Contacts of the helix formed by residues 206 - 233 (chain A) in PDB entry 5I7L
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 SER 206 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202A GLY 3.3 19.9 + - - -
203A LEU 3.6 4.3 - - - -
204A LEU 2.4 18.8 + - - -
205A ASP* 1.3 66.8 + - - +
207A LEU* 1.3 58.9 + - - +
209A GLY* 3.0 3.8 + - - -
210A ILE* 2.9 34.0 + - - +
90B GLY 4.5 1.4 + - - -
91B LEU* 3.5 29.0 + - - +
94B LYS* 4.0 16.2 - - - +
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Residues in contact with LEU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LEU* 6.0 5.4 - - + -
108A ILE* 4.6 14.1 - - + -
139A LEU* 6.1 2.5 - - + -
141A VAL* 3.5 32.3 - - + -
151A LEU* 4.4 11.4 - - + -
153A LEU* 4.2 18.4 - - + -
203A LEU* 3.1 17.5 + - + +
204A LEU* 4.5 4.7 - - + -
206A SER* 1.3 80.2 + - - +
208A THR* 1.3 50.8 + - - +
210A ILE* 3.2 12.2 + - + +
211A LEU* 2.8 56.8 + - + +
91B LEU* 3.7 23.7 - - + +
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Residues in contact with THR 208 (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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153A LEU* 5.8 0.2 - - - +
189A ILE* 4.0 21.8 - - + +
204A LEU* 3.8 14.6 - - - +
205A ASP* 3.1 30.5 + - + +
206A SER 3.2 0.4 - - - -
207A LEU* 1.3 77.4 - - - +
209A GLY* 1.3 56.1 + - - +
211A LEU* 3.4 7.7 + - - +
212A ASN* 2.7 54.5 + - - +
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Residues in contact with GLY 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A ASP 3.5 11.2 + - - -
206A SER 3.0 8.6 + - - -
208A THR* 1.3 80.1 - - - +
210A ILE* 1.3 61.7 + - - +
212A ASN* 3.5 12.3 + - - +
213A LYS* 3.7 16.1 + - - +
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Residues in contact with ILE 210 (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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73A LEU* 5.9 1.3 - - + +
74A LEU* 4.7 11.0 - - + -
77A LEU* 4.1 23.3 - - + -
206A SER* 2.9 15.8 + - - +
207A LEU* 3.2 12.1 + - + +
209A GLY* 1.3 73.1 - - - +
211A LEU* 1.3 70.1 + - + +
213A LYS* 3.1 3.3 + - - +
214A VAL* 3.0 38.9 + - + +
87B LEU 4.2 27.1 - - - +
88B LEU* 5.0 3.1 - - - +
91B LEU* 3.6 42.8 - - + -
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Residues in contact with LEU 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A LEU* 4.1 22.2 - - + -
139A LEU* 3.8 32.3 - - + -
153A LEU* 4.0 17.7 - - + -
155A VAL* 4.3 3.4 - - + -
187A LEU* 3.9 2.0 - - + +
189A ILE* 3.7 32.1 - - + -
207A LEU* 2.8 40.8 + - + +
208A THR 3.6 4.7 - - - +
210A ILE* 1.3 75.9 - - + +
212A ASN* 1.3 60.0 + - - +
214A VAL* 4.9 0.7 - - - -
215A LEU* 3.0 42.7 + - + +
216A PRO* 3.5 2.4 - - - +
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Residues in contact with ASN 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A LEU* 3.7 17.2 - - - +
189A ILE* 3.6 12.9 - - - +
208A THR* 2.7 44.0 + - - +
209A GLY* 3.7 9.6 - - - +
210A ILE 3.1 0.8 - - - -
211A LEU* 1.3 78.7 - - - +
213A LYS* 1.3 81.5 + - + +
216A PRO* 4.0 14.1 - - - +
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Residues in contact with LYS 213 (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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209A GLY 3.7 13.0 + - - +
210A ILE* 3.1 3.7 + - - +
212A ASN* 1.3 99.5 + - + +
214A VAL* 1.3 64.5 + - + +
216A PRO* 4.8 2.9 - - - -
217A GLU* 4.3 13.5 - - - +
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Residues in contact with VAL 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A LEU* 4.2 25.1 - - + +
76A ILE* 5.1 15.3 - - + +
77A LEU* 4.7 10.8 - - + -
210A ILE* 3.0 31.9 + - + +
211A LEU* 4.9 0.4 - - - -
212A ASN 3.6 0.2 - - - -
213A LYS* 1.3 84.2 - - + +
215A LEU* 1.3 70.0 + - - +
216A PRO* 3.4 2.5 - - - -
217A GLU* 3.5 6.4 + - - +
218A LEU* 3.1 30.8 + - + +
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Residues in contact with LEU 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A LEU* 4.1 14.6 - - + -
73A LEU* 3.7 30.3 - - + -
137A ILE* 4.6 11.0 - - + -
139A LEU* 4.9 2.0 - - + -
