Contacts of the helix formed by residues 188 - 214 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B LEU* 3.9 23.6 - - + -
184B LEU* 3.8 23.6 - - + -
185B PRO* 3.0 20.0 + - + +
187B GLU* 1.3 73.8 - - - +
189B ASP* 1.3 66.4 + - - +
190B LEU 3.0 1.4 + - - -
191B ILE* 3.1 11.5 + - + +
192B ALA* 3.0 23.6 + - + +
263B ALA* 5.4 6.1 - - + -
264B VAL* 4.3 13.7 - - + +
267B PHE* 3.9 34.3 - - + -
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Residues in contact with ASP 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B VAL* 3.4 14.9 - - + +
122B ASN* 3.0 45.1 + - - +
125B ASN* 2.8 30.0 + - - +
126B ALA* 3.8 8.4 - - - +
184B LEU* 3.3 23.2 - - - +
185B PRO 3.1 9.5 + - - +
186B ALA 3.6 7.9 - - - +
187B GLU 3.3 0.4 - - - -
188B VAL* 1.3 77.9 - - - +
190B LEU* 1.3 54.7 + - - +
192B ALA* 4.1 1.7 - - - +
193B THR* 2.7 32.2 + - - -
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Residues in contact with LEU 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B ALA* 3.9 21.1 - - + +
129B ALA* 3.8 16.2 - - + -
131B PRO* 4.1 15.7 - - + -
134B ALA* 3.6 26.9 - - + -
151B LEU* 3.7 30.7 - - + +
154B VAL* 4.2 17.3 - - + -
155B GLN* 4.2 16.6 - - + +
186B ALA 3.1 14.5 + - - +
187B GLU 3.4 2.0 + - - +
188B VAL 3.0 1.2 - - - -
189B ASP* 1.3 78.3 - - - +
191B ILE* 1.3 60.4 + - - +
192B ALA 3.2 0.2 - - - -
193B THR* 3.3 1.2 + - - +
194B ALA* 3.0 27.4 + - - +
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Residues in contact with ILE 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ALA* 3.6 30.3 - - + +
137B LEU* 3.8 27.1 - - + -
138B ALA* 3.8 19.3 - - + +
141B LEU* 5.1 9.2 - - + -
151B LEU* 4.6 7.2 - - + -
187B GLU 3.3 15.4 + - - +
188B VAL* 3.6 14.1 - - + +
190B LEU* 1.3 76.2 - - - +
192B ALA* 1.3 60.4 + - + +
194B ALA* 3.1 7.7 + - - +
195B HIS* 2.9 43.9 + - + +
260B ASP* 3.9 21.5 - - - +
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Residues in contact with ALA 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B TYR* 4.7 6.4 - - + -
117B ALA* 5.9 4.5 - - + +
121B VAL* 4.0 29.6 - - + -
188B VAL* 3.0 16.7 + - + +
189B ASP 4.1 4.0 - - - +
191B ILE* 1.3 83.7 - - + +
193B THR* 1.3 56.1 + - - +
195B HIS* 3.9 6.1 - - - +
196B TYR* 3.0 27.0 + - - +
260B ASP* 4.6 6.3 - - + +
264B VAL* 5.2 9.9 - - + -
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Residues in contact with THR 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B VAL* 4.3 1.9 - - - +
123B VAL* 3.9 30.9 - - + +
126B ALA* 4.1 8.7 - - + +
154B VAL* 3.9 17.5 - - + -
158B VAL* 3.9 20.9 - - + -
189B ASP 2.7 24.0 + - - -
190B LEU* 3.3 6.5 + - - -
191B ILE 3.2 0.4 - - - -
192B ALA* 1.3 76.0 - - - +
194B ALA* 1.3 66.9 + - - +
195B HIS 3.1 0.2 - - - -
196B TYR* 3.5 6.9 + - + +
197B LEU* 3.3 33.3 + - + +
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Residues in contact with ALA 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B LEU* 3.6 25.6 - - + -
154B VAL* 3.8 24.2 - - + +
190B LEU 3.0 17.4 + - - +
191B ILE 3.6 4.0 - - - +
193B THR* 1.3 80.8 - - - +
195B HIS* 1.3 66.3 + - + +
197B LEU* 3.6 4.6 + - - +
