0 + - - +
252F PHE* 4.2 1.9 - - - -
256F VAL* 3.4 29.9 - - + +
259F THR* 5.5 0.4 - - - -
260F ASP* 2.2 47.1 + - - +
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Residues in contact with TYR 196 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48E LEU* 4.8 8.5 + - - +
113F TYR* 2.9 42.3 - - + -
114F HIS* 3.2 46.8 + + - +
117F ALA* 5.1 3.6 - - + -
118F LEU* 4.3 27.9 - - + +
123F VAL* 6.1 2.0 - - + -
169F ILE* 4.0 22.2 - - + +
170F PHE* 5.3 7.6 - + - -
192F ALA 3.0 16.8 + - - +
193F THR* 3.8 9.4 - - + +
194F ALA 3.4 0.2 - - - -
195F HIS* 1.3 73.6 - - - +
197F LEU* 1.3 77.9 + - + +
199F ALA 3.6 0.2 + - - -
200F LEU* 3.4 21.1 + - + +
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Residues in contact with LEU 197 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33E ASP* 4.6 12.9 - - + +
37E LEU* 4.5 20.4 - - + -
154F VAL* 3.9 24.9 - - + -
157F LYS* 4.3 28.5 - - + +
158F VAL* 5.9 1.3 - - + -
193F THR* 3.3 23.6 + - + +
194F ALA* 4.0 5.2 - - - +
195F HIS 3.3 0.4 - - - -
196F TYR* 1.3 89.6 - - + +
198F GLU* 1.3 62.4 + - - +
200F LEU* 3.1 30.9 + - + +
201F ARG* 3.7 9.2 + - - +
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Residues in contact with GLU 198 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144F LYS* 2.5 35.7 + - - -
194F ALA 3.3 11.4 + - - +
195F HIS* 3.1 27.2 + - - +
197F LEU* 1.3 77.7 - - - +
199F ALA* 1.3 64.3 - - - +
200F LEU 3.1 0.2 - - - -
201F ARG* 3.1 19.7 + - + +
202F VAL* 3.2 18.9 + - + +
252F PHE* 3.7 16.1 - - + -
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Residues in contact with ALA 199 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109F LEU* 4.6 6.1 - - + +
113F TYR* 3.5 31.4 - - + -
114F HIS* 3.7 19.9 - - + +
195F HIS 2.6 19.6 + - - +
196F TYR 3.9 0.7 - - - +
197F LEU 3.4 0.2 - - - -
198F GLU* 1.3 71.2 - - - +
200F LEU* 1.3 58.6 + - - +
202F VAL* 3.8 5.8 - - - +
203F GLN* 2.9 31.5 + - - +
252F PHE* 4.1 12.4 - - + -
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Residues in contact with LEU 200 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E LEU* 4.8 8.0 - - + +
31E TYR* 5.7 0.3 - - - -
32E VAL* 3.8 30.1 - - + +
33E ASP* 4.3 25.8 - - + +
36E ILE* 6.3 2.2 - - + -
48E LEU* 6.5 0.9 - - + -
114F HIS* 3.5 25.1 - - + +
196F TYR* 3.4 31.1 + - + +
197F LEU* 3.1 19.9 + - + +
198F GLU 3.1 1.0 - - - -
199F ALA* 1.3 77.7 - - - +
201F ARG* 1.3 58.7 + - - +
203F GLN* 2.9 34.2 + - + +
204F VAL* 3.7 4.5 - - - +
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Residues in contact with ARG 201 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31E TYR* 3.5 47.4 - - + +
33E ASP* 2.7 40.1 + - - -
34E GLU* 3.9 14.3 + - - +
197F LEU 4.1 10.5 - - - +
198F GLU* 3.1 10.9 + - + +
200F LEU* 1.3 75.7 - - - +
202F VAL* 1.3 67.1 + - + +
203F GLN 3.3 0.9 - - - -
204F VAL* 3.4 17.7 + - - +
205F LYS* 3.6 15.4 + - - +
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Residues in contact with VAL 202 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109F LEU* 3.8 22.2 - - + -
