Contacts of the helix formed by residues 165 - 193 (chain E) in PDB entry 6C3P
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 SER 165 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95E SER* 4.8 8.5 + - - -
157E PHE* 4.6 2.3 - - - -
163E GLY* 3.0 4.8 - - - -
164E PHE* 1.3 76.5 + - - +
166E GLN* 1.3 56.6 + - - +
167E LEU* 3.0 6.1 - - - +
168E ARG* 2.7 58.1 + - - +
169E PHE 3.5 1.9 + - - -
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Residues in contact with GLN 166 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163E GLY 3.3 13.0 + - - +
164E PHE 3.4 4.0 + - - +
165E SER* 1.3 72.9 - - - +
167E LEU* 1.3 56.1 + - - +
169E PHE* 3.0 14.5 + - + +
170E CYS* 3.0 26.9 + - - +
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Residues in contact with LEU 167 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E GLU* 6.3 2.9 - - + -
165E SER* 3.0 4.9 - - - -
166E GLN* 1.3 75.8 - - - +
168E ARG* 1.3 64.4 + - - +
170E CYS* 4.4 5.8 - - - +
171E LEU* 2.9 40.1 + - + +
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Residues in contact with ARG 168 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E GLU* 5.3 6.2 + - - +
92E GLY* 5.8 1.4 - - - -
95E SER* 4.0 21.4 + - - -
106E LEU* 4.0 30.8 + - - +
153E LYS* 4.5 14.1 - - - +
157E PHE* 3.5 30.1 - - + -
165E SER* 2.7 38.8 + - - +
167E LEU* 1.3 74.1 - - - +
169E PHE* 1.3 51.2 + - - +
171E LEU* 3.9 4.8 - - - +
172E THR* 2.6 43.9 + - - +
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Residues in contact with PHE 169 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154E PHE* 3.5 37.8 - + - -
157E PHE* 3.4 36.9 - + + -
158E LEU* 4.3 26.9 - - + -
163E GLY* 6.0 0.7 - - - -
165E SER 3.5 1.4 + - - -
166E GLN* 3.0 18.7 + - + +
168E ARG* 1.3 77.3 - - - +
170E CYS* 1.3 69.7 + - + +
172E THR* 3.3 2.5 + - - -
173E GLY* 3.0 20.6 + - - -
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Residues in contact with CYS 170 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166E GLN 3.0 14.7 + - - +
167E LEU* 3.4 6.9 + - - +
169E PHE* 1.3 82.1 - - + +
171E LEU* 1.3 63.8 + - + +
173E GLY* 3.4 0.9 + - - -
174E LEU* 2.8 36.8 + - - +
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Residues in contact with LEU 171 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E VAL* 4.1 9.4 - - + +
87E CYS* 4.1 16.2 - - + +
88E GLU* 3.9 41.5 - - + +
91E GLU* 5.2 7.0 - - + -
167E LEU* 2.9 35.1 + - + +
168E ARG* 4.0 4.3 - - - +
170E CYS* 1.3 85.0 - - + +
172E THR* 1.3 57.7 + - - +
174E LEU* 3.4 7.4 - - + +
175E LEU* 2.9 41.0 + - + +
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Residues in contact with THR 172 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150E LYS* 4.3 14.3 + - - +
153E LYS* 3.4 31.0 + - + +
154E PHE* 3.6 39.5 - - + +
157E PHE* 5.0 4.9 - - + -
168E ARG* 2.6 27.0 + - - +
169E PHE* 3.6 5.6 - - - -
171E LEU* 1.3 75.7 - - - +
173E GLY* 1.3 64.3 + - - +
175E LEU* 3.1 7.5 + - - +
176E VAL* 3.0 25.1 + - + +
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Residues in contact with GLY 173 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154E PHE* 3.7 22.7 - - - -
169E PHE 3.0 11.6 + - - -
170E CYS* 3.9 2.0 - - - -
172E THR* 1.3 77.2 - - - +
174E LEU* 1.3 60.8 + - - +
176E VAL* 3.2 8.3 + - - +
177E ILE* 2.9 31.6 + - - +
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Residues in contact with LEU 174 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E VAL* 3.6 42.0 - - + -
170E CYS* 2.8 25.1 + - - +
171E LEU* 3.4 10.3 - - + +
172E THR 3.1 0.2 - - - -
173E GLY* 1.3 76.3 - - - +
175E LEU* 1.3 65.4 + - + +
177E ILE* 3.2 8.8 + - + +
178E LEU* 2.9 51.6 + - + +
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Residues in contact with LEU 175 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81E LEU* 4.4 5.4 - - + -