198B GLU* 3.3 21.0 + - - +
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Residues in contact with HIS 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B TYR* 3.6 15.7 - - + +
138B ALA* 5.8 5.6 - - + +
142B SER* 6.0 1.6 - - - -
144B LYS* 5.1 4.8 - - - -
146B THR* 5.3 8.5 + - - +
191B ILE* 2.9 30.2 + - + +
192B ALA 3.4 2.0 + - - +
193B THR 3.1 0.2 - - - -
194B ALA* 1.3 82.7 - - + +
196B TYR* 1.3 54.3 + - - +
198B GLU* 3.1 18.4 + - - +
199B ALA* 2.6 36.4 + - - +
252B PHE* 4.2 1.7 - - - -
256B VAL* 3.4 29.0 - - + +
259B THR* 5.5 0.7 - - - -
260B ASP* 2.2 46.6 + - - +
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Residues in contact with TYR 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 4.8 7.8 + - - +
113B TYR* 2.9 42.5 - - + -
114B HIS* 3.2 47.3 + + - +
117B ALA* 5.1 3.4 - - + -
118B LEU* 4.3 29.2 - - + +
123B VAL* 6.1 1.3 - - + -
169B ILE* 4.0 22.6 - - + +
170B PHE* 5.0 8.5 - + - -
192B ALA 3.0 18.1 + - - +
193B THR* 3.8 9.2 - - + +
194B ALA 3.4 0.2 - - - -
195B HIS* 1.3 72.6 - - - +
197B LEU* 1.3 78.9 + - + +
199B ALA 3.6 0.2 + - - -
200B LEU* 3.4 21.3 + - + +
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Residues in contact with LEU 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ASP* 4.6 11.9 - - + +
37A LEU* 4.5 21.8 - - + -
154B VAL* 3.9 24.9 - - + -
157B LYS* 4.3 28.7 - - + +
158B VAL* 5.9 1.3 - - + -
193B THR* 3.3 24.7 + - + +
194B ALA* 4.0 5.2 - - - +
195B HIS 3.3 0.2 - - - -
196B TYR* 1.3 90.3 - - + +
198B GLU* 1.3 62.1 + - - +
200B LEU* 3.1 31.4 + - + +
201B ARG* 3.7 9.8 + - - +
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Residues in contact with GLU 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B LYS* 2.5 35.1 + - - -
194B ALA 3.3 10.8 + - - +
195B HIS* 3.1 27.8 + - - +
197B LEU* 1.3 76.3 - - - +
199B ALA* 1.3 65.0 - - - +
201B ARG* 3.1 20.1 + - + +
202B VAL* 3.2 19.9 + - + +
252B PHE* 3.7 15.3 - - + -
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Residues in contact with ALA 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B LEU* 4.6 5.8 - - + +
113B TYR* 3.5 31.9 - - + -
114B HIS* 3.7 19.1 - - + +
195B HIS 2.6 19.6 + - - +
196B TYR 3.9 0.2 - - - +
198B GLU* 1.3 71.9 - - - +
200B LEU* 1.3 57.4 + - - +
201B ARG 3.2 0.2 - - - -
202B VAL* 3.8 5.6 - - - -
203B GLN* 2.9 31.7 + - - +
252B PHE* 4.1 12.3 - - + -
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Residues in contact with LEU 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 5.3 8.3 - - + -
31A TYR* 5.7 0.2 - - - -
32A VAL* 3.8 32.1 - - + +
33A ASP* 4.3 25.6 - - + +
36A ILE* 6.3 2.0 - - + -
48A LEU* 6.5 1.1 - - + -
114B HIS* 3.5 25.4 - - + +
196B TYR* 3.4 30.9 + - + +
197B LEU* 3.1 19.7 + - + +
198B GLU 3.1 0.8 - - - -
199B ALA* 1.3 78.3 - - - +
201B ARG* 1.3 58.8 + - - +
203B GLN* 2.9 33.8 + - + +
204B VAL* 3.7 4.7 - - - +
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Residues in contact with ARG 201 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A TYR* 3.5 47.0 - - + +
33A ASP* 2.7 40.0 + - - +
34A GLU* 3.9 14.6 + - - +
