Contacts of the helix formed by residues 216 - 246 (chain A) in PDB entry 1QUU
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 THR 216 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A PHE* 4.2 4.7 - - - -
213A SER 5.9 0.4 - - - +
214A THR 3.6 12.6 - - - +
215A VAL* 1.3 80.3 - - - +
217A MET* 1.3 60.8 + - - +
218A ASP* 3.2 16.6 + - - +
219A GLU* 2.7 36.0 + - - +
220A LEU* 3.1 23.2 + - - +
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Residues in contact with MET 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A PHE* 3.5 21.4 - - + -
188A ILE* 3.1 27.8 - - + +
189A MET* 3.0 63.4 - - + +
192A GLN* 4.0 24.6 + - + +
216A THR* 1.3 73.0 - - - +
218A ASP* 1.3 68.6 + - - +
220A LEU* 3.2 18.5 + - - -
221A ARG* 3.1 18.0 + - - +
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Residues in contact with ASP 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A THR* 3.2 9.3 + - - +
217A MET* 1.3 76.6 - - - +
219A GLU* 1.3 68.7 + - - +
221A ARG* 2.8 24.7 + - - +
222A THR* 3.2 15.6 + - - -
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Residues in contact with GLU 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A THR 3.0 6.4 - - - +
215A VAL* 2.9 18.6 - - + +
216A THR* 2.7 49.1 + - - +
218A ASP* 1.3 82.3 - - - +
220A LEU* 1.3 59.9 + - - +
221A ARG 3.2 0.2 - - - -
222A THR* 3.6 11.6 - - + -
223A LYS* 3.4 36.2 + - - +
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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
----------------------------------------------------------
134A PHE* 4.5 4.0 - - + -
138A ALA* 4.0 30.7 - - + +
141A PHE* 3.4 31.6 - - + -
142A ASN* 5.3 1.6 - - - +
145A MET* 3.0 29.0 - - + +
185A ARG* 4.7 8.1 - - + -
188A ILE* 4.2 14.6 - - + -
215A VAL* 4.1 18.2 - - + -
216A THR 3.1 16.9 + - - +
217A MET* 3.2 23.8 + - + +
218A ASP 3.0 1.2 - - - -
219A GLU* 1.3 77.2 - - - +
221A ARG* 1.3 62.0 + - - +
223A LYS* 4.1 1.8 - - - -
224A TRP* 3.7 3.3 + - - +
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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
----------------------------------------------------------
185A ARG* 2.9 35.9 - - - +
189A MET* 3.4 28.7 - - + +
217A MET* 3.1 9.4 + - - +
218A ASP* 2.8 11.0 + - - +
220A LEU* 1.3 79.3 - - - +
222A THR* 1.3 67.6 + - - +
223A LYS 3.1 1.3 - - - -
224A TRP* 2.8 17.9 + - - +
225A ASP* 3.0 24.0 + - - +
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Residues in contact with THR 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A ASP* 3.2 15.0 + - - -
219A GLU* 3.6 17.0 - - - +
221A ARG* 1.3 79.3 - - - +
223A LYS* 1.3 66.6 + - + +
225A ASP* 3.2 14.2 + - - +
226A LYS* 3.2 42.5 + - + +
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Residues in contact with LYS 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A ASN* 2.5 42.3 + - - +
145A MET* 3.6 22.4 - - + -
146A GLU* 2.9 20.2 + - - +
149A MET* 4.0 18.9 - - + +
215A VAL* 4.6 8.7 - - - +
219A GLU* 3.4 23.1 + - - +
220A LEU* 5.0 0.9 - - - -
221A ARG 3.1 0.4 - - - -
222A THR* 1.3 79.9 - - + +
224A TRP* 1.3 63.7 + - - +
226A LYS* 3.1 11.3 + - - +
227A VAL* 2.9 23.9 + - - +
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Residues in contact with TRP 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A PHE* 3.9 20.4 - + - -
144A TRP* 4.1 28.5 - + - -
145A MET* 3.2 17.2 - - + -
178A LEU* 3.2 35.2 - - + -
181A ALA 4.4 0.9 - - - -
182A ASP* 3.3 38.8 + - + -
185A ARG* 3.7 39.0 - - + +
220A LEU 4.0 5.6 - - - +
221A ARG 2.8 14.7 + - - +
223A LYS* 1.3 76.1 - - - +
225A ASP* 1.3 64.8 + - - +
227A VAL* 3.3 10.6 - - + +
228A LYS* 2.9 42.3 + - + +
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Residues in contact with ASP 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A ARG* 5.2 0.9 + - - -
221A ARG* 3.0 29.0 + - - +
222A THR* 3.4 14.2 - - - +
223A LYS 3.1 0.4 - - - -
224A TRP* 1.3 81.9 - - - +
226A LYS* 1.3 67.0 + - + +
228A LYS* 3.0 12.2 + - - +
229A GLN* 2.7 36.6 + - - +
