Contacts of the helix formed by residues 199 - 229 (chain A) in PDB entry 1HE1
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 199 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A ASP 3.6 2.8 + - - -
198A ALA* 1.3 78.2 - - - +
200A PRO* 1.3 76.7 - - - +
201A GLU* 3.5 17.5 + - - +
202A LEU* 3.2 23.3 + - - +
203A ARG* 3.1 20.4 + - - -
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Residues in contact with PRO 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A PRO* 4.9 2.6 - - + +
199A SER* 1.3 84.8 - - - +
201A GLU* 1.3 77.4 + - + +
203A ARG* 3.4 29.3 + - + +
204A ARG* 3.1 23.0 + - - +
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Residues in contact with GLU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A SER* 3.1 14.1 + - - +
200A PRO* 1.3 97.4 - - + +
202A LEU* 1.3 64.5 + - - +
204A ARG* 3.4 8.6 + - - +
205A GLU* 3.1 22.6 + - - +
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Residues in contact with LEU 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A GLY* 4.3 16.6 - - - +
194A LEU* 4.0 28.5 - - + -
198A ALA* 3.8 21.5 - - + -
199A SER* 3.2 19.9 + - - +
201A GLU* 1.3 76.9 - - - +
203A ARG* 1.3 60.5 + - - +
205A GLU* 3.2 18.9 + - - +
206A ILE* 2.8 50.0 + - + +
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Residues in contact with ARG 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A PRO* 3.6 32.9 + - + +
129A GLU* 5.0 5.9 - - - +
131A LEU* 3.9 15.9 - - + +
132A ALA* 3.6 28.6 - - - +
195A VAL* 4.8 4.5 - - + +
198A ALA* 3.7 27.0 + - + -
199A SER 3.1 15.6 + - - +
200A PRO* 3.4 41.1 - - - +
202A LEU* 1.3 76.8 - - - +
204A ARG* 1.3 56.8 + - - +
206A ILE* 3.8 3.5 - - + +
207A THR* 2.8 35.1 + - - -
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Residues in contact with ARG 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU 4.8 0.2 + - - -
128A PRO* 3.6 32.6 - - + +
200A PRO 3.1 14.1 + - - +
201A GLU* 3.5 12.1 - - - +
202A LEU 3.2 0.2 - - - -
203A ARG* 1.3 74.6 - - - +
205A GLU* 1.3 61.0 + - - +
207A THR* 3.2 28.9 + - - +
208A ASP* 2.7 59.5 + - - +
211A HIS* 4.1 9.3 - - - -
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Residues in contact with GLU 205 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A GLY* 4.2 13.9 - - - -
201A GLU 3.1 14.8 + - - +
202A LEU* 3.5 21.0 - - - +
204A ARG* 1.3 78.9 - - - +
206A ILE* 1.3 62.3 + - - +
208A ASP* 3.4 6.5 + - - +
209A GLN* 3.1 49.7 + - + +
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Residues in contact with ILE 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LEU* 3.5 23.3 - - + -
176A ILE* 3.7 15.8 - - + +
177A GLY* 4.1 20.9 - - - +
184A TRP* 3.6 33.7 - - + -
194A LEU* 4.1 8.1 - - + -
195A VAL* 5.4 1.8 - - + -
198A ALA* 5.1 5.2 - - + -
202A LEU* 2.8 40.0 + - + +
203A ARG* 3.8 4.9 - - + +
205A GLU* 1.3 73.9 - - - +
207A THR* 1.3 66.2 + - - +
209A GLN* 3.2 11.2 + - - +
210A LEU* 3.0 31.8 + - + +
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Residues in contact with THR 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU* 2.9 36.7 - - + +
127A THR 3.8 5.7 + - - -
128A PRO* 3.4 18.2 - - - +
131A LEU* 3.8 9.9 - - - +
203A ARG 2.8 22.3 + - - -
204A ARG* 3.2 24.2 - - - +
206A ILE* 1.3 77.2 - - - +
208A ASP* 1.3 63.0 + - - +
210A LEU* 3.1 10.2 + - - +
211A HIS* 2.9 28.2 + - + +
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Residues in contact with ASP 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A ARG* 2.7 62.2 + - - +
205A GLU* 3.8 6.9 - - - +
207A THR* 1.3 74.2 - - - +
209A GLN* 1.3 63.5 + - + +
211A HIS* 3.2 8.9 + - - +
212A GLN* 3.0 40.9 + - - +
230A NI 4.1 11.3 - - - +
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Residues in contact with GLN 209 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ARG* 3.3 22.6 + - - +
175A SER 3.6 18.4 + - - -
176A ILE* 3.2 21.1 - - + +
177A GLY* 2.8 30.1 + - - +
205A GLU* 3.1 34.7 + - + +
206A ILE* 3.2 7.6 + - - +
208A ASP* 1.3 76.8 - - + +
