Contacts of the helix formed by residues 168 - 193 (chain A) in PDB entry 5LXG
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 168 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A PRO* 3.1 27.8 + - + +
167A LEU* 1.3 76.2 - - - +
169A GLU* 1.3 61.8 + - - +
170A LYS 3.2 2.2 + - - -
171A VAL* 3.3 25.0 + - + +
172A VAL* 4.3 3.7 + - - +
225A TYR* 4.2 19.4 + - + +
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Residues in contact with GLU 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A MET* 4.9 17.6 - - + +
165A ALA 2.0 40.1 + - - +
166A PRO* 3.6 10.8 - - + +
167A LEU* 4.8 3.1 - - - +
168A GLN* 1.3 74.0 - - - +
170A LYS* 1.3 61.3 + - - +
171A VAL 3.3 0.4 - - - -
172A VAL* 3.2 20.2 + - - +
173A PHE* 3.2 17.2 + - - -
225A TYR* 3.9 15.9 + - + -
226A TYR* 2.3 49.3 + - - +
229A TYR* 4.2 9.7 - - - -
359A GLN* 5.0 6.1 + - - +
363A TYR* 6.0 0.9 - - - -
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Residues in contact with LYS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A THR* 2.6 33.5 + - - +
156A MET* 2.8 49.4 + - - +
158A ARG* 3.6 18.0 - - - +
161A MET* 4.9 23.6 - - + -
164A MET* 4.9 17.3 - - + +
167A LEU* 3.6 19.4 + - - +
168A GLN 3.2 1.2 - - - -
169A GLU* 1.3 74.8 - - - +
171A VAL* 1.4 55.9 + - + +
173A PHE* 3.3 6.8 + - + +
174A GLY* 2.8 32.7 + - - -
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Residues in contact with VAL 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A LEU 5.6 0.9 - - - +
168A GLN* 3.3 15.9 + - + +
169A GLU 3.3 0.4 - - - -
170A LYS* 1.4 75.8 - - + +
172A VAL* 1.3 60.0 + - + +
174A GLY* 3.2 2.5 + - - +
175A MET* 2.9 53.1 + - + +
221A VAL* 6.5 0.2 - - + -
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Residues in contact with VAL 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A GLN 4.8 3.1 - - - +
169A GLU* 3.2 15.9 + - - +
171A VAL* 1.3 79.2 - - + +
173A PHE* 1.3 61.0 + - + +
175A MET* 3.7 3.3 + - - +
176A PHE 3.6 7.1 + - - -
221A VAL* 3.5 20.6 - - + +
222A PRO* 2.8 59.8 - - + +
225A TYR* 3.8 42.8 - - + -
226A TYR* 4.8 5.6 - - - +
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Residues in contact with PHE 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A THR* 4.5 13.9 - - + -
156A MET* 5.0 4.5 - - + -
164A MET* 5.6 12.1 - - + -
169A GLU* 3.2 10.3 + - + +
170A LYS* 3.8 8.7 - - + +
172A VAL* 1.3 76.3 - - + +
174A GLY* 1.3 63.6 + - - +
176A PHE* 3.2 10.8 + + - +
177A PHE* 3.0 42.8 + + + -
222A PRO* 4.7 8.1 - - + -
226A TYR* 3.4 43.1 - + - -
352A PHE* 3.4 37.9 - + - -
355A VAL* 4.2 16.4 - - + -
356A SER* 4.1 16.6 - - - -
359A GLN* 5.2 10.8 - - - -
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Residues in contact with GLY 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A MET* 3.7 18.8 - - - +
170A LYS 2.8 18.4 + - - -
171A VAL* 3.2 4.7 + - - -
173A PHE* 1.3 69.9 - - - +
175A MET* 1.4 58.0 + - - +
177A PHE* 3.1 7.2 + - - +
178A LEU* 2.9 35.7 + - - +
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Residues in contact with MET 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A VAL* 2.9 38.3 + - + +
172A VAL* 3.8 7.9 - - - +
173A PHE 3.4 0.2 - - - -
174A GLY* 1.4 72.5 - - - +
176A PHE* 1.3 62.3 + - - +
178A LEU* 3.4 14.8 + - + +
179A GLY* 3.2 17.3 + - - -
218A GLY* 3.8 9.4 - - - -
221A VAL* 3.9 36.6 - - + -
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Residues in contact with PHE 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A PHE* 3.8 25.6 - + - -
172A VAL 3.6 2.0 + - - +
173A PHE* 3.2 12.1 + + - +
175A MET* 1.3 78.5 - - - +
177A PHE* 1.3 79.3 + + - +
179A GLY* 3.3 2.9 + - - -
180A ALA* 3.0 27.0 + - + +
215A LEU* 4.4 9.4 - - + +
218A GLY* 3.3 16.5 + - - +