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Residues in contact with LYS 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A MET* 4.3 16.8 - - + -
222A THR* 3.2 39.2 - - + +
223A LYS* 3.1 8.0 + - - +
225A ASP* 1.3 83.3 + - + +
227A VAL* 1.3 68.5 + - - +
229A GLN* 3.1 25.7 + - - +
230A LEU* 2.8 35.9 + - + +
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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
----------------------------------------------------------
144A TRP* 4.0 24.5 - - + -
145A MET* 3.9 20.9 - - + +
148A ALA* 4.6 4.0 - - + -
149A MET* 3.8 22.0 - - + +
152A LEU* 3.9 19.0 - - + +
174A PHE* 4.8 4.0 - - + -
178A LEU* 5.5 4.3 - - + -
223A LYS 2.9 20.3 + - - +
224A TRP* 3.3 18.6 - - + +
226A LYS* 1.3 78.5 - - - +
228A LYS* 1.3 58.7 + - - +
230A LEU* 4.8 0.7 - - - -
231A VAL* 2.9 29.6 + - + +
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Residues in contact with LYS 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A LEU* 5.6 4.7 - - + -
224A TRP* 2.9 33.3 + - + +
225A ASP* 3.0 15.2 + - - +
227A VAL* 1.3 77.9 - - - +
229A GLN* 1.3 56.4 + - - +
231A VAL* 3.5 10.9 - - + +
232A PRO* 3.1 20.3 - - - +
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Residues in contact with GLN 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A ASP 2.7 18.9 + - - +
226A LYS* 3.1 25.6 + - - +
228A LYS* 1.3 71.4 - - - +
230A LEU* 1.3 84.2 + - - +
232A PRO* 3.0 21.4 - - + +
233A ILE* 3.4 20.0 - - + +
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Residues in contact with LEU 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A MET* 3.5 22.2 - - + +
152A LEU* 4.0 18.8 - - + +
153A GLN* 3.2 48.7 - - + +
226A LYS* 2.8 25.2 + - + +
227A VAL* 4.0 3.8 - - - +
228A LYS 3.3 0.4 - - - -
229A GLN* 1.3 99.9 - - - +
231A VAL* 1.3 70.9 + - - +
232A PRO* 2.7 5.2 - - - -
233A ILE* 2.7 26.3 + - + +
234A ARG* 3.1 11.4 + - - +
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Residues in contact with VAL 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A LEU* 4.3 12.5 - - + +
171A HIS* 4.7 5.6 - - + -
174A PHE* 5.0 2.2 - - + -
175A LYS* 4.1 30.1 - - + +
178A LEU* 3.7 37.7 - - + -
227A VAL* 2.9 21.3 - - + +
228A LYS* 3.5 8.7 - - - +
230A LEU* 1.3 77.9 - - - +
232A PRO* 1.3 58.2 - - + +
234A ARG* 3.5 6.5 - - - +
235A ASP* 2.7 36.9 + - - +
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Residues in contact with PRO 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 LYS 3.1 17.7 - - - +
229A GLN* 3.0 20.0 - - - +
230A LEU 3.0 3.1 - - - -
231A VAL* 1.3 89.1 - - + +
233A ILE* 1.3 68.5 + - + +
234A ARG 3.1 2.7 + - - -
235A ASP* 3.0 29.1 + - - +
236A GLN* 3.3 8.7 + - - +
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Residues in contact with ILE 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 GLN* 3.4 36.6 - - + +
230A LEU* 2.7 19.2 + - + +
232A PRO* 1.3 74.2 - - + +
234A ARG* 1.3 63.3 + - - +
236A GLN* 3.6 8.2 - - + +
237A SER* 3.3 23.3 + - - +
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Residues in contact with ARG 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ASP 3.6 20.3 + - - -
152A LEU* 3.7 28.6 + - + +
153A GLN* 4.5 1.0 - - - +
154A ASP* 3.0 30.9 + - - +
156A PHE* 4.1 23.2 - - - +
167A LEU* 4.8 14.3 - - - +
171A HIS* 3.1 35.2 - - + +
230A LEU 3.1 9.3 + - - +
231A VAL* 3.5 12.1 - - - +
233A ILE* 1.3 75.3 - - - +
235A ASP* 1.3 67.0 + - - +
237A SER* 2.9 9.3 + - - -
238A LEU* 2.8 40.0 + - + +
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Residues in contact with ASP 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A ILE* 5.2 1.7 - - - +
171A HIS* 3.4 22.3 - - - -
175A LYS* 4.9 8.3 + - - +
231A VAL* 2.7 29.8 - - - +
232A PRO* 3.0 17.9 - - - +
234A ARG* 1.3 74.4 - - - +
236A GLN* 1.3 51.3 + - - +
238A LEU* 3.2 5.9 + - - +
239A GLN* 2.7 50.8 + - + +
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Residues in contact with GLN 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A PRO 3.3 8.0 + - - +
233A ILE* 3.6 14.2 - - + +
