Contacts of the helix formed by residues 169 - 201 (chain N) in PDB entry 5LSJ
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 HIS 169 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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285D PHE* 4.1 33.6 - + + +
286D ASP* 5.3 5.8 - - - -
289D GLU* 6.1 3.4 - - + +
165N ASP 5.6 0.4 + - - -
166N PRO 4.3 15.4 + - - -
168N PRO* 1.3 81.7 - - + +
170N MET* 1.3 73.3 + - - +
171N GLU 3.3 2.2 - - - -
172N ASN* 2.8 28.3 + - + +
173N LEU* 2.8 44.2 + - + +
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Residues in contact with MET 170 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A GLN* 4.3 26.5 - - + +
158A PHE* 3.5 43.5 - - + -
285D PHE* 3.5 28.9 - - + -
165N ASP 5.6 0.7 - - - +
166N PRO 4.3 6.7 - - - +
167N ALA* 3.5 33.4 - - + -
168N PRO 3.5 0.6 - - - -
169N HIS* 1.3 86.1 - - + +
171N GLU* 1.3 58.4 + - + +
173N LEU* 3.3 16.0 - - - +
174N LYS* 3.0 26.6 + - - +
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Residues in contact with GLU 171 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A GLU* 5.5 5.4 - - - +
167N ALA* 4.4 10.8 + - + +
168N PRO 4.3 6.6 + - - +
169N HIS 3.3 0.4 - - - -
170N MET* 1.3 81.0 - - + +
172N ASN* 1.3 58.8 + - - +
174N LYS* 3.2 30.4 + - + +
175N CYS* 2.9 36.4 + - - -
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Residues in contact with ASN 172 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168N PRO 4.2 4.8 + - - +
169N HIS* 2.8 26.1 + - - +
171N GLU* 1.3 76.0 - - - +
173N LEU* 1.3 65.8 + - - +
175N CYS* 3.2 6.7 + - - +
176N ARG* 3.0 39.3 + - - +
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Residues in contact with LEU 173 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A PHE* 3.3 36.6 - - + -
162A LEU* 4.5 3.9 - - + +
285D PHE* 5.1 5.6 - - + +
288D MET* 5.4 6.1 - - + -
289D GLU* 5.4 21.3 - - + +
292D MET* 3.6 11.6 - - + +
169N HIS* 2.8 62.0 + - + +
170N MET* 3.3 19.5 - - - +
172N ASN* 1.3 80.6 + - - +
174N LYS* 1.3 60.9 + - - +
176N ARG* 3.1 20.9 - - + +
177N GLY* 2.9 21.0 + - - -
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Residues in contact with LYS 174 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A PHE* 4.6 6.7 - - + -
161A GLU* 5.7 7.6 - - + +
162A LEU* 3.7 26.5 - - + +
165A VAL* 3.5 35.3 - - + +
170N MET 3.0 11.3 + - - +
171N GLU* 3.2 47.9 + - + +
173N LEU* 1.3 78.8 - - - +
175N CYS* 1.3 84.9 + - - +
177N GLY* 3.2 1.9 + - - -
178N GLU* 2.9 29.7 + - - -
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Residues in contact with CYS 175 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171N GLU* 2.9 28.2 + - - +
172N ASN* 3.6 7.6 - - - +
173N LEU 3.2 0.2 - - - -
174N LYS* 1.3 97.6 - - - +
176N ARG* 1.3 61.0 + - - +
177N GLY 3.1 1.3 - - - -
178N GLU* 2.9 36.4 + - - +
179N THR* 3.0 15.1 + - + +
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Residues in contact with ARG 176 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289D GLU* 4.4 16.7 + - - +
292D MET* 3.6 24.0 - - - -
293D ASP* 2.3 42.0 + - - +
296D GLN* 3.4 29.3 + - - +
172N ASN* 3.0 23.0 + - - +
173N LEU* 3.1 33.9 - - - +
175N CYS* 1.3 74.8 - - - +
177N GLY* 1.3 55.7 + - - +
179N THR* 2.3 32.1 + - - +
180N VAL* 2.9 17.7 + - - +
