Contacts of the helix formed by residues 170 - 192 (chain A) in PDB entry 3A68
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 TYR 170 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A GLU* 4.3 6.3 - - - -
94A HIS* 2.7 52.7 + + + -
97A LYS* 3.3 21.5 - - + +
98A LEU* 3.3 24.6 + - + +
147A LEU* 3.8 34.3 - - + +
165A PHE* 3.6 31.2 - + - -
166A VAL* 3.0 18.4 + - + +
168A THR 3.5 0.4 - - - -
169A GLU* 1.3 94.3 - - + +
171A LEU* 1.3 61.4 + - - +
172A GLY 3.5 2.2 - - - -
173A GLU* 3.5 5.3 + - - +
174A GLN* 2.9 31.7 + - - +
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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
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144A ASN* 4.2 10.7 - - - +
147A LEU* 3.8 29.6 - - + -
148A LEU* 3.8 24.2 - - + -
151A HIS* 4.2 8.1 - - + -
166A VAL* 3.2 11.0 + - + +
167A GLU* 3.4 29.2 + - + +
170A TYR* 1.3 74.9 - - - +
172A GLY* 1.3 66.6 + - - +
174A GLN* 3.3 3.9 + - - +
175A VAL* 3.1 26.7 + - - +
160X VAL* 3.5 33.2 - - + -
161X GLN* 3.7 18.3 - - + +
164X ASP* 5.6 0.4 - - - +
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Residues in contact with GLY 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLU 3.9 6.2 + - - -
170A TYR 3.5 0.4 - - - -
171A LEU* 1.3 75.2 - - - +
173A GLU* 1.3 70.2 + - - +
175A VAL* 3.2 5.2 + - - +
176A GLU* 3.0 29.4 + - - +
215A CA 4.6 4.3 - - - -
161X GLN* 3.6 23.4 - - - +
164X ASP* 5.4 1.3 + - - -
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Residues in contact with GLU 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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94A HIS* 5.8 9.4 - - + +
168A THR 3.5 2.3 - - - +
169A GLU* 3.3 29.3 - - - +
170A TYR* 3.6 7.8 + - - +
172A GLY* 1.3 78.2 + - - +
174A GLN* 1.3 56.5 + - - +
176A GLU* 3.3 10.8 + - - +
177A ALA* 2.9 28.8 + - - +
215A CA 2.5 29.3 - - - -
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Residues in contact with GLN 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A HIS* 5.6 2.1 - - - -
140A GLU* 2.7 57.6 + - - +
143A THR* 3.9 14.4 - - - +
144A ASN* 3.4 35.0 - - + +
147A LEU* 3.8 15.3 - - + +
170A TYR* 2.9 18.7 + - - +
171A LEU* 3.6 6.1 - - - +
172A GLY 3.2 0.2 - - - -
173A GLU* 1.3 73.5 - - - +
175A VAL* 1.3 64.8 + - - +
177A ALA* 3.3 6.6 + - - +
178A ILE* 3.0 30.0 + - + +
214A CA 4.1 6.9 - - - -
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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
----------------------------------------------------------
144A ASN* 5.2 11.4 - - - +
171A LEU 3.1 16.7 + - - +
172A GLY 3.2 8.7 + - - +
174A GLN* 1.3 77.0 - - - +
176A GLU* 1.3 62.8 + - + +
178A ILE* 3.4 8.8 + - + +
179A LYS* 3.1 21.5 + - - +
101X TYR* 5.2 2.5 - - + -
104X LYS* 3.9 38.6 - - + +
105X ARG* 3.8 22.0 - - - +
161X GLN* 3.7 28.7 - - + +
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Residues in contact with GLU 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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172A GLY 3.0 20.8 + - - +
173A GLU* 3.5 9.4 - - - +
174A GLN 3.2 0.2 - - - -
175A VAL* 1.3 78.1 - - - +
177A ALA* 1.3 56.4 + - - +
179A LYS* 3.3 6.5 + - - +
180A ARG* 2.9 30.6 + - - +
104X LYS* 3.0 42.6 + - - +
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Residues in contact with ALA 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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140A GLU* 4.2 22.2 - - - +
173A GLU 2.9 15.9 + - - +
174A GLN* 3.3 9.2 + - - +
176A GLU* 1.3 76.2 - - - +
178A ILE* 1.3 63.2 + - - +
180A ARG* 3.4 9.9 + - - +
181A ILE* 3.1 32.8 + - + +
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Residues in contact with ILE 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A LEU* 3.8 16.5 - - + +