219A SER* 3.4 38.1 - - - -
222A PRO* 3.7 16.2 - - + -
348A ALA* 3.6 26.5 - - + -
351A HIS* 3.5 16.6 - + + -
352A PHE* 4.3 17.7 - + + -
355A VAL* 6.0 1.6 - - + -
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Residues in contact with PHE 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A PHE* 3.4 37.5 - + - +
151A LEU* 3.4 38.4 - - + -
152A GLY* 3.5 22.7 - - - -
155A THR* 4.3 7.6 - - + -
156A MET* 5.0 2.0 - - + -
173A PHE* 3.0 46.6 + + + -
174A GLY* 3.1 10.2 + - - +
176A PHE* 1.3 86.1 - + - +
178A LEU* 1.4 55.7 + - - +
180A ALA* 3.8 2.4 - - - +
181A VAL* 2.8 42.3 + - + +
352A PHE* 3.9 23.8 - + - -
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Residues in contact with LEU 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A GLY 2.9 16.3 + - - +
175A MET* 3.7 16.4 - - - +
177A PHE* 1.4 74.1 - - - +
179A GLY* 1.3 53.7 + - - +
181A VAL* 4.6 6.3 - - + -
182A LEU* 2.7 61.8 + - + +
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Residues in contact with GLY 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A MET 3.2 10.2 + - - -
176A PHE 3.7 3.1 - - - -
178A LEU* 1.3 79.1 - - - +
180A ALA* 1.3 54.9 + - - +
182A LEU* 4.1 1.9 - - - +
183A CYS* 2.9 33.6 + - - +
211A GLY 4.2 0.5 - - - +
214A LEU* 3.7 30.2 - - - +
215A LEU* 3.9 8.6 + - - -
218A GLY* 5.0 0.4 - - - -
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Residues in contact with ALA 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A PHE* 3.7 33.7 - - + -
176A PHE* 3.0 19.6 + - + +
177A PHE* 3.8 4.5 - - - +
179A GLY* 1.3 72.7 - - - +
181A VAL* 1.3 56.8 + - - +
183A CYS* 3.7 1.5 - - - +
184A LEU* 2.9 41.1 + - + +
215A LEU* 3.6 24.9 - - + +
348A ALA* 5.1 2.0 - - + -
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Residues in contact with VAL 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A PHE* 3.7 28.8 - - + +
148A PHE* 3.9 10.1 - - + +
149A LEU* 3.7 42.2 - - + +
152A GLY* 6.2 0.2 - - - -
177A PHE* 2.8 25.8 + - + +
178A LEU* 3.9 8.1 - - + +
180A ALA* 1.3 72.9 - - - +
182A LEU* 1.3 60.6 + - + +
184A LEU* 3.4 5.2 + - - -
185A SER* 2.8 36.3 + - - +
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Residues in contact with LEU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A LEU* 2.7 47.9 + - + +
179A GLY* 4.1 2.7 - - - +
181A VAL* 1.3 74.1 - - + +
183A CYS* 1.3 55.9 + - - +
185A SER* 2.8 21.5 + - - +
186A PHE* 2.8 54.8 + - + -
214A LEU* 4.1 21.1 - - + -
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Residues in contact with CYS 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A HIS* 5.1 6.5 - - - -
179A GLY 2.9 20.0 + - - +
180A ALA* 3.7 4.0 - - - +
182A LEU* 1.3 76.0 - - - +
184A LEU* 1.3 58.0 - - - +
186A PHE* 3.9 2.1 - - - +
187A SER* 3.1 30.4 + - - -
208A ASP* 4.6 2.7 - - - +
211A GLY* 3.1 37.7 + - - +
212A ILE* 3.8 17.9 - - - -
215A LEU* 3.9 23.1 - - + -
344A VAL* 4.9 8.1 - - - -
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Residues in contact with LEU 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A HIS* 3.5 38.9 - - + +
144A GLY* 3.7 26.5 - - - +
145A PHE* 3.9 15.0 - - + -
148A PHE* 3.8 22.7 - - + -
180A ALA* 2.9 36.3 + - + +
181A VAL* 3.7 4.3 - - - +
183A CYS* 1.3 75.6 - - + +
185A SER* 1.3 63.0 + - - +
187A SER* 3.5 2.8 + - - -
188A TRP* 3.2 26.7 + - - -
215A LEU* 6.3 1.1 - - + -
344A VAL* 5.2 4.9 - - + -
345A VAL* 3.9 22.2 - - + -
348A ALA* 6.2 0.9 - - + -
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Residues in contact with SER 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A PHE* 3.8 20.3 - - - -
181A VAL* 2.8 19.9 + - - -
182A LEU* 2.8 28.8 + - - +
184A LEU* 1.3 69.1 - - - +
186A PHE* 1.4 71.2 + - - +
188A TRP* 3.3 17.7 - - - +