155A VAL* 3.6 33.9 - - + -
157A LEU* 5.4 2.5 - - + -
187A LEU* 4.7 7.6 - - + -
211A LEU* 3.0 33.7 + - + +
214A VAL* 1.3 77.9 - - - +
216A PRO* 1.3 58.4 - - + +
218A LEU* 2.9 7.3 + - + -
219A VAL* 2.6 56.8 + - + +
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Residues in contact with PRO 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 4.0 21.1 - - + -
182A HIS* 3.3 41.3 + - + +
187A LEU* 4.1 18.6 - - + -
211A LEU 3.5 9.4 - - - +
212A ASN 4.0 13.5 - - - +
213A LYS 4.8 1.1 - - - -
214A VAL 3.7 3.6 - - - +
215A LEU* 1.3 91.6 - - + +
217A GLU* 1.3 57.7 + - + +
219A VAL* 3.9 0.5 - - - +
220A GLN* 2.9 30.8 + - - +
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Residues in contact with GLU 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A HIS* 4.1 19.3 - - + +
213A LYS 4.3 13.4 - - - +
214A VAL 3.5 6.5 + - - +
215A LEU 3.4 0.4 - - - -
216A PRO* 1.3 78.7 - - + +
218A LEU* 1.3 57.0 + - - +
220A GLN* 3.9 11.8 - - - +
221A GLY* 3.0 24.6 + - - -
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Residues in contact with LEU 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A LEU* 4.0 16.6 - - + +
72A PRO* 3.8 41.7 - - + +
73A LEU* 3.8 26.7 - - + +
76A ILE* 4.0 16.8 - - + -
214A VAL* 3.1 22.0 + - + +
215A LEU* 2.9 12.4 + - + +
217A GLU* 1.3 76.9 - - - +
219A VAL* 1.3 60.1 + - - +
221A GLY 3.6 0.3 + - - -
222A ASN* 2.4 44.9 + - - +
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Residues in contact with VAL 219 (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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68A LEU* 4.8 4.3 - - + -
71A LEU* 3.7 29.2 - - + -
135A LEU* 3.8 27.4 - - + -
137A ILE* 6.0 1.6 - - + -
157A LEU* 3.6 29.6 - - + -
159A ILE* 3.8 7.4 - - + -
215A LEU* 2.6 33.5 + - + +
216A PRO 3.9 0.2 - - - +
218A LEU* 1.3 69.9 - - - +
220A GLN* 1.3 67.0 + - - +
222A ASN* 3.0 2.6 + - - -
223A VAL* 2.9 29.5 + - + +
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Residues in contact with GLN 220 (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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159A ILE* 3.9 12.1 - - + +
180A CYS 3.5 27.2 + - - +
181A THR* 3.3 11.9 - - - +
182A HIS* 3.2 36.7 + - - +
216A PRO 2.9 17.0 + - - +
217A GLU* 3.9 10.6 - - - +
219A VAL* 1.3 76.9 - - - +
221A GLY* 1.3 60.9 + - - +
222A ASN 3.1 0.3 + - - -
224A CYS* 3.0 41.3 + - + +
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Residues in contact with GLY 221 (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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217A GLU 3.0 14.9 + - - -
218A LEU 4.0 1.3 - - - -
219A VAL 3.2 0.2 - - - -
220A GLN* 1.3 81.5 - - - +
222A ASN* 1.3 61.5 + - - +
224A CYS* 5.4 0.4 - - - -
225A PRO* 3.5 20.5 - - - +
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Residues in contact with ASN 222 (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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67A ILE* 3.5 40.5 - - + +
70A ASN 5.8 0.3 - - - -
71A LEU* 3.4 23.7 - - + +
72A PRO* 4.3 10.2 - - - +
218A LEU* 2.4 44.5 + - - +
219A VAL 3.0 2.8 + - - +
221A GLY* 1.3 81.4 - - - +
223A VAL* 1.3 64.8 + - + +
224A CYS 3.7 0.2 - - - -
225A PRO* 4.1 5.2 - - - +
226A LEU* 4.4 3.8 + - - +
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Residues in contact with VAL 223 (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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59A LEU* 5.0 3.1 - - + -
64A LEU* 3.8 31.9 - - + -
67A ILE* 4.9 2.0 - - + -
68A LEU* 4.2 9.2 - - + -
133A ILE* 5.0 7.6 - - + -
135A LEU* 4.1 9.0 - - + -
159A ILE* 4.3 20.2 - - + -
219A VAL* 2.9 32.5 + - + +
222A ASN* 1.3 82.8 - - + +
224A CYS* 1.3 62.7 + - - +
225A PRO 3.4 0.9 - - - -
226A LEU* 2.9 11.7 + - + +
227A VAL* 2.9 36.0 + - + +
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Residues in contact with CYS 224 (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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159A ILE* 3.9 9.2 - - - -
177A LEU* 3.8 5.2 - - + +
180A CYS* 2.1 68.6 - - + -