235A ASP* 1.3 75.9 - - - +
237A SER* 1.3 52.7 + - - +
239A GLN* 2.7 38.1 + - - +
240A GLU* 2.8 50.1 + - - +
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Residues in contact with SER 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.7 26.2 - - - -
233A ILE* 3.3 13.9 + - - +
234A ARG* 2.9 14.1 + - - -
236A GLN* 1.3 77.5 - - - +
238A LEU* 1.3 63.3 + - - +
240A GLU* 3.0 14.4 + - - +
241A GLU* 3.1 22.9 + - - +
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Residues in contact with LEU 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.8 24.0 - - + -
164A ILE* 3.4 31.8 - - + +
167A LEU* 4.2 18.4 - - + -
168A ILE* 3.1 43.8 - - + +
171A HIS* 4.1 22.0 - - + +
234A ARG* 2.8 41.6 + - + +
235A ASP* 3.7 4.9 - - - +
237A SER* 1.3 70.7 - - - +
239A GLN* 1.3 67.4 + - - +
241A GLU* 4.5 0.4 - - - -
242A LEU* 3.4 13.9 + - - +
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Residues in contact with GLN 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A ILE* 4.5 4.9 - - + +
235A ASP* 2.7 37.2 + - + +
236A GLN* 2.7 22.0 + - - +
238A LEU* 1.3 69.9 - - - +
240A GLU* 1.3 56.6 + - + +
242A LEU* 2.7 31.8 + - - +
243A ALA* 2.9 11.9 + - - +
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Residues in contact with GLU 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A GLN* 2.8 51.0 + - + +
237A SER* 3.0 21.3 + - - +
239A GLN* 1.3 76.2 - - + +
241A GLU* 1.3 59.9 + - - +
243A ALA* 3.4 25.3 + - - +
244A ARG* 3.5 10.7 - - - +
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Residues in contact with GLU 241 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.4 35.4 - - + -
158A VAL* 3.0 25.8 - - + +
164A ILE* 3.3 27.1 - - + -
237A SER 3.1 11.1 + - - +
238A LEU* 4.5 0.7 - - - -
239A GLN 2.9 1.0 + - - -
240A GLU* 1.3 74.2 - - - +
242A LEU* 1.3 66.7 + - - +
243A ALA 3.1 0.2 - - - -
244A ARG* 3.1 23.6 + - - +
245A GLN* 3.2 37.8 + - - +
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Residues in contact with LEU 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ILE 4.8 7.4 - - - +
164A ILE* 3.7 31.1 - - + +
165A GLN* 4.9 10.5 - - + +
168A ILE* 5.8 11.7 - - + -
238A LEU 3.4 8.3 + - - +
239A GLN* 2.7 12.0 + - - +
241A GLU* 1.3 73.4 - - - +
243A ALA* 1.3 53.4 + - - +
244A ARG 2.7 16.9 + - - -
245A GLN* 3.1 10.1 + - + +
246A HIS* 3.2 40.7 + - + +
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Residues in contact with ALA 243 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A GLN 2.9 11.3 + - - +
240A GLU* 3.5 14.4 - - + +
241A GLU 3.1 0.4 - - - -
242A LEU* 1.3 73.5 - - - +
244A ARG* 1.3 66.8 + - - +
246A HIS* 5.7 1.3 - - - -
247A ALA* 3.5 15.2 - - - +
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Residues in contact with ARG 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A GLU 3.5 10.8 - - - +
241A GLU* 3.4 20.7 + - - +
242A LEU 2.7 2.4 + - - -
243A ALA* 1.3 84.8 - - - +
245A GLN* 1.3 76.6 + - - +
246A HIS 3.4 1.3 - - - -
247A ALA* 3.4 12.0 - - - +
248A ASN* 3.4 37.3 + - - +
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Residues in contact with GLN 245 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A VAL* 4.0 10.8 + - - -
159A HIS* 3.0 7.0 - - - +
160A SER* 2.5 46.1 + - - +
161A ILE* 2.7 42.7 - - + +
164A ILE* 3.6 16.8 - - + -
241A GLU* 3.3 34.5 + - - +
242A LEU* 3.1 4.2 + - + +
244A ARG* 1.3 84.8 + - - +
246A HIS* 1.3 58.8 + - + +
247A ALA 3.1 4.3 - - - -
248A ASN* 3.9 14.7 + - - +
----------------------------------------------------------
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Residues in contact with HIS 246 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ILE* 3.7 36.5 + - + +
165A GLN* 4.4 14.4 + - - -
242A LEU* 3.2 33.6 + - + +
243A ALA* 5.7 1.1 - - - -
245A GLN* 1.3 77.3 - - + +
247A ALA* 1.3 56.9 - - - +
248A ASN 3.3 4.2 + - - -
----------------------------------------------------------
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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