Contacts of the helix formed by residues 162 - 192 (chain A) in PDB entry 4OQZ
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 PRO 162 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A ALA* 3.7 7.0 - - - +
100A ARG* 3.8 20.9 - - + +
103A ALA* 3.6 33.9 - - + -
113A HIS* 4.8 0.9 - - + +
115A THR* 2.9 32.9 + - - +
135A SER* 3.1 14.6 + - - +
136A GLY* 4.9 4.0 - - - -
137A PRO* 6.4 0.4 - - + -
160A GLU 3.5 9.0 - - - +
161A ASP* 1.4 89.5 - - - +
163A GLY* 1.3 56.6 - - - +
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Residues in contact with GLY 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A PRO* 3.4 36.8 - - - +
99A ALA* 4.4 0.9 - - - -
100A ARG* 3.7 8.9 - - - +
161A ASP* 3.1 13.4 + - - -
162A PRO* 1.3 77.1 - - - +
164A LEU* 1.3 58.1 + - - +
165A ALA 3.6 0.2 - - - -
166A ALA* 3.3 5.1 + - - +
167A LEU* 2.8 27.3 + - - +
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Residues in contact with LEU 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A SER* 3.8 7.4 - - - -
158A ARG* 3.8 30.5 - - + +
159A GLY* 4.2 8.7 - - - -
161A ASP* 3.0 39.3 + - + +
162A PRO 3.3 0.2 - - - -
163A GLY* 1.3 74.4 - - - +
165A ALA* 1.3 56.9 + - - +
167A LEU* 3.3 15.8 + - + +
168A MET* 3.0 60.6 + - + +
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Residues in contact with ALA 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A THR* 3.5 19.3 - - + +
117A GLY* 4.2 5.1 - - - +
133A PHE* 3.4 40.6 - - + +
134A TYR 3.8 1.1 - - - -
135A SER* 2.9 28.5 + - - +
158A ARG* 4.9 2.7 - - - +
164A LEU* 1.3 71.2 - - - +
166A ALA* 1.3 56.6 + - - +
168A MET* 3.5 4.1 + - - +
169A TYR* 2.9 28.5 + - - +
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Residues in contact with ALA 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A TYR* 5.1 1.3 - - - +
94A ASP 3.6 20.4 - - - +
95A THR 3.9 2.2 - - - +
96A PRO* 3.7 19.7 - - + -
99A ALA* 4.2 11.9 - - + -
115A THR* 4.1 8.6 - - + +
116A GLY 5.9 1.3 - - - -
163A GLY 3.3 11.3 + - - +
164A LEU 3.3 0.4 - - - -
165A ALA* 1.3 74.6 - - - +
167A LEU* 1.4 57.9 + - - +
169A TYR* 3.2 8.1 + - - +
170A GLN* 2.9 32.7 + - - +
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Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A PRO* 3.7 19.0 - - + +
100A ARG* 5.9 4.5 - - - +
163A GLY 2.8 15.1 + - - +
164A LEU* 3.3 19.5 + - + +
166A ALA* 1.4 72.9 - - - +
168A MET* 1.4 63.2 + - + +
170A GLN* 2.9 10.8 + - + +
171A LEU* 2.8 56.8 + - + +
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Residues in contact with MET 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A PHE* 3.4 50.1 - - + -
158A ARG* 4.2 17.0 - - + +
164A LEU* 3.0 41.0 + - + +
165A ALA 3.6 7.6 - - - +
166A ALA 3.4 0.2 - - - -
167A LEU* 1.4 79.5 - - + +
169A TYR* 1.4 62.9 + - - +
171A LEU* 3.3 25.1 + - + +
172A ASN* 3.0 22.7 + - - +
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Residues in contact with TYR 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A SER* 3.3 37.6 + - - -
94A ASP 5.6 0.4 - - - +
117A GLY* 3.7 26.7 - - - -
118A VAL 3.4 27.2 + - - -
119A LEU* 4.0 12.6 - - + -
133A PHE* 4.2 4.2 - - - -
165A ALA 2.9 16.4 + - - +
166A ALA* 3.4 11.7 - - - +
168A MET* 1.4 75.0 - - - +
170A GLN* 1.4 74.7 + - - +
172A ASN* 3.2 10.4 + - - +
173A MET* 3.1 54.7 + - + +
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Residues in contact with GLN 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A SER* 4.7 1.4 + - - -
94A ASP* 3.1 33.9 + - - +
95A THR* 4.1 6.1 - - + +
96A PRO* 4.5 13.9 - - + -
166A ALA 2.9 19.6 + - - +
167A LEU* 2.9 14.8 + - + +
169A TYR* 1.4 82.6 - - - +
171A LEU* 1.4 55.5 + - + +
173A MET* 3.0 12.8 + - - +
174A VAL* 2.8 42.8 + - + +
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Residues in contact with LEU 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A LEU* 2.8 38.4 + - + +
168A MET* 3.4 32.1 - - + +
