Contacts of the helix formed by residues 169 - 192 (chain A) in PDB entry 2OI8
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 169 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140A ALA* 6.0 3.1 - - + -
147A GLY* 3.8 27.8 - - - +
160A ARG* 5.0 0.7 - - - +
167A PRO 3.8 3.3 - - - +
168A ALA* 1.4 86.5 - - + +
170A SER* 1.3 58.5 + - - +
171A SER* 3.0 13.7 - - - +
172A ALA* 2.8 34.4 + - + +
173A LEU 3.7 1.4 + - - -
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Residues in contact with SER 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A GLY* 5.2 3.0 - - - -
153A ASP* 3.5 18.6 - - - -
156A LEU* 3.5 11.4 + - - +
157A ASP* 2.8 38.6 + - - -
160A ARG* 2.7 27.8 + - - +
168A ALA 3.4 2.0 + - - -
169A PRO* 1.3 71.1 - - - +
171A SER* 1.3 56.6 + - - +
172A ALA 3.2 0.2 - - - -
173A LEU* 3.1 9.7 + - - +
174A HIS* 2.8 27.5 + - - +
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Residues in contact with SER 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A THR* 2.7 48.3 + - - +
153A ASP* 3.6 18.5 + - - +
169A PRO* 3.0 13.0 - - - +
170A SER* 1.3 76.8 - - - +
172A ALA* 1.3 54.4 + - - +
174A HIS* 3.4 2.1 + - - +
175A ARG* 2.8 34.8 + - - +
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Residues in contact with ALA 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A VAL* 4.9 3.8 - - - +
139A CYS* 3.4 42.7 - - + +
140A ALA* 4.4 2.0 - - - +
168A ALA* 4.2 17.7 - - + -
169A PRO* 2.8 20.1 + - + +
171A SER* 1.3 79.8 + - - +
173A LEU* 1.3 58.3 + - + +
175A ARG* 3.5 2.6 + - - +
176A ALA* 2.9 25.1 + - - +
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Residues in contact with LEU 173 (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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136A VAL* 3.6 34.3 - - + -
156A LEU* 4.2 11.0 - - + +
160A ARG* 3.6 52.9 - - + +
162A TRP* 3.7 25.0 - - + -
163A ALA* 4.3 13.7 - - + -
166A ARG* 5.0 0.9 - - - +
168A ALA* 4.6 7.9 - - + +
170A SER* 3.1 17.2 + - - +
172A ALA* 1.3 75.7 - - - +
174A HIS* 1.3 60.1 + - - +
176A ALA* 3.2 6.2 + - - +
177A LEU* 3.0 34.5 + - - +
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Residues in contact with HIS 174 (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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152A PHE* 3.7 35.9 - + + +
153A ASP* 2.9 34.1 - - - +
156A LEU* 3.6 11.8 - - + +
170A SER 2.8 8.3 + - - +
171A SER 3.4 6.5 - - - +
173A LEU* 1.3 74.0 - - - +
175A ARG* 1.3 66.7 + - - +
177A LEU* 3.3 5.9 + - - +
178A SER* 3.0 34.8 + - - -
182A ARG* 6.0 1.1 - - - -
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Residues in contact with ARG 175 (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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89A LEU* 4.3 14.5 - - + +
139A CYS* 3.3 30.9 + - - +
141A ALA* 5.5 8.5 - - - +
171A SER 2.8 21.7 + - - +
172A ALA* 3.6 6.0 - - - +
174A HIS* 1.3 74.6 - - - +
176A ALA* 1.3 56.8 + - - +
178A SER* 3.2 7.7 + - - -
179A PHE* 2.9 28.3 + - + +
213A LEU* 4.0 15.8 + - + +
214A LEU* 4.7 2.0 - - - +
215A GLY* 3.2 31.3 - - - +
216A PRO* 3.5 24.5 - - - +
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Residues in contact with ALA 176 (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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132A MSE 4.4 7.6 - - + +
135A ILE* 3.6 31.1 - - + +
136A VAL* 3.8 28.0 - - + +
139A CYS* 3.5 4.2 - - - -
162A TRP* 5.4 0.2 - - + -
172A ALA 2.9 15.9 + - - +
173A LEU 3.2 8.0 + - - +
175A ARG* 1.3 76.0 - - - +
177A LEU* 1.3 56.8 + - + +
179A PHE* 3.3 3.5 + - - +
180A TRP* 3.0 28.2 + - - +