84E VAL* 3.6 31.0 - - + +
85E LEU* 3.5 28.3 - - + -
88E GLU* 4.5 14.4 - - - +
150E LYS* 3.9 22.9 - - - +
171E LEU* 2.9 26.9 + - + +
172E THR 3.7 4.0 - - - +
174E LEU* 1.3 79.0 - - + +
176E VAL* 1.3 63.9 + - - +
178E LEU* 3.2 5.0 + - + +
179E TYR* 2.9 57.2 + - + +
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Residues in contact with VAL 176 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E PHE* 3.2 22.2 - - + -
150E LYS* 3.6 37.5 - - + +
151E THR* 3.6 24.5 - - + +
154E PHE* 4.1 16.8 - - + -
172E THR* 3.0 16.1 + - + +
173E GLY* 3.2 9.8 + - - +
175E LEU* 1.3 78.5 - - - +
177E ILE* 1.3 69.9 + - + +
179E TYR* 3.3 0.4 + - - -
180E GLY 2.9 18.5 + - - -
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Residues in contact with ILE 177 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E PHE* 5.4 0.2 - - - -
173E GLY* 2.9 17.3 + - - +
174E LEU* 3.7 10.3 - - + +
176E VAL* 1.3 83.1 - - + +
178E LEU* 1.3 63.7 + - + +
180E GLY* 3.3 1.9 + - - +
181E MET* 2.9 49.2 + - + +
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Residues in contact with LEU 178 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E LEU* 4.3 20.5 - - + +
80E MET* 3.9 11.7 - - + -
81E LEU* 3.5 48.4 - - + +
84E VAL* 4.0 3.4 - - + -
174E LEU* 2.9 57.3 + - + +
175E LEU* 3.2 9.4 + - + +
177E ILE* 1.3 83.3 - - + +
179E TYR* 1.3 58.6 + - - +
181E MET* 3.3 7.0 + - + +
182E LEU* 2.9 28.2 + - - +
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Residues in contact with TYR 179 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36E HIS* 3.8 20.4 + - - -
81E LEU* 3.5 21.0 - - + +
85E LEU* 4.8 1.7 - - - +
113E ALA* 4.7 6.8 - - - +
143E TRP* 3.5 38.7 - + + +
146E ALA* 3.9 25.4 - - + -
147E PHE* 3.5 25.9 - + + +
150E LYS* 3.4 36.5 - - + +
175E LEU* 2.9 37.3 + - + +
176E VAL* 5.0 0.2 - - - -
178E LEU* 1.3 77.9 - - - +
180E GLY* 1.3 57.6 + - - +
182E LEU* 3.2 5.4 + - - +
183E LEU* 2.9 29.5 + - - +
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Residues in contact with GLY 180 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E PHE* 3.5 20.3 - - - -
176E VAL 2.9 12.0 + - - -
177E ILE* 3.7 3.4 - - - -
179E TYR* 1.3 77.4 - - - +
181E MET* 1.3 56.2 + - - +
183E LEU* 3.1 9.3 + - - +
184E LEU* 2.9 27.1 + - - +
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Residues in contact with MET 181 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E LEU* 3.5 30.5 - - + -
177E ILE* 2.9 36.9 + - + +
178E LEU* 3.3 2.9 + - + +
180E GLY* 1.3 75.4 - - - +
182E LEU* 1.3 57.6 + - - +
184E LEU* 3.3 22.6 + - + +
185E VAL* 2.9 31.7 + - - +
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Residues in contact with LEU 182 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74E ARG* 4.4 24.7 - - + +
77E LEU* 3.6 21.9 - - + +
78E THR* 4.7 7.2 - - - +
81E LEU* 6.0 2.2 - - + -
143E TRP* 3.3 61.9 - - + +
178E LEU 2.9 14.2 + - - +
179E TYR* 3.4 12.3 - - + +
181E MET* 1.3 74.5 - - - +
183E LEU* 1.3 60.3 + - - +
185E VAL* 3.1 9.1 + - + +
186E GLU* 2.9 31.6 + - + +
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Residues in contact with LEU 183 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140E LEU* 3.6 33.0 - - + +
143E TRP* 4.9 8.0 - - + +
144E THR* 3.8 24.2 - - + +
147E PHE* 5.9 7.4 - - + -
179E TYR 2.9 13.1 + - - +
180E GLY* 3.4 11.4 - - - +
182E LEU* 1.3 77.1 - - - +
184E LEU* 1.3 60.7 + - - +
186E GLU* 2.9 8.4 + - + +
187E VAL* 2.9 39.9 + - + +
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Residues in contact with LEU 184 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180E GLY 2.9 12.7 + - - +
181E MET* 3.5 26.5 - - - +
182E LEU 3.2 0.2 - - - -
183E LEU* 1.3 76.0 - - + +