140A GLU* 3.9 34.5 - - + +
141A LYS* 4.2 8.1 - - + +
144A ASN* 3.9 16.2 - - + +
174A GLN* 3.0 23.0 + - + +
175A VAL* 3.7 7.4 - - + +
177A ALA* 1.3 73.5 - - - +
179A LYS* 1.3 60.3 + - - +
181A ILE* 3.5 1.0 + - - -
182A SER* 2.8 33.3 + - - -
37X ALA* 3.6 34.5 - - + +
39X GLN* 3.5 24.2 - - + +
104X LYS 5.8 0.4 - - - +
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Residues in contact with LYS 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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175A VAL 3.1 13.1 + - - +
176A GLU* 3.3 8.7 + - - +
178A ILE* 1.3 77.1 - - - +
180A ARG* 1.3 63.2 + - - +
182A SER* 3.3 5.6 + - - -
183A GLU* 2.9 52.1 + - - +
71J ASP* 2.9 48.3 + - - -
73J ASP* 4.0 18.2 - - + +
37X ALA* 4.3 4.2 - - + +
100X GLU 5.2 0.4 + - - -
103X ASN* 3.7 22.2 - - - +
104X LYS* 3.9 29.3 - - + +
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Residues in contact with ARG 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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83A PHE* 3.7 28.1 - - - -
86A GLU* 5.8 1.8 + - - -
87A SER* 5.5 0.8 + - - -
176A GLU 2.9 16.9 + - - +
177A ALA* 3.5 9.6 - - - +
179A LYS* 1.3 79.2 - - - +
181A ILE* 1.3 64.1 + - + +
183A GLU* 3.3 15.0 + - - +
184A TYR* 2.9 48.8 + - + +
207A GLU* 2.8 26.7 + - - -
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Residues in contact with ILE 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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63A TYR* 4.0 9.9 - - + +
83A PHE* 4.3 24.0 - - + -
133A MET* 3.5 34.3 - - - +
136A ALA* 4.1 11.4 - - + -
137A LEU* 3.6 17.5 - - + +
140A GLU* 3.5 33.9 - - + +
177A ALA* 3.1 16.5 + - + +
178A ILE* 4.2 2.2 - - - +
180A ARG* 1.3 75.8 - - + +
182A SER* 1.3 65.3 + - - +
184A TYR* 3.1 9.5 + - + +
185A VAL* 3.0 20.7 + - - +
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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
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137A LEU* 3.4 13.9 - - - +
178A ILE 2.8 23.4 + - - -
179A LYS 3.5 4.9 - - - -
181A ILE* 1.3 77.2 - - - +
183A GLU* 1.3 57.3 + - - +
185A VAL* 3.2 6.2 + - - +
186A ALA* 2.9 25.3 + - - +
73J ASP* 3.5 28.0 - - - -
36X LEU* 3.5 15.1 - - - +
37X ALA* 3.2 22.8 + - - -
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Residues in contact with GLU 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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179A LYS* 2.9 49.6 + - - +
180A ARG* 3.5 15.3 - - - +
181A ILE 3.2 0.2 - - - -
182A SER* 1.3 75.6 - - - +
184A TYR* 1.3 60.3 + - + +
186A ALA* 3.4 1.9 + - - +
187A GLN* 2.9 45.9 + - - +
71J ASP* 4.5 3.3 - - - +
72J ARG 5.1 0.5 - - - +
73J ASP* 3.7 24.2 - - + +
76J ALA* 4.1 11.7 - - + -
78J ARG* 5.0 17.8 - - - +
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Residues in contact with TYR 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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83A PHE* 3.7 26.2 - + - -
133A MET* 3.5 32.5 - - + -
180A ARG* 2.9 41.9 + - + +
181A ILE* 3.1 12.6 + - - +
183A GLU* 1.3 79.3 - - + +
185A VAL* 1.3 58.5 + - - +
187A GLN* 3.2 13.0 + - - +
188A LEU* 2.9 36.5 + - - +
200A PHE* 3.7 25.7 - + + -
203A MET* 4.9 4.3 - - + -
204A LEU* 3.4 16.9 - - + +
207A GLU* 2.5 33.2 + - - -
78J ARG* 6.1 2.2 - - - -
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Residues in contact with VAL 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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130A LEU* 3.9 13.8 - - + +
133A MET* 3.8 35.7 - - + +
134A GLU* 4.0 12.3 - - + +
137A LEU* 4.4 10.5 - - + -
181A ILE 3.0 19.8 + - - +
182A SER 3.5 7.2 - - - +