210A LEU* 1.3 58.5 + - - +
212A GLN* 3.2 7.5 + - - +
213A VAL* 2.9 26.9 + - - +
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Residues in contact with LEU 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A LEU* 4.5 19.4 - - + +
126A LEU* 4.0 26.7 - - + -
131A LEU* 4.7 5.8 - - + -
145A LEU* 4.0 25.1 - - + -
176A ILE* 4.4 12.8 - - + -
181A LEU* 3.9 27.6 - - + -
184A TRP* 5.6 3.8 - - + -
206A ILE* 3.0 33.8 + - + +
207A THR* 3.1 8.5 + - - +
209A GLN* 1.3 74.6 - - - +
211A HIS* 1.3 65.8 + - + +
213A VAL* 3.3 8.1 + - + +
214A MET* 3.2 26.0 + - - +
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Residues in contact with HIS 211 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A LEU 3.1 21.8 - - - -
124A ALA* 3.3 24.4 + - - +
125A THR* 4.7 2.2 - - - -
126A LEU* 2.8 32.3 + - + -
204A ARG* 4.1 6.1 - - - -
207A THR* 2.9 27.4 + - + +
208A ASP* 3.2 7.5 + - - +
210A LEU* 1.3 77.0 - - + +
212A GLN* 1.3 65.6 + - + +
214A MET* 3.3 13.9 + - - +
215A SER* 3.6 9.5 + - - -
230A NI 2.1 45.0 - - + +
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Residues in contact with GLN 212 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ARG* 3.1 29.2 + - - +
208A ASP* 3.0 30.0 + - - +
209A GLN* 3.5 7.6 - - - +
210A LEU 3.2 0.2 - - - -
211A HIS* 1.3 78.4 - - + +
213A VAL* 1.3 61.7 + - - +
215A SER* 3.1 22.1 + - - -
216A GLU* 3.5 9.9 + - - +
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Residues in contact with VAL 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LEU* 4.2 11.9 - - + -
171A LEU* 4.3 8.5 - - + +
174A ARG* 3.9 28.9 - - - +
176A ILE* 4.0 13.9 - - + -
181A LEU* 3.9 29.8 - - + -
209A GLN 2.9 18.7 + - - +
210A LEU* 3.5 12.1 - - + +
212A GLN* 1.3 75.5 - - - +
214A MET* 1.3 61.9 + - - +
216A GLU* 3.0 9.6 + - - +
217A VAL* 2.9 38.0 + - + +
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Residues in contact with MET 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A LEU 4.7 2.7 - - - +
120A ALA* 3.5 36.3 - - + +
121A SER* 4.3 6.3 - - - +
123A LEU* 3.9 28.0 - - + -
124A ALA* 3.9 23.1 - - + +
148A LEU* 4.6 4.3 - - - -
210A LEU 3.2 13.7 + - - +
211A HIS 3.6 8.1 - - - +
212A GLN 3.3 0.6 - - - -
213A VAL* 1.3 84.0 - - - +
215A SER* 1.3 62.0 + - - +
217A VAL* 3.4 32.2 + - + +
218A ALA* 3.3 19.4 + - - +
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Residues in contact with SER 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A HIS 3.6 5.9 + - - -
212A GLN* 3.1 15.6 + - - -
214A MET* 1.3 76.9 - - - +
216A GLU* 1.3 69.4 + - - +
218A ALA* 3.3 19.9 - - - +
219A LEU* 3.6 10.2 + - - +
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Residues in contact with GLU 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLN* 3.2 21.0 + - - +
171A LEU* 3.7 23.6 - - + -
174A ARG* 4.5 11.7 - - - +
212A GLN 3.5 10.5 + - - +
213A VAL 3.0 7.4 + - - +
215A SER* 1.3 80.2 - - - +
217A VAL* 1.3 67.0 + - - +
218A ALA 3.1 0.4 - - - -
219A LEU* 3.1 26.1 + - - +
220A LEU* 3.0 18.2 + - - +
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Residues in contact with VAL 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A LEU* 4.0 34.3 - - + +
148A LEU* 4.0 22.9 - - + -
152A LEU* 5.0 1.6 - - + -
171A LEU* 4.1 12.6 - - + -
213A VAL* 2.9 24.6 + - + +
214A MET* 3.5 31.2 - - + +
215A SER 3.3 0.2 - - - -
216A GLU* 1.3 76.9 - - - +
218A ALA* 1.3 58.0 + - - +
220A LEU* 3.7 7.0 - - + +
221A ARG* 2.8 32.6 + - + +
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Residues in contact with ALA 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A MET 3.3 9.8 + - - +
215A SER* 3.3 14.1 - - - +
216A GLU 3.1 0.4 - - - -
217A VAL* 1.3 80.4 - - - +
219A LEU* 1.3 63.9 - - + +
221A ARG* 3.4 7.4 + - - +
222A GLN* 3.1 23.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLN* 4.0 13.2 - - - +
215A SER 3.6 10.3 + - - +
216A GLU* 3.1 34.4 + - - +
218A ALA* 1.3 80.3 - - + +
220A LEU* 1.3 63.5 + - - +
222A GLN* 3.2 28.1 + - - +
223A ALA* 3.2 13.0 + - - +