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Residues in contact with LEU 177 (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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132A MSE 3.2 31.2 - - + -
152A PHE* 3.8 33.7 - - + -
156A LEU* 4.4 6.1 - - + -
162A TRP* 3.7 25.4 - - + -
173A LEU 3.0 20.3 + - - +
174A HIS* 3.7 4.3 - - - +
176A ALA* 1.3 73.9 - - - +
178A SER* 1.3 57.4 + - - +
180A TRP* 3.3 10.8 + - + +
181A SER* 2.9 30.6 + - - -
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Residues in contact with SER 178 (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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174A HIS* 3.0 32.9 + - - -
175A ARG* 3.4 11.2 - - - -
177A LEU* 1.3 72.9 - - - +
179A PHE* 1.3 59.8 + - - +
181A SER* 3.8 6.3 - - - -
182A ARG* 2.9 57.8 + - - +
213A LEU* 4.0 14.6 - - - -
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Residues in contact with PHE 179 (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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79A LEU* 5.8 0.4 - - + -
89A LEU* 3.5 43.7 - - + -
92A LEU* 4.0 9.6 - - + -
93A ALA* 3.5 24.7 - - + -
96A LEU* 4.7 13.0 - - + -
135A ILE* 3.6 38.1 - - + -
139A CYS* 5.3 1.3 - - - -
175A ARG 2.9 13.1 + - - +
176A ALA* 3.5 7.6 - - - +
178A SER* 1.3 75.1 - - - +
180A TRP* 1.3 71.2 + + - +
183A LEU* 3.1 49.8 + - + +
210A LEU* 4.7 2.5 - - + -
213A LEU* 3.6 28.6 - - + +
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Residues in contact with TRP 180 (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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72A TYR* 6.2 1.3 - + - -
75A GLN* 3.1 34.5 - - - -
79A LEU* 4.7 5.8 - - + -
96A LEU* 4.4 13.9 - - + -
111A PHE* 3.5 21.4 - + - -
128A ALA 5.8 1.6 - - - -
131A THR* 3.7 20.6 - - + -
132A MSE 4.4 28.7 - - + +
135A ILE* 4.7 15.5 - - + -
176A ALA 3.0 13.7 + - - +
177A LEU* 3.3 15.9 - - + +
179A PHE* 1.3 80.3 - + - +
181A SER* 1.3 64.2 + - - +
184A HIS* 2.8 57.7 + + - -
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Residues in contact with SER 181 (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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177A LEU 2.9 17.1 + - - -
178A SER* 3.5 8.3 + - - -
180A TRP* 1.3 77.7 - - - +
182A ARG* 1.3 72.6 + - - +
184A HIS* 3.9 4.0 - - - +
185A GLY* 3.0 21.7 + - - -
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Residues in contact with ARG 182 (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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174A HIS* 6.0 0.8 - - - -
178A SER* 2.9 41.6 + - - +
179A PHE 4.3 1.1 - - - +
181A SER* 1.3 85.8 + - - +
183A LEU* 1.3 62.1 + - + +
185A GLY* 3.4 3.3 + - - -
186A VAL* 3.2 26.9 + - - +
209A GLU* 4.0 27.6 + - + +
212A ASP* 4.5 14.1 + - - +
213A LEU* 3.9 38.6 - - + +
216A PRO* 5.8 2.6 - - - +
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Residues in contact with LEU 183 (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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93A ALA* 3.6 31.0 - - + -
96A LEU* 4.2 12.3 - - + -
179A PHE* 3.1 44.6 + - + +
182A ARG* 1.3 75.7 - - + +
184A HIS* 1.3 60.6 + - - +
185A GLY 3.3 0.7 - - - -
186A VAL* 3.5 4.1 + - + +
187A LEU* 2.9 36.4 + - - +
206A PHE* 3.9 31.2 - - + +
209A GLU* 4.6 6.3 - - + -
210A LEU* 4.3 24.7 - - + +
213A LEU* 4.5 7.0 - - + -
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Residues in contact with HIS 184 (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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75A GLN* 4.0 5.6 - - - -
96A LEU* 3.8 16.1 - - + +
107A TYR* 3.0 31.6 + + - +
111A PHE* 3.4 38.0 - + + -
180A TRP* 2.8 71.7 + + - +
181A SER* 4.0 4.5 - - - +
183A LEU* 1.3 74.0 - - - +
185A GLY* 1.3 55.8 + - - +
