Contacts of the helix formed by residues 214 - 238 (chain A) in PDB entry 1ESE
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 GLN 214 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A THR* 2.8 35.2 + - - +
195A THR* 4.5 2.1 + - - +
197A CYS* 4.6 0.8 - - - +
198A LEU* 3.2 50.1 - - + +
212A ILE 3.2 4.4 + - - +
213A PRO* 1.3 65.8 - - - +
215A ASP* 1.3 57.3 + - + +
216A ALA 3.2 4.9 - - - -
217A LEU* 3.2 28.8 - - - +
218A PRO* 3.4 7.3 - - - +
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Residues in contact with ASP 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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139A ALA 4.7 5.9 - - - +
142A GLY* 4.5 14.3 + - - -
143A GLU* 5.3 5.4 + - - +
213A PRO* 3.6 19.1 - - - +
214A GLN* 1.3 79.3 - - + +
216A ALA* 1.3 66.3 + - - +
217A LEU 3.3 0.4 - - - -
218A PRO* 3.1 14.6 - - - +
219A VAL* 4.0 11.3 - - - +
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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
----------------------------------------------------------
117A CYS* 4.3 0.7 - - - -
141A CYS* 3.1 36.1 - - - -
142A GLY* 4.0 11.9 - - - +
212A ILE* 3.8 7.6 - - + -
213A PRO* 2.6 26.8 + - + +
215A ASP* 1.3 81.1 - - - +
217A LEU* 1.3 63.0 + - - +
219A VAL* 3.1 17.4 + - - +
220A LEU* 3.5 12.4 + - + +
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Residues in contact with LEU 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A VAL* 3.8 17.3 - - + +
194A THR* 3.3 20.9 - - + +
197A CYS* 3.3 42.2 - - + -
209A PHE* 4.1 26.2 - - + -
212A ILE* 3.9 23.3 - - + +
213A PRO 3.2 10.8 + - - +
214A GLN* 3.2 24.7 - - - +
216A ALA* 1.3 75.0 - - - +
218A PRO* 1.3 58.5 - - - +
220A LEU* 3.3 24.6 - - + +
221A ASP 3.4 5.0 + - - -
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Residues in contact with PRO 218 (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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190A VAL* 5.4 0.4 - - + -
194A THR* 4.0 16.1 - - - +
214A GLN 3.4 12.8 - - - +
215A ASP* 3.1 25.6 - - - +
217A LEU* 1.3 85.3 - - + +
219A VAL* 1.3 59.8 + - + +
221A ASP* 3.9 8.1 - - + +
222A GLN* 3.3 21.1 + - - +
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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
----------------------------------------------------------
141A CYS* 6.4 0.7 - - - -
142A GLY* 3.8 26.2 - - - +
145A PHE* 3.9 31.0 - - + -
146A GLY* 4.6 6.7 - - - +
154A LEU* 6.0 0.7 - - + -
215A ASP 4.0 15.3 - - - +
216A ALA* 3.1 8.0 + - - +
218A PRO* 1.3 74.3 - - + +
220A LEU* 1.3 57.5 + - + +
222A GLN* 3.1 17.8 + - + +
223A ILE* 2.6 48.3 + - + +
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Residues in contact with LEU 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A PHE* 3.6 27.5 - - + -
113A ILE* 3.5 33.4 - - + +
114A LEU* 3.9 23.6 - - + -
117A CYS* 5.4 7.4 - - - -
145A PHE* 6.0 0.2 - - + -
189A LEU* 6.3 0.2 - - + -
190A VAL* 4.5 14.8 - - + -
209A PHE* 5.1 6.1 - - + -
212A ILE* 4.6 21.1 - - + -
216A ALA 3.5 7.6 + - - +
217A LEU* 3.3 18.8 - - + +
219A VAL* 1.3 79.8 - - + +
221A ASP* 1.3 59.9 + - - +
223A ILE* 3.4 9.9 + - + +
224A GLN* 3.1 20.4 + - - +
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Residues in contact with ASP 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A ARG* 2.8 27.2 + - - +
190A VAL* 3.0 35.1 - - + +
191A PRO 4.7 3.1 - - - +
192A GLU* 4.9 1.6 - - - -
217A LEU 3.4 8.4 + - - +
218A PRO* 3.9 10.5 - - + +
219A VAL 3.3 0.4 - - - -
220A LEU* 1.3 73.8 - - - +
222A GLN* 1.3 56.7 - - - +
224A GLN* 2.8 9.4 + - - +
225A LYS* 2.6 35.4 + - - +
246A TYR* 3.0 22.9 + - - -
