Contacts of the helix formed by residues 207 - 238 (chain A) in PDB entry 4AD7
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 ARG 207 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A TRP* 6.1 2.7 - - - +
204A GLU* 3.1 47.3 + - - +
205A ALA* 3.5 10.8 - - - +
206A PRO* 1.3 72.4 - - - +
208A GLU* 1.3 69.1 + - + +
209A LEU 3.2 0.2 - - - -
210A ARG* 3.2 36.3 + - - +
211A LEU* 3.8 10.3 + - + +
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Residues in contact with GLU 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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205A ALA* 3.5 24.5 - - - +
206A PRO* 3.9 14.1 - - + +
207A ARG* 1.3 84.9 - - + +
209A LEU* 1.3 63.5 + - + +
210A ARG 3.1 0.4 - - - -
211A LEU* 3.2 14.4 + - + +
212A ARG* 2.9 43.5 + - - +
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Residues in contact with LEU 209 (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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163A LEU* 5.4 0.2 - - - -
167A TRP* 6.4 2.5 - - + -
206A PRO* 3.3 30.1 + - + +
207A ARG 3.2 0.4 - - - -
208A GLU* 1.3 77.7 - - + +
210A ARG* 1.3 60.7 + - - +
212A ARG* 3.3 30.7 - - + +
213A ALA* 2.9 34.4 + - + +
313A VAL* 5.6 4.5 - - + -
316A SER* 4.6 15.0 - - - +
317A VAL* 4.4 14.4 - - + +
319A THR* 3.6 32.8 - - - +
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Residues in contact with ARG 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A LEU* 3.9 8.2 - - + +
160A GLU* 3.6 45.0 + - - +
163A LEU* 3.6 34.9 - - + +
167A TRP* 6.1 1.3 - - - +
206A PRO 4.1 1.2 + - - -
207A ARG* 3.2 27.9 + - - +
208A GLU 3.1 0.2 - - - -
209A LEU* 1.3 78.8 - - - +
211A LEU* 1.3 80.0 + - + +
213A ALA* 3.9 0.6 - - - -
214A THR* 2.3 42.5 + - - +
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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
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207A ARG* 4.0 12.1 - - + +
208A GLU* 3.2 12.5 + - + +
210A ARG* 1.3 106.9 - - + +
212A ARG* 1.3 60.7 + - + +
214A THR* 3.2 8.7 + - - +
215A ARG* 2.9 50.6 + - - +
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Residues in contact with ARG 212 (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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208A GLU* 2.9 32.7 + - + +
209A LEU* 3.3 30.2 - - - +
211A LEU* 1.3 77.2 - - + +
213A ALA* 1.3 56.7 + - - +
215A ARG* 3.5 15.7 + - - +
216A ALA* 2.9 31.4 + - - +
307A THR 2.3 31.3 + - - -
308A SER* 3.7 25.5 + - - +
312A SER* 4.6 2.4 + - - -
313A VAL* 3.3 37.4 - - + +
316A SER* 4.6 8.9 + - - -
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Residues in contact with ALA 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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148A LEU* 5.2 10.8 - - + -
151A TYR* 4.9 0.2 - - - -
159A LEU* 4.7 9.4 - - + -
163A LEU* 6.0 1.8 - - + -
209A LEU* 2.9 21.4 + - + +
210A ARG* 4.0 2.5 - - - +
212A ARG* 1.3 73.4 - - - +
214A THR* 1.3 65.8 + - - +
217A PHE* 2.9 44.1 + - + +
313A VAL* 3.5 16.4 - - + +
317A VAL* 5.9 5.4 - - + -
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Residues in contact with THR 214 (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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151A TYR* 3.3 23.2 + - - +
159A LEU* 3.2 28.0 - - + +
210A ARG* 2.3 28.7 + - - +
211A LEU* 3.2 11.1 - - - +
213A ALA* 1.3 76.6 - - - +
215A ARG* 1.3 63.7 + - + +
218A VAL* 2.9 40.6 + - + +
474A ASN* 5.8 3.8 - - - +
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Residues in contact with ARG 215 (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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211A LEU* 2.9 39.6 + - - +