198F GLU* 3.2 20.2 + - + +
199F ALA* 4.1 4.5 - - - +
201F ARG* 1.3 74.5 - - + +
203F GLN* 1.3 68.4 + - - +
205F LYS* 2.8 25.2 + - + +
206F ALA* 3.3 8.7 + - - +
248F GLU 5.1 0.9 - - - +
249F VAL* 3.9 28.3 - - + -
252F PHE* 3.7 39.0 - - + -
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Residues in contact with GLN 203 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E LEU* 2.8 37.6 + - - +
26E ARG* 3.1 28.2 + - - -
32E VAL* 5.4 0.4 - - - +
106F HIS* 3.1 36.3 + - + +
109F LEU* 4.4 8.0 - - + +
110F VAL* 3.5 28.6 - - + +
114F HIS* 4.5 3.1 - - + -
199F ALA 2.9 18.2 + - - +
200F LEU* 2.9 32.6 + - + +
202F VAL* 1.3 78.0 - - - +
204F VAL* 1.3 67.7 + - - +
206F ALA* 3.4 3.5 + - - -
207F ALA* 3.2 8.8 + - - +
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Residues in contact with VAL 204 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E LEU 3.7 10.3 - - - +
26E ARG* 4.4 13.4 - - + +
27E THR 4.4 9.0 - - - +
28E VAL* 3.9 15.0 - - + -
31E TYR* 4.5 14.6 - - + -
234E ASN* 5.2 0.9 + - - -
235E GLN* 4.7 1.6 - - - +
200F LEU 3.7 7.6 - - - +
201F ARG* 3.4 10.5 + - - +
202F VAL 2.8 0.6 + - - -
203F GLN* 1.3 97.8 - - - +
205F LYS* 1.3 60.9 + - + +
207F ALA* 3.6 6.2 + - - +
208F ARG* 3.2 51.1 + - - +
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Residues in contact with LYS 205 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201F ARG* 3.8 16.1 + - - +
202F VAL* 2.8 16.2 + - + +
204F VAL* 1.3 78.9 - - + +
206F ALA* 1.3 55.9 + - - +
208F ARG* 3.4 18.0 + - - +
209F ALA* 3.2 27.0 + - - +
245F LEU* 4.0 22.4 - - + +
248F GLU* 2.7 43.8 + - + +
249F VAL* 3.8 13.9 - - + +
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Residues in contact with ALA 206 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102F ALA* 4.3 10.1 - - - +
105F MET* 5.0 1.6 - - + -
106F HIS* 3.6 37.1 - - + +
109F LEU* 5.2 1.8 - - + -
202F VAL 3.3 7.2 + - - +
203F GLN* 3.7 4.7 - - - +
205F LYS* 1.3 74.5 - - - +
207F ALA* 1.3 63.2 + - - +
209F ALA* 3.8 6.9 + - - +
210F MET* 3.3 20.8 + - - +
249F VAL* 4.0 25.5 - - + +
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Residues in contact with ALA 207 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26E ARG* 3.3 35.7 - - - +
234E ASN* 3.9 8.1 - - - +
106F HIS* 3.8 8.9 - - - +
203F GLN 3.2 14.1 + - - +
204F VAL 3.7 4.5 - - - +
205F LYS 3.3 0.2 - - - -
206F ALA* 1.3 80.1 - - - +
208F ARG* 1.3 57.7 + - - +
210F MET* 3.3 5.0 + - - +
211F ALA* 3.1 26.0 + - - +
217F ASN* 3.7 17.0 - - - +
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Residues in contact with ARG 208 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E VAL* 4.1 5.3 - - - +
31E TYR* 5.7 0.4 + - - -
234E ASN* 2.8 32.9 + - + +
235E GLN* 2.4 42.0 - - - +
236E VAL* 3.6 20.0 - - + +
204F VAL* 3.2 32.5 + - - +
205F LYS* 3.7 24.7 - - - +
206F ALA 3.4 0.2 - - - -
207F ALA* 1.3 73.2 - - - +
209F ALA* 1.3 61.4 + - - +
211F ALA* 3.2 4.7 + - - +
212F ILE* 3.2 18.5 + - - +
241F GLU* 5.5 0.2 - - - -
245F LEU* 3.7 28.4 - - + +