170A GLN* 1.4 75.8 - - + +
172A ASN* 1.3 62.8 + - - +
174A VAL* 3.4 26.4 - - + +
175A VAL* 3.6 14.0 + - - +
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Residues in contact with ASN 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LEU* 3.7 40.5 - - + +
133A PHE* 5.2 1.9 - - + -
168A MET 3.0 12.5 + - - +
169A TYR 3.2 11.4 + - - +
171A LEU* 1.3 76.8 - - - +
173A MET* 1.3 72.1 + - - +
175A VAL* 3.2 8.4 + - - +
176A PHE* 2.9 31.7 + - - +
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Residues in contact with MET 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LEU* 5.6 0.4 - - - -
169A TYR* 3.4 48.5 - - + +
170A GLN* 3.0 17.1 + - - +
172A ASN* 1.3 86.8 - - - +
174A VAL* 1.4 62.7 + - - +
175A VAL 3.1 2.0 - - - -
176A PHE* 3.8 19.5 - - + -
177A TRP* 3.2 78.0 + - + +
178A PRO* 3.7 0.5 - - - +
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Residues in contact with VAL 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A GLN* 2.8 27.8 + - + +
171A LEU* 3.4 20.6 - - + +
172A ASN 3.3 0.2 - - - -
173A MET* 1.4 71.4 - - - +
175A VAL* 1.3 64.5 + - + +
178A PRO* 3.0 23.4 - - - +
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Residues in contact with VAL 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A LEU 3.7 12.1 - - - +
172A ASN* 3.2 9.5 + - - +
173A MET 3.1 0.4 - - - -
174A VAL* 1.3 87.1 - - + +
176A PHE* 1.3 61.3 + - - +
177A TRP 3.6 0.4 - - - -
178A PRO* 3.4 2.5 - - - +
179A ALA* 3.0 35.6 + - + +
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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
----------------------------------------------------------
172A ASN* 2.9 25.8 + - - +
173A MET* 3.5 25.5 + - + +
175A VAL* 1.3 78.3 - - - +
177A TRP* 1.3 90.2 + + - +
179A ALA* 3.2 6.9 + - + +
180A MET* 2.9 60.9 + - + +
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Residues in contact with TRP 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A MET* 3.2 54.7 + - + +
176A PHE* 1.3 100.9 - + - +
178A PRO* 1.4 63.8 - - + +
180A MET* 3.3 6.3 + - + +
181A LEU* 2.9 28.5 + - - +
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Residues in contact with PRO 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A MET 3.7 0.4 - - - +
174A VAL* 3.0 31.9 - - - +
175A VAL* 3.4 6.3 - - - +
177A TRP* 1.4 90.1 - - + +
179A ALA* 1.4 59.8 + - - +
181A LEU* 3.6 8.8 - - + +
182A SER* 2.8 31.4 + - - -
257A PHE* 3.8 19.2 - - + -
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Residues in contact with ALA 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A VAL* 3.0 26.8 + - + +
176A PHE* 3.5 7.0 - - + +
178A PRO* 1.4 73.6 - - - +
180A MET* 1.3 67.1 + - + +
182A SER* 2.8 24.6 + - - -
183A TYR* 3.1 7.1 + - - +
208A PHE* 3.7 32.2 - - + -
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Residues in contact with MET 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A PHE* 2.9 54.4 + - + +
177A TRP* 3.8 7.6 - - + +
179A ALA* 1.3 80.3 - - - +
181A LEU* 1.3 56.1 + - - +
183A TYR* 3.2 18.6 + - + +
184A TRP* 2.9 72.4 + - + +
208A PHE* 6.0 3.8 - - - -
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Residues in contact with LEU 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A TRP 2.9 18.4 + - - +
178A PRO* 3.7 7.6 - - + +
180A MET* 1.3 73.1 - - - +
182A SER* 1.4 59.5 + - - +
184A TRP* 3.1 26.8 + - + +
185A GLN* 2.9 27.2 + - - +
257A PHE* 3.7 36.3 - - + -
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Residues in contact with SER 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A PRO 2.8 17.4 + - - -
179A ALA* 2.8 19.5 + - - -
181A LEU* 1.4 67.9 - - - +
183A TYR* 1.3 59.5 + - - +
185A GLN* 3.3 4.3 + - - +
186A ALA* 2.9 27.6 + - - +
208A PHE* 3.9 13.7 - - - -
257A PHE* 3.4 24.6 - - - -
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Residues in contact with TYR 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A ALA 3.1 12.2 + - - +