189A LEU* 3.2 34.9 + - - +
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Residues in contact with PHE 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 2.8 54.8 + - + +
183A CYS* 3.9 3.8 - - - +
185A SER* 1.4 80.7 + - - +
187A SER* 1.3 57.8 + - - +
189A LEU* 3.4 11.9 + - + +
190A PHE* 2.9 32.1 + - - +
204A PHE* 5.0 2.3 - - - +
207A LEU* 3.4 66.0 - - + +
208A ASP* 4.3 4.6 - - - +
210A SER* 5.2 1.8 - - - -
211A GLY* 3.7 11.4 - - - -
214A LEU* 4.2 15.5 - - + -
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Residues in contact with SER 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A HIS* 3.3 24.3 - - - -
183A CYS* 3.1 15.9 + - - -
184A LEU 3.7 1.1 - - - -
185A SER 3.3 0.2 - - - -
186A PHE* 1.3 74.3 - - - +
188A TRP* 1.3 63.3 + - - +
190A PHE* 3.9 0.3 - - - +
191A HIS* 2.8 30.9 + - - -
208A ASP* 3.4 15.5 + - - -
341A HIS* 2.6 35.8 - - - -
401A ZN 3.3 6.9 - - - -
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Residues in contact with TRP 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A PHE* 4.0 18.8 - + - -
128A ILE* 4.2 9.9 - - + -
137A ASN 4.8 0.4 - - - -
138A ILE* 3.4 32.0 - - + +
141A HIS* 4.0 13.6 - - + +
142A LEU* 3.6 35.9 - - + +
145A PHE* 4.2 17.5 - + + -
184A LEU 3.2 25.8 + - - +
185A SER* 3.3 24.9 - - - +
187A SER* 1.3 77.1 - - - +
189A LEU* 1.4 78.3 + - + +
191A HIS* 3.5 3.3 + - - +
192A THR* 2.8 49.7 + - + +
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Residues in contact with LEU 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A PHE* 4.0 20.4 - - + -
185A SER* 3.2 29.9 + - - +
186A PHE* 3.7 13.9 - - + +
188A TRP* 1.4 107.1 - - + +
190A PHE* 1.3 64.8 + - - +
192A THR* 2.6 19.7 + - - +
193A VAL* 3.1 16.3 + - + +
204A PHE* 3.8 24.9 - - + -
207A LEU* 6.0 0.4 - - + -
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Residues in contact with PHE 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ASP* 5.7 0.9 - - - -
186A PHE 2.9 18.1 + - - +
187A SER 3.9 1.1 - - - +
189A LEU* 1.3 75.7 - - - +
191A HIS* 1.3 90.1 + + - +
193A VAL* 3.6 1.4 - - - +
194A TYR* 3.0 63.6 + + - +
201A SER* 3.8 8.7 - - - -
204A PHE* 3.6 26.8 - - + +
205A SER* 3.4 43.3 - - - -
208A ASP* 3.7 20.2 - - + -
337A HIS* 5.6 1.6 - + - -
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Residues in contact with HIS 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A ARG* 2.7 31.9 + - - -
134A GLU* 2.8 26.9 + - - +
137A ASN* 3.3 14.1 - - + +
138A ILE* 3.4 21.9 - - + +
187A SER* 2.8 29.8 + - - +
188A TRP 3.9 2.5 - - - +
189A LEU 3.3 0.2 - - - -
190A PHE* 1.3 97.4 - + - +
192A THR* 1.4 51.6 + - - +
194A TYR* 3.3 8.3 - - - +
337A HIS* 2.9 31.6 + + - -
341A HIS* 3.2 5.0 + + - -
401A ZN 2.3 29.5 - - - -
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Residues in contact with THR 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A ARG* 3.0 21.7 + - - +
124A CYS* 3.4 26.0 - - - +
125A PHE* 4.2 10.1 - - - -
128A ILE* 3.7 15.5 - - + -
138A ILE* 3.5 33.0 - - + -
188A TRP* 2.8 31.4 + - + +
189A LEU* 2.6 23.2 + - - -
191A HIS* 1.4 76.0 - - - +
193A VAL* 1.3 64.1 + - - +
194A TYR 3.3 2.5 + - - -
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Residues in contact with VAL 193 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A PHE* 3.9 32.8 - - + -
124A CYS* 4.2 10.1 - - + -
125A PHE* 4.5 15.0 - - + -
189A LEU* 3.1 16.7 + - + +
190A PHE* 3.8 5.2 - - + +
192A THR* 1.3 88.8 + - - +
194A TYR* 1.3 61.2 + - - +
195A CYS 3.3 2.5 - - - -
196A HIS* 3.2 18.9 + - + +
200A VAL* 4.0 8.0 - - + +
201A SER 4.6 3.8 + - - -
204A PHE* 3.5 43.1 - - + -
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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