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Residues in contact with GLN 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A GLY* 5.9 2.4 - - - -
154A LEU* 5.4 4.9 - - - +
218A PRO 3.3 13.0 + - - +
219A VAL* 3.2 22.8 - - - +
221A ASP* 1.3 77.4 + - - +
223A ILE* 1.3 67.9 + - - +
225A LYS* 3.2 17.8 + - - +
226A ARG* 3.3 27.0 + - - +
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Residues in contact with ILE 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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108A LEU* 3.7 26.2 - - + +
110A PHE* 4.2 5.6 - - + -
113A ILE* 4.1 27.4 - - + -
145A PHE* 4.5 7.0 - - + -
154A LEU* 3.8 42.6 - - + -
158A PHE* 3.8 5.9 - - + -
219A VAL* 2.6 46.3 + - + +
220A LEU* 3.5 9.6 - - + +
222A GLN* 1.3 79.1 - - - +
224A GLN* 1.3 59.3 + - - +
226A ARG* 3.5 6.2 - - - +
227A LEU* 3.3 22.0 + - - +
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Residues in contact with GLN 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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110A PHE* 4.6 16.5 - - + -
186A TYR* 3.6 25.2 + - + +
187A PRO 2.8 26.4 + - - -
189A LEU* 3.1 39.4 + - + +
220A LEU 3.1 12.1 + - - +
221A ASP* 2.8 16.0 + - - +
223A ILE* 1.3 70.7 - - - +
225A LYS* 1.3 68.5 + - - +
227A LEU* 3.8 10.5 - - + +
228A ASN* 3.0 23.6 + - - +
246A TYR* 3.7 20.8 - - + -
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Residues in contact with LYS 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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221A ASP* 2.6 16.2 + - - +
222A GLN* 3.4 13.9 - - - +
224A GLN* 1.3 72.5 - - - +
226A ARG* 1.3 49.7 + - - +
228A ASN* 2.9 12.3 - - - +
229A ASP* 2.8 59.0 + - - +
246A TYR* 3.7 33.8 - - + +
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Residues in contact with ARG 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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154A LEU* 4.2 12.7 - - - +
155A ASP* 3.2 29.1 + - - +
158A PHE* 2.9 60.3 - - + +
222A GLN* 3.3 22.0 + - - +
223A ILE* 3.5 7.2 - - - +
225A LYS* 1.3 71.1 - - - +
227A LEU* 1.3 55.4 + - - +
228A ASN 3.1 1.1 - - - -
229A ASP* 3.1 9.2 + - - +
230A ALA* 2.5 38.1 + - - +
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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
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104A GLY 4.4 10.5 - - - +
105A GLY* 4.0 15.3 - - - -
108A LEU* 4.4 16.8 - - + -
110A PHE* 5.8 4.0 - - + -
158A PHE* 3.4 15.8 - - + -
161A VAL* 4.1 25.6 - - + -
186A TYR* 3.7 33.4 - - + -
223A ILE 3.3 13.8 + - - +
224A GLN* 3.8 13.7 - - + +
226A ARG* 1.3 81.4 - - - +
228A ASN* 1.3 62.0 + - - +
230A ALA* 3.1 0.9 + - - +
231A MET* 3.1 33.8 + - + +
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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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185A GLY* 4.6 8.7 - - - -
186A TYR* 4.6 3.4 + - - +
224A GLN 3.0 14.4 + - - +
225A LYS* 2.9 18.6 + - - +
227A LEU* 1.3 71.8 - - - +
229A ASP* 1.3 72.5 + - - +
231A MET* 3.2 9.6 + - - +
232A LYS* 2.9 26.8 + - - +
242A PHE* 3.4 26.2 - - - -
244A ASP* 3.2 19.8 + - - +
246A TYR* 3.7 33.2 - - + +
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Residues in contact with ASP 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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225A LYS* 2.8 52.3 + - - +
226A ARG* 3.7 9.8 + - - +
228A ASN* 1.3 81.0 - - - +
230A ALA* 1.3 56.0 + - - +
232A LYS* 3.4 20.6 + - + +
233A LYS* 3.1 28.2 + - - +
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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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158A PHE* 4.5 11.9 - - + +
161A VAL* 4.3 20.4 - - + -
162A GLY* 5.7 4.8 - - - +