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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
----------------------------------------------------------
117A LEU* 5.3 3.1 - - + -
152A LEU* 3.5 31.6 - - + -
155A ILE* 3.9 24.9 - - + -
164A SER* 3.7 39.5 - - - +
167A GLN* 3.7 26.1 - - + +
168A ALA* 4.1 15.5 - - + +
171A LEU* 4.3 6.5 - - + -
216A GLU 3.0 8.2 + - - +
217A VAL* 3.7 8.1 - - - +
219A LEU* 1.3 76.4 - - - +
221A ARG* 1.3 58.3 + - - +
223A ALA* 3.2 4.0 + - + +
224A VAL* 2.9 33.2 + - + +
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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
----------------------------------------------------------
114A LEU* 3.2 37.2 + - + +
115A LYS* 6.1 0.4 - - - +
117A LEU* 3.9 18.7 - - + +
118A ASP* 2.4 45.4 + - - +
217A VAL* 2.8 24.9 + - + +
218A ALA* 3.6 7.2 - - - +
220A LEU* 1.3 72.6 - - - +
222A GLN* 1.3 60.2 + - - +
224A VAL* 3.2 5.9 + - - +
225A GLU* 2.8 66.4 + - + +
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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
----------------------------------------------------------
218A ALA 3.1 13.6 + - - +
219A LEU* 3.2 25.6 + - - +
221A ARG* 1.3 76.5 - - - +
223A ALA* 1.3 62.2 + - - +
225A GLU* 4.1 11.7 - - - +
226A SER* 3.2 22.3 + - - -
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Residues in contact with ALA 223 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A VAL* 5.9 1.6 - - + +
164A SER* 3.7 19.7 - - - +
167A GLN* 5.6 2.5 - - - +
219A LEU 3.2 8.4 + - - +
220A LEU* 3.6 10.3 - - + +
221A ARG 3.2 0.4 - - - -
222A GLN* 1.3 81.7 - - - +
224A VAL* 1.3 58.3 + - - +
226A SER* 3.3 7.6 + - - -
227A GLU* 3.0 26.0 + - - +
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Residues in contact with VAL 224 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 3.8 31.9 - - + +
113A THR* 4.6 2.7 - - - +
114A LEU* 3.8 26.0 - - + -
155A ILE* 4.0 35.2 - - + -
164A SER* 4.6 6.5 - - - +
220A LEU* 2.9 25.9 + - + +
221A ARG* 3.8 3.6 - - - +
223A ALA* 1.3 75.0 - - - +
225A GLU* 1.3 59.9 + - - +
227A GLU* 3.1 10.9 + - - +
228A VAL* 2.9 29.3 + - + +
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Residues in contact with GLU 225 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LEU* 3.9 22.0 - - + +
221A ARG* 2.8 69.0 + - + +
222A GLN* 4.1 9.6 - - - +
224A VAL* 1.3 72.5 - - - +
226A SER* 1.3 62.1 + - - +
228A VAL* 3.5 3.6 + - - +
229A SER* 3.2 25.3 + - - -
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Residues in contact with SER 226 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A GLN 3.2 12.9 + - - -
223A ALA* 3.4 11.7 - - - -
224A VAL 3.1 0.4 - - - -
225A GLU* 1.3 76.9 - - - +
227A GLU* 1.3 63.9 + - - +
229A SER* 3.3 22.8 + - - -
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Residues in contact with GLU 227 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 3.3 28.2 - - + +
159A SER* 2.8 22.3 + - - -
160A GLN* 2.8 37.6 + - - +
161A VAL* 3.8 20.3 - - + +
164A SER* 4.7 2.8 + - - -
223A ALA 3.0 13.2 + - - +
224A VAL* 3.1 12.2 + - - +
226A SER* 1.3 78.6 - - - +
228A VAL* 1.3 62.7 + - - +
229A SER 3.4 3.5 + - - -
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Residues in contact with VAL 228 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 4.1 24.5 - - + -
111A PRO* 4.1 39.9 - - + -
114A LEU* 4.4 8.1 - - + -
224A VAL* 2.9 22.8 + - + +
225A GLU* 3.8 7.4 - - - +
227A GLU* 1.3 78.3 - - - +
229A SER* 1.3 61.6 + - - +
----------------------------------------------------------
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Residues in contact with SER 229 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A GLU 3.2 14.1 + - - -
226A SER* 3.3 20.6 + - - -
227A GLU 3.3 3.7 - - - -
228A VAL* 1.3 82.2 - - - +
----------------------------------------------------------
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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