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Residues in contact with GLY 177 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A LEU* 5.0 4.9 - - - -
165A VAL* 4.4 4.3 - - - -
166A GLY* 5.6 0.4 - - - -
174A PHE* 4.5 3.4 - - - -
292D MET* 3.5 22.7 - - - -
173N LEU 2.9 12.9 + - - -
174N LYS* 3.5 7.0 - - - -
175N CYS 3.1 0.4 - - - -
176N ARG* 1.3 75.5 - - - +
178N GLU* 1.3 58.9 + - - +
180N VAL* 3.4 5.8 - - - +
181N ALA* 2.9 30.9 + - - +
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Residues in contact with GLU 178 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A VAL* 3.6 22.5 - - + +
169A HIS* 2.9 35.9 + - + +
174N LYS* 2.9 16.4 + - - +
175N CYS* 2.9 26.3 + - - +
177N GLY* 1.3 74.3 - - - +
179N THR* 1.3 74.0 + - + +
181N ALA* 3.3 4.6 + - - +
182N LYS* 2.9 26.3 + - - +
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Residues in contact with THR 179 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296D GLN* 3.8 10.1 + - - -
175N CYS 3.0 15.0 + - - +
176N ARG* 2.3 34.1 + - + -
178N GLU* 1.3 84.8 - - + +
180N VAL* 1.3 63.6 + - - +
182N LYS* 3.9 3.1 - - - +
183N GLU* 2.9 38.9 + - - +
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Residues in contact with VAL 180 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A PHE* 4.2 19.5 - - + -
292D MET* 4.4 10.1 - - + -
295D LEU* 4.3 12.8 - - + -
296D GLN* 3.6 41.7 - - + +
299D VAL* 4.9 11.2 - - + -
176N ARG 2.9 14.6 + - - +
177N GLY* 3.4 17.0 - - - +
179N THR* 1.3 85.3 + - - +
181N ALA* 1.3 65.4 + - - +
183N GLU* 4.1 9.2 - - - +
184N ILE* 2.9 31.1 + - + +
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Residues in contact with ALA 181 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A GLY* 4.3 14.8 - - - -
169A HIS* 4.2 10.3 - - + -
171A THR* 2.9 28.6 + - - +
174A PHE* 4.0 16.4 - - + -
177N GLY 2.9 20.2 + - - +
178N GLU* 3.5 7.4 - - - +
179N THR 3.2 0.2 - - - -
180N VAL* 1.3 79.1 - - - +
182N LYS* 1.3 62.3 + - - +
184N ILE* 3.3 1.4 - - - +
185N SER* 2.9 17.7 + - - -
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Residues in contact with LYS 182 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A HIS* 3.2 46.9 + - + +
170A GLY* 5.4 0.4 - - - -
178N GLU 2.9 16.2 + - - +
179N THR* 4.0 3.4 - - - +
181N ALA* 1.3 75.9 - - - +
183N GLU* 1.3 58.1 + - + +
185N SER* 3.3 10.2 + - - -
186N GLU* 2.9 68.4 + - + +
189N LYS* 4.6 7.3 - - - +
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Residues in contact with GLU 183 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296D GLN* 5.8 1.0 - - - +
299D VAL* 3.8 18.5 - - + +
300D LYS* 5.8 0.9 - - - +
303D GLN* 3.6 27.1 + - - +
179N THR* 2.9 26.5 + - - +
180N VAL* 3.7 8.3 - - - +
181N ALA 3.2 0.2 - - - -
182N LYS* 1.3 77.8 - - + +
184N ILE* 1.3 61.0 + - + +
186N GLU* 3.5 4.0 + - - +
187N ALA* 2.9 29.0 + - - +
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Residues in contact with ILE 184 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A THR* 3.6 14.8 - - + +
174A PHE* 4.4 18.4 - - + -
177A SER* 3.6 29.8 - - - -
178A LEU* 4.4 16.8 - - + -
181A LEU* 4.4 11.1 - - + +
295D LEU* 6.0 4.3 - - + -
299D VAL* 3.7 30.3 - - + -
302D LEU* 6.3 2.2 - - + -
180N VAL* 2.9 16.9 + - + +
181N ALA* 3.3 11.0 - - - +
183N GLU* 1.3 72.9 - - - +
185N SER* 1.3 63.3 + - - +
187N ALA* 3.8 7.6 - - - +
188N MET* 2.9 32.6 + - - +