212A ARG* 4.3 11.8 - - - +
214A THR* 1.3 81.0 - - + +
216A ALA* 1.3 60.4 + - - +
218A VAL* 3.4 19.8 - - + +
219A ALA* 3.5 12.3 - - - +
303A LYS* 5.3 2.9 - - - +
308A SER* 5.2 15.6 + - - -
310A VAL* 4.6 0.9 - - - +
470A ALA 5.3 9.4 - - - +
471A TYR 6.0 1.8 - - - -
473A GLY* 5.5 12.8 - - - +
474A ASN* 6.1 0.4 - - - +
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Residues in contact with ALA 216 (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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212A ARG 2.9 19.3 + - - +
213A ALA 3.9 0.9 - - - +
215A ARG* 1.3 76.1 - - - +
217A PHE* 1.3 63.3 + - + +
219A ALA* 3.1 5.0 + - - +
220A ALA* 3.0 24.3 + - - +
308A SER 5.2 1.3 - - - +
310A VAL* 3.5 45.4 - - + +
313A VAL* 3.7 19.5 - - + -
314A ILE* 4.6 0.9 - - + -
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Residues in contact with PHE 217 (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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111A PHE 6.1 0.9 - - - -
115A LEU* 4.2 28.3 - - + -
148A LEU* 4.0 29.2 - - + -
151A TYR* 3.8 22.2 - + + -
152A TYR* 3.7 34.1 - + + -
213A ALA* 2.9 44.0 + - + +
216A ALA* 1.3 75.2 - - + +
218A VAL* 1.3 62.0 + - - +
220A ALA* 3.8 5.9 - - - +
221A ARG* 2.9 32.4 + - - +
313A VAL* 5.1 0.4 - - + -
314A ILE* 3.7 44.0 - - + -
317A VAL* 4.8 5.4 - - + -
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Residues in contact with VAL 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A TYR* 3.2 20.4 - - - +
214A THR* 2.9 31.0 + - + +
215A ARG* 3.4 20.0 - - + +
217A PHE* 1.3 77.4 - - - +
219A ALA* 1.3 58.6 + - - +
221A ARG* 3.4 23.4 - - - +
222A SER* 2.5 40.4 + - - +
470A ALA* 4.6 20.9 - - + +
473A GLY 6.0 1.3 - - - +
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Residues in contact with ALA 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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215A ARG 3.5 12.1 - - - +
216A ALA 3.1 9.7 + - - +
218A VAL* 1.3 80.5 - - - +
220A ALA* 1.3 65.8 + - - +
222A SER* 3.2 2.4 + - - -
223A PHE* 3.0 24.4 + - - +
300A ILE* 3.9 32.9 - - + +
303A LYS* 4.4 7.9 - - + -
304A PHE* 4.3 6.5 - - + -
310A VAL* 3.7 16.6 - - + -
470A ALA* 4.9 1.3 - - + +
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Residues in contact with ALA 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A PHE* 3.6 40.6 - - + -
152A TYR* 3.9 13.9 - - + -
216A ALA 3.0 12.7 + - - +
217A PHE* 3.8 9.0 - - - +
219A ALA* 1.3 75.2 - - - +
221A ARG* 1.3 62.6 + - - +
223A PHE* 3.1 4.6 + - - +
224A VAL* 3.0 26.9 + - - +
304A PHE* 4.4 3.9 - - - -
310A VAL* 4.4 4.9 - - + -
314A ILE* 4.6 4.0 - - + -
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Residues in contact with ARG 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A TYR* 3.5 36.9 + - - -
152A TYR* 3.1 32.0 - - + +
153A ARG 4.9 0.9 - - - -
154A GLY* 3.9 13.6 - - - +
157A LEU* 3.7 25.9 - - - +
217A PHE 2.9 16.2 + - - +
218A VAL* 3.4 36.4 + - - +
220A ALA* 1.3 75.9 - - - +
222A SER* 1.3 62.6 + - - +
224A VAL* 3.9 3.7 - - + +
225A GLN* 2.9 64.5 + - + +
466A ARG* 6.1 2.6 - - - +
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Residues in contact with SER 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A VAL* 2.5 27.2 + - - +
219A ALA* 3.6 4.0 - - - -
220A ALA 3.2 0.2 - - - -
221A ARG* 1.3 81.7 + - - +
223A PHE* 1.3 57.9 + - - +
225A GLN* 3.8 9.0 - - - +
226A GLY* 2.9 22.9 + - - -
300A ILE* 4.7 0.4 - - - -
463A MET* 4.2 3.1 - - - +