197B LEU 4.1 10.1 - - - +
198B GLU* 3.1 10.8 + - + +
200B LEU* 1.3 75.9 - - - +
202B VAL* 1.3 67.4 + - + +
203B GLN 3.3 0.9 - - - -
204B VAL* 3.4 18.2 + - - +
205B LYS* 3.6 15.4 + - - +
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Residues in contact with VAL 202 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B LEU* 3.8 22.9 - - + -
198B GLU* 3.2 19.5 + - + +
199B ALA* 3.5 4.5 + - - +
201B ARG* 1.3 74.9 - - + +
203B GLN* 1.3 69.1 + - - +
205B LYS* 2.8 25.1 + - + +
206B ALA* 3.3 8.7 + - - +
248B GLU* 5.1 0.9 - - + +
249B VAL* 3.9 28.7 - - + -
252B PHE* 3.7 38.6 - - + -
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Residues in contact with GLN 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 2.8 38.2 + - - +
26A ARG* 3.1 28.1 + - - +
32A VAL* 5.4 0.2 - - - +
106B HIS* 3.1 36.9 + - + +
109B LEU* 4.4 8.4 - - + +
110B VAL* 3.5 28.5 - - + +
114B HIS* 4.5 3.4 - - + +
199B ALA 2.9 19.0 + - - +
200B LEU* 2.9 31.5 + - + +
202B VAL* 1.3 76.3 - - - +
204B VAL* 1.3 67.1 + - - +
206B ALA* 3.4 3.5 + - - -
207B ALA* 3.2 8.7 + - - +
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Residues in contact with VAL 204 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU 3.7 9.9 - - - +
26A ARG* 4.4 13.0 - - + +
27A THR 4.4 8.7 - - - +
28A VAL* 3.9 14.8 - - + -
31A TYR* 4.5 14.6 - - + -
234A ASN* 5.2 1.0 + - - -
235A GLN* 4.7 1.7 + - - +
200B LEU 3.7 7.6 - - - +
201B ARG* 3.4 10.1 + - - +
202B VAL 2.8 1.0 + - - -
203B GLN* 1.3 96.3 - - - +
205B LYS* 1.3 59.6 + - + +
207B ALA* 3.6 7.0 + - - +
208B ARG* 3.2 50.5 + - - +
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Residues in contact with LYS 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201B ARG* 3.8 16.2 + - - +
202B VAL* 2.8 16.4 + - + +
204B VAL* 1.3 77.9 - - + +
206B ALA* 1.3 56.9 + - - +
208B ARG* 3.4 18.8 + - - +
209B ALA* 3.2 26.7 + - - +
245B LEU* 4.0 23.2 - - + +
248B GLU* 2.7 42.0 + - + +
249B VAL* 3.8 13.7 - - + -
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Residues in contact with ALA 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B ALA* 4.3 10.8 - - - +
105B MET* 5.3 0.9 - - + -
106B HIS* 3.6 37.5 - - + +
109B LEU* 5.3 2.0 - - + -
202B VAL 3.3 7.0 + - - +
203B GLN* 3.7 4.3 - - - +
205B LYS* 1.3 73.9 - - - +
207B ALA* 1.3 63.8 + - - +
208B ARG 3.4 0.2 - - - -
209B ALA* 3.9 6.5 - - - +
210B MET* 3.3 21.0 + - - +
249B VAL* 4.0 26.0 - - + +
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Residues in contact with ALA 207 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ARG* 3.3 36.8 - - - +
234A ASN* 3.9 8.5 - - - +
106B HIS* 3.8 8.5 - - - +
203B GLN 3.2 13.5 + - - +
204B VAL 3.7 4.0 - - - +
206B ALA* 1.3 79.5 - - - +
208B ARG* 1.3 58.4 + - - +
210B MET* 3.3 5.4 + - - +
211B ALA* 3.1 26.0 + - - +
217B ASN* 3.7 16.9 - - - +
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Residues in contact with ARG 208 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 4.1 4.9 - - - +
31A TYR* 5.7 0.6 + - - -
234A ASN* 2.8 32.9 + - + +
235A GLN* 2.4 42.7 - - - +
236A VAL* 3.6 19.7 - - + +