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Residues in contact with SER 185 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A HIS 3.3 25.9 + - - -
170A GLY* 3.6 13.2 + - - -
171A THR* 3.7 16.1 - - - +
181N ALA 2.9 13.9 + - - -
182N LYS* 3.5 13.1 + - - -
183N GLU 3.2 0.2 - - - -
184N ILE* 1.3 76.5 - - - +
186N GLU* 1.3 59.2 + - - +
188N MET* 3.1 8.0 + - - +
189N LYS* 3.0 38.1 + - - +
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Residues in contact with GLU 186 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182N LYS* 2.9 50.5 + - + +
183N GLU* 4.2 2.5 - - - +
185N SER* 1.3 76.3 - - - +
187N ALA* 1.3 56.9 + - - +
189N LYS* 3.3 25.1 + - - +
190N SER* 2.9 32.6 + - - -
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Residues in contact with ALA 187 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A LEU* 4.2 3.6 - - + -
302D LEU* 4.1 19.3 - - + -
303D GLN* 5.4 6.1 - - + +
306D MET* 3.7 19.9 - - + +
183N GLU 2.9 19.0 + - - +
184N ILE* 3.8 9.2 - - - +
186N GLU* 1.3 74.4 - - - +
188N MET* 1.3 60.1 + - - +
190N SER* 3.5 7.2 + - - -
191N LEU* 3.0 34.7 + - - +
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Residues in contact with MET 188 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A THR* 5.3 3.4 - - - -
177A SER* 3.5 39.9 - - - +
180A SER* 3.4 27.6 - - - +
181A LEU* 3.6 25.1 - - + -
184N ILE 2.9 20.4 + - - +
185N SER* 3.1 6.5 + - - +
187N ALA* 1.3 75.9 - - - +
189N LYS* 1.3 58.9 + - + +
191N LEU* 5.1 1.1 - - - -
192N PRO* 3.1 25.2 - - - +
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Residues in contact with LYS 189 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182N LYS* 4.6 5.8 - - - +
185N SER* 3.0 30.6 + - - +
186N GLU* 3.7 34.3 + - - +
187N ALA 3.1 0.4 - - - -
188N MET* 1.3 81.6 - - + +
190N SER* 1.3 60.0 + - - +
192N PRO* 4.0 6.5 - - - +
193N ALA* 4.5 7.4 + - - +
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Residues in contact with SER 190 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306D MET* 3.6 19.0 - - - +
186N GLU* 2.9 19.4 + - - -
187N ALA* 3.5 4.5 + - - -
189N LYS* 1.3 75.9 - - - +
191N LEU* 1.3 68.3 + - - +
192N PRO 3.6 0.2 - - - -
193N ALA* 3.6 8.8 + - - +
194N LEU* 3.4 25.5 + - - +
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Residues in contact with LEU 191 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A LEU* 4.6 10.5 - - + +
184A ASN* 3.4 42.4 - - + +
185A SER* 4.3 17.7 - - - +
188A LEU* 4.0 12.3 - - + -
302D LEU* 4.4 14.1 - - + -
305D PHE* 5.9 1.6 - - + -
306D MET* 3.5 31.9 - - + -
187N ALA 3.0 18.2 + - - +
188N MET* 5.1 1.6 - - - -
190N SER* 1.3 75.4 + - - +
192N PRO* 1.3 67.4 - - + +
194N LEU* 2.8 25.8 + - - +
195N ILE* 3.0 15.3 + - + +
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Residues in contact with PRO 192 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ASN* 3.5 25.8 - - - +
188N MET* 3.1 24.5 - - - +
189N LYS 4.0 4.9 - - - +
190N SER 3.9 0.9 - - - -
191N LEU* 1.3 93.4 - - + +
193N ALA* 1.3 56.4 - - - +
195N ILE* 3.0 17.3 + - + +
196N GLU* 2.9 29.8 + - - +
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Residues in contact with ALA 193 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189N LYS 4.5 6.7 + - - +
190N SER* 3.6 14.3 + - - +
191N LEU 3.1 0.8 + - - -
192N PRO* 1.3 77.9 - - - +
194N LEU* 1.3 62.3 + - + +