466A ARG* 4.3 7.5 + - - +
467A LEU* 3.5 33.6 - - - +
470A ALA* 3.5 20.6 - - - +
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Residues in contact with PHE 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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107A PHE* 3.8 43.3 - + + -
111A PHE* 5.0 1.3 - + + -
219A ALA 3.0 13.8 + - - +
220A ALA 3.1 7.2 + - - +
222A SER* 1.3 74.1 - - - +
224A VAL* 1.3 67.7 + - - +
226A GLY* 3.1 2.6 + - - -
227A LEU* 3.0 54.7 + - + +
297A MET* 3.2 43.5 - - + +
300A ILE* 3.6 13.7 - - + -
301A THR* 3.6 15.9 - - + -
304A PHE* 4.3 10.5 - + + -
382A ALA* 4.4 13.5 - - + -
386A LEU* 4.8 5.8 - - + -
467A LEU* 4.0 5.9 - - - +
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Residues in contact with VAL 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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104A LEU* 3.2 29.3 - - + +
107A PHE* 4.6 6.1 - - + -
108A ASP* 4.4 29.4 - - + +
111A PHE* 4.0 14.1 - - + -
152A TYR* 3.5 23.3 - - + +
220A ALA 3.0 17.3 + - - +
221A ARG* 4.0 5.6 - - + +
223A PHE* 1.3 76.1 - - + +
225A GLN* 1.3 64.0 + - - +
227A LEU* 3.2 5.5 + - - -
228A GLY* 2.9 19.6 + - - -
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Residues in contact with GLN 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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153A ARG 5.7 0.8 + - - -
154A GLY* 5.3 3.2 - - - -
221A ARG* 2.9 59.6 + - + +
222A SER* 3.8 6.2 - - - +
224A VAL* 1.3 77.2 - - + +
226A GLY* 1.3 57.8 + - - +
228A GLY* 3.4 2.4 + - - -
229A VAL* 2.9 34.2 + - + +
463A MET* 3.3 18.4 - - + +
466A ARG* 2.9 36.3 + - - +
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Residues in contact with GLY 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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222A SER 2.9 15.8 + - - -
223A PHE 3.1 4.4 + - - -
225A GLN* 1.3 74.7 - - - +
227A LEU* 1.3 64.4 + - - +
229A VAL* 3.2 2.3 + - - +
230A ALA* 2.9 24.8 + - - +
293A LEU* 4.1 2.8 - - - +
297A MET* 3.4 19.2 - - - +
463A MET* 3.8 18.8 - - - -
467A LEU* 4.4 1.6 - - - -
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Residues in contact with LEU 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 4.5 21.8 - - + +
103A GLN* 3.7 18.4 - - + +
104A LEU* 3.6 39.0 - - + +
107A PHE* 4.5 2.9 - - + -
223A PHE* 3.0 48.6 + - + +
224A VAL* 3.6 8.5 - - - +
226A GLY* 1.3 74.8 - - - +
228A GLY* 1.3 58.1 + - - +
230A ALA* 3.4 5.0 + - - +
231A SER* 2.9 29.6 + - - -
297A MET* 3.5 22.3 - - + -
382A ALA* 6.3 0.2 - - + -
386A LEU* 4.7 8.3 - - + -
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Residues in contact with GLY 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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104A LEU* 3.4 18.1 - - - +
224A VAL 2.9 12.0 + - - -
225A GLN* 3.7 3.4 - - - -
227A LEU* 1.3 76.8 - - - +
229A VAL* 1.3 56.3 + - - +
231A SER* 3.4 8.2 + - - -
232A ASP* 2.9 35.2 + - - +
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Residues in contact with VAL 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A GLN 2.9 20.0 + - - +
226A GLY 3.2 3.3 + - - +
228A GLY* 1.3 73.9 - - - +
230A ALA* 1.3 66.1 + - - +
232A ASP* 3.2 9.2 + - + +
233A VAL* 2.9 28.2 + - + +
293A LEU* 4.3 2.2 - - + -
459A GLN* 4.6 17.3 - - + +
460A LEU* 4.2 19.5 - - + -
463A MET* 3.6 40.6 - - + -
466A ARG* 5.6 1.3 - - - +
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Residues in contact with ALA 230 (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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100A LEU* 3.8 21.3 - - + -