180A MET* 3.2 22.0 + - + +
182A SER* 1.3 75.1 + - - +
184A TRP* 1.4 89.1 + + - +
186A ALA* 3.1 5.1 + - + -
187A VAL* 2.9 46.2 + - + +
197A ALA* 2.9 34.7 + - + +
200A ILE* 4.1 15.3 - - + -
201A ALA* 4.1 11.9 - - + +
204A VAL* 3.8 37.9 - - + -
208A PHE* 5.1 2.7 - - + -
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Residues in contact with TRP 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A MET* 2.9 49.0 + - + +
181A LEU* 3.1 28.7 + - + +
183A TYR* 1.4 105.8 - + - +
185A GLN* 1.4 56.4 + - - +
187A VAL* 3.5 9.0 + - + +
188A ALA* 3.1 28.3 + - - +
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Residues in contact with GLN 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A LEU* 2.9 13.7 + - + +
182A SER* 3.4 10.3 - - - +
183A TYR 3.2 0.2 - - - -
184A TRP* 1.4 77.0 - - - +
186A ALA* 1.3 55.5 + - - +
188A ALA* 3.5 5.7 + - - +
189A LEU* 3.1 27.0 + - - +
244A VAL* 6.1 0.7 - - + -
248A ASN* 3.0 28.0 + - - +
253A VAL* 3.8 9.3 - - - +
254A ASP* 2.8 29.8 + - - +
257A PHE* 3.6 21.4 + - + +
258A PRO* 3.5 30.8 - - + +
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Residues in contact with ALA 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A SER 2.9 13.5 + - - +
183A TYR* 3.4 16.2 - - + +
185A GLN* 1.3 72.1 - - - +
187A VAL* 1.3 60.6 + - - +
189A LEU* 3.3 5.9 + - - +
190A ALA* 3.0 32.6 + - - +
200A ILE* 3.5 15.9 - - + +
204A VAL* 4.6 9.0 - - + -
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Residues in contact with VAL 187 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A TYR* 2.9 56.9 + - + +
184A TRP* 3.9 10.1 - - + +
186A ALA* 1.3 74.6 - - - +
188A ALA* 1.4 56.6 + - - +
190A ALA* 3.5 2.2 + - - +
191A ASP* 3.0 31.3 + - + +
195A LEU 4.8 1.2 - - - +
196A THR 5.5 0.6 - - - -
197A ALA* 3.8 26.2 - - + +
200A ILE* 3.8 8.5 - - + -
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Residues in contact with ALA 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A TRP 3.1 18.0 + - - +
185A GLN* 3.8 7.9 - - - +
186A ALA 3.3 0.2 - - - -
187A VAL* 1.4 77.4 - - - +
189A LEU* 1.4 61.2 + - - +
191A ASP* 3.4 18.1 - - - +
192A ALA* 3.6 4.3 + - - +
253A VAL* 3.6 25.9 - - + +
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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
----------------------------------------------------------
185A GLN 3.1 13.3 + - - +
186A ALA* 3.3 5.1 + - - +
188A ALA* 1.4 74.2 - - - +
190A ALA* 1.3 63.6 + - - +
191A ASP 3.3 0.7 + - - -
192A ALA* 3.3 9.4 + - - +
193A HIS* 3.0 28.3 + - + +
247A THR* 3.5 45.8 - - + +
248A ASN* 3.4 37.7 - - - +
251A SER* 3.5 15.5 - - - +
253A VAL* 3.9 6.0 - - + +
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Residues in contact with ALA 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A ALA 3.0 17.3 + - - +
187A VAL 3.9 2.2 - - - +
189A LEU* 1.3 73.9 - - - +
191A ASP* 1.4 61.9 + - - +
193A HIS* 3.2 11.2 + - - -
194A GLY 3.5 0.2 + - - -
195A LEU* 2.9 54.2 + - + +
196A THR 5.0 0.4 - - - +
200A ILE* 3.9 25.1 - - + -
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Residues in contact with ASP 191 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A VAL* 3.0 20.8 + - + +
188A ALA* 3.4 11.4 - - - +
189A LEU 3.1 0.2 - - - -
190A ALA* 1.4 71.5 - - - +
192A ALA* 1.4 55.9 + - - +
193A HIS 2.8 14.7 + - - -
194A GLY* 3.1 13.7 + - - -
195A LEU 3.6 10.8 + - - +
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Residues in contact with ALA 192 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A ALA 3.6 2.0 + - - +
189A LEU 3.3 10.8 + - - +
191A ASP* 1.4 77.8 + - - +
193A HIS* 1.4 64.6 + - - +
194A GLY 3.8 0.4 - - - -
251A SER* 3.8 35.2 - - - +
253A VAL* 4.0 10.1 - - + -
----------------------------------------------------------
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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