196N GLU* 3.0 11.7 + - - +
197N GLN* 2.9 33.0 + - - +
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Residues in contact with LEU 194 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A LEU* 3.7 16.6 - - + +
306D MET* 3.6 24.7 - - + +
309D SER* 3.3 26.2 - - - +
310D THR* 3.6 28.0 - - - +
313D PHE* 4.1 11.2 - - + -
190N SER* 3.4 16.6 + - - +
191N LEU 2.8 11.2 + - - +
193N ALA* 1.3 79.5 - - + +
195N ILE* 1.3 58.8 + - - +
197N GLN* 3.6 21.8 + - - +
198N GLY* 2.9 22.5 + - - -
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Residues in contact with ILE 195 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ASN* 3.7 48.2 - - + +
187A LYS* 4.3 27.4 - - + +
188A LEU* 4.2 18.4 - - + +
191A ILE* 5.0 8.6 - - + +
191N LEU* 3.0 19.5 + - + +
192N PRO* 3.0 14.5 + - + +
194N LEU* 1.3 76.4 - - - +
196N GLU* 1.3 56.3 + - + +
198N GLY* 3.0 2.7 + - - -
199N GLU* 2.9 51.7 + - - +
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Residues in contact with GLU 196 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192N PRO 2.9 16.2 + - - +
193N ALA* 3.0 12.5 + - - +
195N ILE* 1.3 74.3 - - + +
197N GLN* 1.3 60.4 + - + +
199N GLU* 2.8 31.6 - - - +
200N GLY* 2.9 27.7 + - - -
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Residues in contact with GLN 197 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310D THR* 4.2 15.5 + - - +
313D PHE* 4.3 22.3 - - + +
314D GLN* 5.5 5.4 + - - +
193N ALA* 2.9 21.4 + - + +
194N LEU* 3.8 23.8 - - - +
196N GLU* 1.3 76.1 - - + +
198N GLY* 1.3 62.3 + - - +
200N GLY* 3.7 3.5 + - - -
201N PHE* 3.5 35.4 + - + -
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Residues in contact with GLY 198 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A ILE* 3.4 21.4 - - - +
195A VAL* 3.6 13.4 - - - +
313D PHE* 3.6 24.2 - - - -
194N LEU 2.9 12.1 + - - -
195N ILE* 3.0 5.1 + - - -
197N GLN* 1.3 77.3 - - - +
199N GLU* 1.3 57.6 + - - +
200N GLY 3.2 0.2 - - - -
201N PHE 3.3 13.3 + - - -
202N SER* 3.7 2.4 + - - -
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Residues in contact with GLU 199 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A LYS* 5.5 4.6 + - - +
191A ILE* 3.8 18.4 - - + +
195N ILE* 2.9 34.2 + - - +
196N GLU* 2.8 27.8 - - - +
198N GLY* 1.3 69.6 - - - -
200N GLY* 1.3 62.3 + - - +
202N SER* 2.7 28.0 + - - +
203N GLN* 4.4 11.3 + - - +
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Residues in contact with GLY 200 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196N GLU 2.9 17.9 + - - -
197N GLN* 3.7 2.7 + - - -
198N GLY 3.2 0.6 - - - -
199N GLU* 1.3 78.7 - - - +
201N PHE* 1.3 66.9 + - - +
202N SER 3.4 0.7 + - - -
203N GLN* 4.5 5.1 + - - +
204N VAL* 4.1 10.6 + - - +
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Residues in contact with PHE 201 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A VAL* 4.0 21.4 - - + +
198A GLU* 5.9 2.9 - - - +
313D PHE* 3.2 32.8 - + + -
314D GLN* 5.7 2.7 - - - -
316D VAL* 3.4 35.4 - - + -
197N GLN* 3.5 24.5 - - + -
198N GLY 3.3 8.7 + - - +
199N GLU 3.3 0.4 - - - -
200N GLY* 1.3 81.5 - - - +
202N SER* 1.3 61.3 + - - +
203N GLN 3.3 4.5 + - - -
204N VAL 3.7 15.7 + - - +
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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).
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