184A TYR* 1.3 77.3 - - - +
186A ALA* 1.3 63.2 + - - +
188A LEU* 3.3 2.4 + - - +
189A ARG* 3.0 50.1 + - - +
28X VAL* 5.3 0.7 - - + -
36X LEU* 3.9 16.6 - - + -
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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
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182A SER 2.9 10.2 + - - +
183A GLU 3.6 3.6 - - - +
184A TYR 3.3 0.2 - - - -
185A VAL* 1.3 78.4 - - - +
187A GLN* 1.3 61.6 + - - +
189A ARG* 3.3 9.4 + - - +
190A ARG* 3.0 23.7 + - - +
73J ASP 3.4 26.2 - - - +
74J ASN* 3.8 20.9 - - - +
75J VAL 4.8 2.2 - - - +
76J ALA* 3.8 8.7 - - + -
36X LEU* 4.1 7.2 - - + -
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Residues in contact with GLN 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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183A GLU* 2.9 39.1 + - - +
184A TYR* 3.8 16.2 - - - +
186A ALA* 1.3 72.6 - - - +
188A LEU* 1.3 66.8 + - - +
190A ARG* 3.1 8.4 + - - +
191A VAL* 3.0 29.8 + - - +
200A PHE* 3.8 12.6 - - + -
203A MET* 3.7 8.2 - - - +
76J ALA* 3.8 21.0 - - + +
78J ARG* 2.9 35.3 + - - +
198J TRP* 2.9 35.3 + - + +
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Residues in contact with LEU 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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80A LEU* 5.5 0.2 - - + -
129A ALA* 3.7 37.0 - - + +
130A LEU* 4.0 16.9 - - + +
133A MET* 3.6 34.3 - - + -
184A TYR 2.9 18.8 + - - +
185A VAL 3.7 3.6 - - - +
187A GLN* 1.3 75.4 - - - +
189A ARG* 1.3 63.6 + - - +
191A VAL* 3.6 4.8 - - + +
192A GLY* 3.3 21.7 + - - -
197A VAL* 3.9 21.8 - - + +
200A PHE* 3.6 37.7 - - + -
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Residues in contact with ARG 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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130A LEU* 4.0 18.9 - - + +
134A GLU* 2.8 30.1 + - - -
185A VAL* 3.0 31.9 + - - +
186A ALA* 3.6 8.7 - - - +
188A LEU* 1.3 78.3 - - - +
190A ARG* 1.3 62.0 + - - +
192A GLY* 3.9 6.8 + - - -
28X VAL* 3.6 15.0 + - - +
29X PRO 2.9 30.9 + - - -
30X THR* 4.0 20.2 + - - +
31X VAL 5.5 1.6 + - - -
32X PRO* 6.1 1.2 - - - +
36X LEU* 3.4 14.9 - - - +
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Residues in contact with ARG 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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186A ALA 3.0 14.6 + - - +
187A GLN* 3.1 10.3 + - - +
189A ARG* 1.3 79.2 - - - +
191A VAL* 1.3 61.0 + - + +
192A GLY 3.6 0.3 + - - -
74J ASN 5.0 1.8 + - - -
75J VAL* 3.1 29.5 + - - +
76J ALA 5.2 0.8 + - - -
77J LEU* 3.6 30.8 - - - +
128J ASP* 3.2 38.0 + - - -
194J GLY* 3.3 47.3 - - - +
197J VAL* 4.0 10.5 - - - +
198J TRP* 4.1 13.7 - - + +
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Residues in contact with VAL 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A GLN 3.0 22.4 + - - +
188A LEU* 3.6 13.0 - - + +
190A ARG* 1.3 76.6 - - - +
192A GLY* 1.3 66.7 + - - +
193A LYS 4.9 0.5 - - - +
196A GLY* 3.4 41.2 + - - +
197A VAL* 3.8 4.7 - - - +
200A PHE* 4.4 5.8 - - + -
195J HIS* 3.7 24.0 + - + +
198J TRP* 3.5 49.6 - - + -
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Residues in contact with GLY 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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188A LEU 3.3 11.0 + - - -
189A ARG 4.4 5.2 - - - -
190A ARG 3.4 3.4 - - - -
191A VAL* 1.3 80.7 - - - +
193A LYS* 1.3 68.6 + - - +
196A GLY* 3.5 0.3 - - - -
197A VAL* 3.1 28.2 + - - +
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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
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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