185E VAL* 1.3 61.1 + - - +
187E VAL* 3.0 20.2 - - + +
188E ASN* 2.7 45.4 + - - +
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Residues in contact with VAL 185 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69E PRO 5.4 3.1 - - - +
70E GLY* 4.5 7.4 - - - +
73E LEU* 4.7 8.7 - - + -
74E ARG* 3.5 51.8 - - + +
77E LEU* 3.7 19.1 - - + -
181E MET 2.9 18.7 + - - +
182E LEU* 3.1 12.5 + - + +
184E LEU* 1.3 75.4 - - - +
186E GLU* 1.3 57.8 + - - +
188E ASN* 3.2 13.4 + - + +
189E VAL* 3.0 27.7 + - - +
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Residues in contact with GLU 186 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74E ARG* 3.9 13.9 + - - -
136E LEU* 4.4 4.7 - - - +
137E ILE* 3.9 25.8 + - - +
139E LEU* 4.4 11.3 - - - +
140E LEU* 3.8 40.6 - - + +
143E TRP* 5.9 1.1 - - + -
182E LEU* 2.9 20.9 + - + +
183E LEU* 2.9 15.9 + - + +
185E VAL* 1.3 78.0 - - - +
187E VAL* 1.3 57.7 + - - +
189E VAL* 3.0 15.5 - - - +
190E ILE* 2.9 28.6 + - + +
195E TYR* 4.7 2.8 + - - -
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Residues in contact with VAL 187 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140E LEU* 5.1 7.2 - - + -
183E LEU* 2.9 33.5 + - + +
184E LEU* 3.0 38.4 - - + +
186E GLU* 1.3 74.2 - - + +
188E ASN* 1.3 62.4 + - - +
190E ILE* 3.5 7.1 - - + +
191E ARG* 2.9 31.7 + - - +
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Residues in contact with ASN 188 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69E PRO* 5.3 1.6 - - - +
70E GLY* 6.5 1.3 - - - -
184E LEU* 2.7 46.4 + - - +
185E VAL* 3.3 14.5 - - + +
187E VAL* 1.3 81.4 - - - +
189E VAL* 1.3 57.1 + - - +
191E ARG* 3.8 3.3 - - - +
192E VAL* 2.9 37.0 + - + +
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Residues in contact with VAL 189 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E PHE* 4.4 8.3 - - - +
69E PRO* 3.7 40.6 + - + +
74E ARG* 3.5 23.6 - - - +
124E TYR* 5.3 3.8 - - + +
133E PRO* 6.2 3.6 - - + -
185E VAL 3.0 15.5 + - - +
186E GLU* 3.0 32.5 - - - +
188E ASN* 1.3 75.1 - - - +
190E ILE* 1.3 62.6 + - - +
192E VAL* 3.9 0.7 - - - +
193E ARG* 2.9 27.1 + - + +
195E TYR* 4.8 2.6 - - + +
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Residues in contact with ILE 190 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137E ILE* 5.8 3.6 - - + -
140E LEU* 6.3 3.1 - - + -
186E GLU* 2.9 23.0 + - + +
187E VAL* 3.5 9.9 - - + +
189E VAL* 1.3 77.5 - - + +
191E ARG* 1.3 64.3 + - - +
193E ARG 2.8 13.5 + - - -
194E ARG* 2.9 17.8 + - - -
195E TYR* 4.5 19.1 - - + +
196E ILE* 6.0 5.8 - - + -
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Residues in contact with ARG 191 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187E VAL 2.9 20.4 + - - +
188E ASN* 3.8 4.3 - - - +
190E ILE* 1.3 74.4 - - - +
192E VAL* 1.3 66.7 + - + +
193E ARG 3.2 0.9 + - - -
194E ARG* 3.2 19.2 + - - +
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Residues in contact with VAL 192 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69E PRO* 3.5 38.8 - - + -
188E ASN* 2.9 24.1 + - + +
189E VAL 3.9 0.4 - - - +
191E ARG* 1.3 78.3 - - + +
193E ARG* 1.3 59.0 + - + +
194E ARG 3.6 0.9 + - - -
200E THR 4.9 0.3 - - - +
201E PRO 3.2 11.8 - - - +
202E ARG* 3.5 19.2 - - + +
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Residues in contact with ARG 193 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E PHE 6.3 0.4 - - - +
69E PRO* 5.7 3.1 - - + -
133E PRO* 5.1 7.9 - - + -
189E VAL* 2.9 20.7 + - + +
190E ILE 2.8 5.9 + - - -
192E VAL* 1.3 79.9 - - + +
194E ARG* 1.3 47.8 - - - +
195E TYR* 2.1 53.2 + - + +
200E THR 4.1 0.9 - - - -
201E PRO* 3.3 17.9 - - + +
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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