226A GLY 2.9 16.7 + - - +
227A LEU* 3.7 6.3 - - - +
229A VAL* 1.3 76.1 - - - +
231A SER* 1.3 62.9 + - - +
233A VAL* 3.2 5.6 + - - +
234A VAL* 3.0 28.1 + - - +
290A TRP* 3.9 20.6 - - + -
293A LEU* 4.1 14.4 - - + -
294A LEU* 5.2 0.7 - - + -
297A MET* 4.8 6.5 - - + -
460A LEU* 5.0 0.2 - - - -
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Residues in contact with SER 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A GLN* 4.2 20.2 + - - +
100A LEU* 3.7 20.8 - - - +
101A ALA* 4.8 9.4 + - - +
104A LEU* 6.4 2.0 - - - -
227A LEU 2.9 14.1 + - - -
228A GLY* 3.4 13.0 - - - -
230A ALA* 1.3 77.3 - - - +
232A ASP* 1.3 57.5 + - - +
234A VAL* 3.4 4.1 + - - +
235A ARG* 2.9 31.9 + - - +
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Residues in contact with ASP 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A GLY 2.9 20.5 + - - +
229A VAL* 3.2 9.0 + - + +
231A SER* 1.3 73.8 + - - +
233A VAL* 1.3 61.7 + - + +
235A ARG* 3.2 32.1 + - - +
236A LYS* 2.9 48.1 + - - +
456A GLN* 4.4 0.9 - - - -
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Residues in contact with VAL 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A VAL* 2.9 21.9 + - + +
230A ALA* 3.5 8.1 - - - +
232A ASP* 1.3 76.4 - - + +
234A VAL* 1.3 63.5 + - - +
236A LYS* 3.9 0.7 - - - +
237A VAL* 2.9 36.9 + - + +
286A LEU* 4.5 7.6 - - + -
290A TRP* 4.7 3.6 - - + -
393A TRP* 4.4 14.4 - - + -
456A GLN* 3.4 40.6 - - + +
459A GLN* 4.6 4.3 - - + -
460A LEU* 3.6 35.2 - - + -
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Residues in contact with VAL 234 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A SER* 4.0 19.9 + - - +
96A LEU* 3.6 36.8 - - + -
97A GLN* 3.8 20.4 - - + +
100A LEU* 4.2 3.4 - - + -
230A ALA 3.0 16.2 + - - +
231A SER* 3.6 7.0 - - - +
233A VAL* 1.3 75.8 - - - +
235A ARG* 1.3 64.3 + - - +
237A VAL* 3.9 0.9 - - - +
238A ALA* 2.9 26.7 + - - +
290A TRP* 3.7 18.2 - - + -
392A PHE* 5.3 1.1 - - + -
393A TRP* 4.3 16.1 - - + -
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Residues in contact with ARG 235 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A GLN* 3.3 33.9 + - + +
231A SER* 2.9 17.8 + - - +
232A ASP* 3.3 27.1 + - - +
234A VAL* 1.3 77.7 - - - +
236A LYS* 1.3 96.3 + - - +
238A ALA* 3.4 12.5 + - - +
239A GLN* 3.8 13.0 + - - +
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Residues in contact with LYS 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A ASP* 2.9 34.4 + - - +
235A ARG* 1.3 102.5 - - - +
237A VAL* 1.3 67.1 + - - +
239A GLN* 3.2 19.4 + - - +
240A VAL* 4.0 6.8 + - - +
452A THR* 4.3 11.8 - - + +
456A GLN* 3.3 38.8 - - + +
459A GLN* 6.2 2.5 - - - -
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Residues in contact with VAL 237 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A VAL* 2.9 24.1 + - + +
234A VAL 4.1 0.4 - - - +
236A LYS* 1.3 76.3 - - - +
238A ALA* 1.3 64.1 + - - +
240A VAL* 3.1 25.4 + - - +
283A GLN* 4.1 13.8 + - + +
286A LEU* 3.6 22.9 - - + -
393A TRP* 3.7 30.5 - - + -
452A THR* 5.1 0.7 - - + -
453A ILE* 3.6 24.9 - - + -
456A GLN* 3.8 19.1 - - + -
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Residues in contact with ALA 238 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ARG* 5.4 11.6 + - + +
93A SER* 3.3 33.7 - - - +
97A GLN* 4.3 5.8 - - - +
234A VAL 2.9 18.0 + - - +
235A ARG 3.5 8.5 - - - +
236A LYS 3.2 0.4 - - - -
237A VAL* 1.3 79.5 - - - +
239A GLN* 1.3 67.3 + - - +
240A VAL 3.3 5.3 + - - +
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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