165A LEU* 4.0 2.9 - - + +
226A ARG 2.5 20.7 + - - +
227A LEU* 3.1 9.4 + - - +
229A ASP* 1.3 72.0 - - - +
231A MET* 1.3 56.6 + - - +
233A LYS* 3.5 8.8 + - - +
234A ALA* 3.0 29.1 + - - +
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Residues in contact with MET 231 (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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103A LEU 3.4 25.8 - - - +
104A GLY* 5.3 0.7 - - - -
165A LEU* 3.7 23.6 - - + -
183A LEU* 3.7 20.3 - - + +
184A VAL 3.4 26.7 - - - +
185A GLY* 4.5 2.9 - - - -
186A TYR* 3.6 31.2 - - + -
227A LEU* 3.1 27.1 + - + +
228A ASN* 3.6 9.2 - - - +
230A ALA* 1.3 71.1 - - - +
232A LYS* 1.3 65.1 + - - +
234A ALA* 3.3 1.6 + - - +
235A ALA* 2.9 27.4 + - - +
242A PHE* 3.6 15.9 - - + -
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Residues in contact with LYS 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* 2.9 16.0 + - - +
229A ASP* 3.7 25.1 - - - +
231A MET* 1.3 78.6 - - - +
233A LYS* 1.3 62.9 + - - +
235A ALA* 3.4 1.9 + - - +
236A ALA* 3.1 21.7 + - - +
242A PHE* 3.7 31.8 - - + +
244A ASP* 3.0 28.5 + - - +
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Residues in contact with LYS 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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162A GLY* 6.5 1.8 - - - -
229A ASP 3.1 13.6 + - - +
230A ALA* 3.5 7.4 + - - +
232A LYS* 1.3 73.5 - - - +
234A ALA* 1.3 58.2 + - - +
236A ALA* 3.0 6.0 + - + -
237A ASP* 2.7 64.2 + - - +
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Residues in contact with ALA 234 (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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162A GLY* 5.1 4.3 - - - +
165A LEU* 3.7 35.2 - - + -
166A GLU* 4.8 5.2 - - + +
169A LEU* 3.1 15.3 - - + +
183A LEU* 4.9 2.0 - - + -
230A ALA 3.0 18.2 + - - +
231A MET* 3.6 4.7 - - - +
232A LYS 3.2 0.2 - - - -
233A LYS* 1.3 78.8 - - - +
235A ALA* 1.3 57.5 + - - +
237A ASP* 3.7 5.1 - - - +
238A GLY* 2.9 23.7 + - - -
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Residues in contact with ALA 235 (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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169A LEU* 3.6 11.2 - - - +
183A LEU* 4.3 9.4 - - + +
231A MET 2.9 17.0 + - - +
232A LYS 3.9 1.8 - - - +
234A ALA* 1.3 76.5 - - - +
236A ALA* 1.3 66.1 + - - +
239A GLY 3.1 2.6 + - - -
240A ALA* 3.0 48.1 + - + +
241A ASP 4.3 0.7 - - - +
242A PHE* 3.8 25.6 - - + +
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Residues in contact with ALA 236 (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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232A LYS 3.1 13.5 + - - +
233A LYS* 3.0 12.4 + - - +
235A ALA* 1.3 80.3 - - - +
237A ASP* 1.3 66.1 - - - +
238A GLY 3.2 0.5 + - - -
239A GLY* 3.6 6.9 + - - -
240A ALA 4.9 1.6 - - - -
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Residues in contact with ASP 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A LYS* 2.7 56.2 + - - +
234A ALA* 3.7 5.3 - - - +
236A ALA* 1.3 77.5 - - - +
238A GLY* 1.3 54.9 + - - +
239A GLY 3.6 0.4 - - - -
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Residues in contact with GLY 238 (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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166A GLU* 6.5 0.2 - - - -
169A LEU* 3.9 15.0 - - - +
170A ASP* 5.4 6.9 - - - +
181A ARG* 2.6 33.9 + - - -
234A ALA 2.9 17.7 + - - -
235A ALA 3.9 0.4 - - - -
236A ALA 3.2 0.4 + - - -
237A ASP* 1.3 76.0 - - - +
239A GLY* 1.3 54.6 + - - +
240A ALA 3.3 2.5 - - - -
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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