204B VAL* 3.2 33.6 + - - +
205B LYS* 3.7 24.6 - - - +
206B ALA 3.4 0.2 - - - -
207B ALA* 1.3 76.0 - - - +
209B ALA* 1.3 63.0 + - - +
211B ALA* 3.2 4.9 + - - +
212B ILE* 3.2 18.0 + - - +
241B GLU* 5.5 0.4 - - - -
245B LEU* 3.7 27.1 - - + +
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Residues in contact with ALA 209 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B ALA* 5.2 3.4 - - + -
205B LYS 3.2 16.7 + - - +
206B ALA* 3.9 8.1 - - - +
208B ARG* 1.3 72.5 - - - +
210B MET* 1.3 67.1 + - - +
212B ILE* 3.0 19.5 + - - +
213B PHE 3.8 1.2 + - - -
242B PHE* 3.2 43.6 - - + +
245B LEU* 4.0 18.2 - - + -
246B TYR* 4.8 5.4 - - - +
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Residues in contact with MET 210 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B THR* 3.8 9.2 - - + -
70B TYR* 3.4 33.4 - - + -
99B THR* 4.0 22.7 - - + +
102B ALA* 4.0 14.5 - - + +
103B GLN* 3.5 35.9 - - + +
106B HIS* 5.8 2.0 - - - -
206B ALA 3.3 12.7 + - - +
207B ALA* 3.3 9.6 + - - +
208B ARG 3.2 0.4 - - - -
209B ALA* 1.3 81.9 - - - +
211B ALA* 1.3 48.1 + - - +
212B ILE 3.3 0.3 + - - -
213B PHE* 3.4 4.5 + - - +
214B GLY* 2.7 31.0 + - - -
217B ASN* 3.4 22.4 - - + +
220B THR* 3.5 16.2 - - + -
242B PHE* 5.0 0.9 - - - -
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Residues in contact with ALA 211 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A PHE 4.7 0.4 - - - +
234A ASN* 3.4 26.5 - - + +
236A VAL* 3.6 14.8 - - + -
237A ASN* 3.1 21.7 + - - +
207B ALA 3.1 10.0 + - - +
208B ARG 3.4 10.8 - - - +
209B ALA 3.2 0.4 - - - -
210B MET* 1.3 74.4 - - - +
212B ILE* 1.3 63.6 + - - +
214B GLY* 3.8 4.0 - - - +
215B ALA 3.2 12.9 + - - +
216B LYS* 4.0 14.8 - - - +
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Residues in contact with ILE 212 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A VAL* 3.9 14.8 - - + -
237A ASN* 3.1 20.7 + - - +
208B ARG 3.2 13.8 + - - +
209B ALA* 3.0 12.0 + - - +
211B ALA* 1.3 76.5 - - - +
213B PHE* 1.3 63.2 + - + +
230B ASN* 3.3 7.8 + - - -
233B SER* 3.6 10.6 - - - -
238B ARG* 3.4 45.3 + - + +
241B GLU* 3.8 17.0 - - + +
242B PHE* 3.7 37.7 - - + +
245B LEU* 3.9 15.3 - - + -
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Residues in contact with PHE 213 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B MET* 4.1 25.4 - - + -
98B LEU* 3.8 32.3 - - + -
99B THR* 3.3 22.0 - - - +
209B ALA 3.8 0.9 + - - -
210B MET* 3.4 3.9 + - - +
212B ILE* 1.3 82.3 - - + +
214B GLY* 1.3 57.6 + - - +
222B PHE* 3.2 19.7 - - - +
230B ASN* 2.7 21.7 + - - +
233B SER* 3.4 34.3 - - - -
239B ILE* 4.6 7.6 - - + -
242B PHE* 3.1 50.9 - + - -
429B LEU* 4.3 9.0 - - + -
432B LEU* 4.4 7.6 - - + -
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Residues in contact with GLY 214 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B THR* 4.4 1.5 + - - -
210B MET 2.7 22.7 + - - -
211B ALA 4.1 0.2 - - - -
213B PHE* 1.3 71.9 - - - +
215B ALA* 1.3 63.7 + - - +
216B LYS 2.9 11.4 + - - -
220B THR* 3.3 15.8 - - - -
221B GLN 3.0 18.5 + - - -
222B 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