220A GLN* 3.0 26.9 + - + +
221A GLY* 5.4 0.4 - - - -
223A VAL* 1.3 74.1 - - - +
225A PRO* 1.3 70.7 - - + +
227A VAL* 3.1 6.1 + - - +
228A ASN* 2.9 21.8 + - - +
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Residues in contact with PRO 225 (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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220A GLN 3.9 0.7 - - - +
221A GLY* 3.5 26.9 - - - +
222A ASN 4.1 2.9 - - - +
223A VAL 3.8 3.4 - - - +
224A CYS* 1.3 92.3 - - + +
226A LEU* 1.3 55.8 + - - +
228A ASN* 3.1 10.8 + - + +
229A GLU* 2.9 26.7 + - - +
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Residues in contact with LEU 226 (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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59A LEU* 3.6 38.4 - - + +
62A GLY* 3.8 29.8 - - - +
64A LEU* 3.6 29.4 - - + -
67A ILE* 3.9 19.5 - - + -
222A ASN 4.4 2.3 + - - +
223A VAL 2.9 12.0 + - - +
225A PRO* 1.3 74.7 - - - +
227A VAL* 1.3 61.3 + - - +
229A GLU* 2.9 25.1 + - - +
230A VAL* 2.8 34.3 + - + +
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Residues in contact with VAL 227 (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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55A LEU* 5.6 7.9 - - + -
59A LEU* 4.1 16.6 - - + -
133A ILE* 3.9 26.0 - - + -
159A ILE* 5.1 0.2 - - + -
161A ALA* 3.9 23.3 - - + -
163A ILE* 6.3 1.3 - - + -
177A LEU* 4.1 13.2 - - + -
180A CYS* 4.6 5.6 - - - -
223A VAL* 2.9 30.2 + - + +
224A CYS* 3.1 11.2 + - - +
226A LEU* 1.3 75.8 - - - +
228A ASN* 1.3 63.1 + - - +
230A VAL* 3.3 3.3 + - + +
231A LEU* 3.0 29.7 + - + +
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Residues in contact with ASN 228 (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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177A LEU* 3.8 30.4 + - + +
224A CYS 2.9 12.3 + - - +
225A PRO* 3.4 12.5 + - + +
226A LEU 3.1 0.2 - - - -
227A VAL* 1.3 78.6 - - - +
229A GLU* 1.3 64.3 + - - +
231A LEU* 3.5 6.7 + - - +
232A ARG* 3.3 21.2 + - - +
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Residues in contact with GLU 229 (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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62A GLY* 5.1 7.5 - - - +
225A PRO 2.9 11.2 + - - +
226A LEU* 2.9 28.8 + - + +
228A ASN* 1.3 79.5 - - - +
230A VAL* 1.3 65.4 + - + +
232A ARG* 3.2 7.9 + - - +
233A GLY* 3.1 18.7 + - - -
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Residues in contact with VAL 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ALA 4.4 2.9 - - - +
55A LEU* 4.0 39.0 - - + +
58A GLY* 3.6 36.1 - - - +
59A LEU* 3.7 14.8 - - + +
62A GLY* 5.6 0.4 - - - -
226A LEU* 2.8 25.8 + - + +
227A VAL* 3.7 6.1 - - - +
229A GLU* 1.3 74.5 - - + +
231A LEU* 1.3 67.2 + - - +
233A GLY* 3.1 11.9 + - - +
234A LEU* 3.3 15.9 + - + +
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Residues in contact with LEU 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A LEU* 5.4 0.9 - - + -
55A LEU* 4.4 7.4 - - + -
163A ILE* 3.8 29.6 - - + -
175A LEU* 3.8 31.9 - - + +
176A VAL 4.3 4.3 - - - -
177A LEU* 3.5 50.5 - - + +
227A VAL* 3.0 21.9 + - + +
228A ASN* 3.7 7.0 - - - +
230A VAL* 1.3 80.3 - - - +
232A ARG* 1.3 63.4 + - - +
234A LEU* 3.2 32.3 + - + +
239A VAL* 4.4 5.0 - - - +
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Residues in contact with ARG 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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228A ASN* 3.3 10.1 + - - +
229A GLU* 3.2 10.4 + - - +
231A LEU* 1.3 79.1 - - - +
233A GLY* 1.3 59.8 + - - +
234A LEU 3.3 4.3 + - - +
236A ILE* 5.4 4.5 - - - +
239A VAL* 5.6 1.6 - - - +
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Residues in contact with GLY 233 (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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229A GLU 3.1 12.8 + - - -
230A VAL* 3.1 6.4 + - - -
232A ARG* 1.3 76.1 - - - +
234A LEU* 1.3 64.1 + - - +
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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