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Residues in contact with ALA 209 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102F ALA* 5.2 3.6 - - + -
205F LYS 3.2 16.3 + - - +
206F ALA* 3.9 8.7 - - - +
207F ALA 3.3 0.2 - - - -
208F ARG* 1.3 73.1 - - - +
210F MET* 1.3 66.2 + - - +
212F ILE* 3.0 18.8 + - - +
213F PHE* 3.8 1.4 + - - -
242F PHE* 3.2 43.2 - - + +
245F LEU* 4.0 18.2 - - + -
246F TYR* 4.8 5.4 - - - +
249F VAL* 6.1 0.2 - - + -
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Residues in contact with MET 210 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69F THR* 3.8 9.2 - - + -
70F TYR* 3.4 33.9 - - + -
99F THR* 4.0 21.5 - - + +
102F ALA* 4.0 14.3 - - + +
103F GLN* 3.5 38.8 - - + +
106F HIS* 5.8 1.8 - - - -
206F ALA 3.3 12.5 + - - +
207F ALA* 3.3 10.9 + - - +
208F ARG 3.2 0.4 - - - -
209F ALA* 1.3 80.9 - - - +
211F ALA* 1.3 50.5 + - - +
212F ILE 3.3 0.2 + - - -
213F PHE* 3.4 5.2 + - - +
214F GLY* 2.7 30.5 + - - -
217F ASN* 3.4 20.2 - - + +
220F THR* 3.5 16.4 - - + -
242F PHE* 5.0 0.9 - - - -
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Residues in contact with ALA 211 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234E ASN* 3.4 27.4 - - + +
236E VAL* 3.6 15.0 - - + -
237E ASN* 3.1 21.3 + - - +
207F ALA 3.1 10.7 + - - +
208F ARG 3.4 10.1 - - - +
209F ALA 3.2 0.2 - - - -
210F MET* 1.3 73.2 - - - +
212F ILE* 1.3 63.9 + - - +
213F PHE 3.3 0.2 - - - -
214F GLY* 3.8 3.8 - - - +
215F ALA 3.2 13.0 + - - +
216F LYS* 4.0 15.7 - - - +
----------------------------------------------------------
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Residues in contact with ILE 212 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236E VAL* 3.9 14.4 - - + -
237E ASN* 3.1 21.1 + - - +
208F ARG 3.2 16.6 + - - +
209F ALA* 3.0 11.2 + - - +
211F ALA* 1.3 77.0 - - - +
213F PHE* 1.3 61.7 + - + +
230F ASN* 3.3 7.1 + - - -
233F SER* 3.6 11.2 - - - -
238F ARG* 3.4 45.1 + - + +
241F GLU* 3.8 17.0 - - + +
242F PHE* 3.7 37.9 - - + +
245F LEU* 3.9 15.5 - - + -
----------------------------------------------------------
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Residues in contact with PHE 213 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95F MET* 4.1 25.6 - - + -
98F LEU* 3.8 32.5 - - + -
99F THR* 3.3 21.8 - - - +
209F ALA 3.8 1.3 + - - -
210F MET 3.4 3.8 + - - +
212F ILE* 1.3 81.3 - - + +
214F GLY* 1.3 56.7 + - - +
222F PHE* 3.2 19.4 - - - +
230F ASN* 2.7 22.3 + - - +
233F SER* 3.4 34.1 - - - -
239F ILE* 4.6 7.6 - - + -
242F PHE* 3.1 51.4 - + + -
429F LEU* 4.3 9.2 - - + -
432F LEU* 4.4 8.1 - - + -
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Residues in contact with GLY 214 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99F THR* 4.4 1.1 + - - -
210F MET 2.7 22.5 + - - -
211F ALA 4.1 0.4 - - - -
213F PHE* 1.3 73.1 - - - +
215F ALA* 1.3 63.2 + - - +
216F LYS 2.9 10.8 + - - -
220F THR* 3.3 16.0 - - - -
221F GLN 3.0 19.3 + - - -
222F 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