187A LEU* 4.3 1.7 - - - +
188A SER* 2.5 42.3 + - - +
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Residues in contact with GLY 185 (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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181A SER 3.0 17.1 + - - -
182A ARG* 3.4 3.6 + - - -
183A LEU 3.3 0.4 - - - -
184A HIS* 1.3 75.2 - - - +
186A VAL* 1.3 59.8 + - - +
188A SER* 3.9 2.3 + - - -
189A LEU* 3.1 37.5 + - - +
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Residues in contact with VAL 186 (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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182A ARG 3.2 18.6 + - - +
183A LEU* 4.2 6.3 - - + +
185A GLY* 1.3 74.7 - - - +
187A LEU* 1.3 65.8 + - - +
189A LEU* 3.9 5.2 - - - +
190A GLU* 2.9 46.6 + - - +
195A PHE* 4.0 3.7 - - + -
202A SER 4.4 3.1 - - - +
205A LEU* 4.3 18.6 - - + -
206A PHE* 3.6 35.0 - - + +
209A GLU* 4.3 23.1 - - + -
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Residues in contact with LEU 187 (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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96A LEU* 3.8 33.0 - - + +
97A ARG* 3.6 34.3 - - + +
100A ALA* 3.8 25.6 - - + -
101A LEU* 4.8 4.5 - - + -
107A TYR* 3.9 17.9 - - + +
183A LEU 2.9 26.3 + - - +
184A HIS* 3.3 0.9 + - - +
186A VAL* 1.3 75.3 - - - +
188A SER* 1.3 60.0 + - - +
190A GLU* 3.3 19.2 - - + +
191A LEU* 2.9 34.9 + - + +
206A PHE* 3.9 8.1 - - + -
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Residues in contact with SER 188 (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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107A TYR* 3.2 29.7 + - - -
108A PHE* 4.2 8.0 - - - -
111A PHE* 5.5 4.9 - - - -
184A HIS* 2.5 27.1 + - - +
185A GLY* 3.9 3.1 + - - -
187A LEU* 1.3 72.8 - - - +
189A LEU* 1.3 58.8 + - - +
191A LEU* 4.3 2.7 - - - -
192A ALA* 2.7 38.6 + - - +
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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
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185A GLY* 3.1 30.6 + - - +
186A VAL* 5.0 0.4 - - - -
188A SER* 1.3 79.5 - - - +
190A GLU* 1.3 59.4 + - - +
192A ALA* 3.6 3.1 + - + -
193A GLY 3.5 1.7 + - - -
194A GLN* 2.9 50.5 + - + +
195A PHE* 3.6 33.4 + - + -
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Residues in contact with GLU 190 (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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97A ARG* 2.4 42.8 + - - -
101A LEU* 4.8 12.3 - - + -
186A VAL* 2.9 40.4 + - - +
187A LEU* 3.3 15.7 - - - +
189A LEU* 1.3 76.9 - - - +
191A LEU* 1.3 57.1 + - + +
193A GLY* 3.0 20.6 + - - -
194A GLN 4.2 0.6 + - - +
195A PHE* 3.8 19.6 + - + -
202A SER* 2.4 31.2 + - - +
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Residues in contact with LEU 191 (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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100A ALA* 3.8 25.4 - - + +
101A LEU* 3.5 27.8 - - + -
104A PRO* 3.8 29.4 - - + +
107A TYR* 3.7 35.7 - - + -
108A PHE* 3.4 27.3 - - + -
187A LEU* 2.9 22.4 + - - +
188A SER* 4.1 0.9 - - - +
190A GLU* 1.3 72.4 - - - +
192A ALA* 1.3 58.3 + - - +
193A GLY 3.2 1.4 + - - -
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Residues in contact with ALA 192 (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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108A PHE* 3.6 13.2 - - + -
188A SER* 2.7 26.0 + - - +
189A LEU* 4.0 5.6 - - + +
190A GLU 3.2 0.2 - - - -
191A LEU* 1.3 71.6 - - - +
193A GLY* 1.3 58.5 + - - +
194A GLN* 3.3 25.8 + - + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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