Contacts of the helix formed by residues 178 - 206 (chain A) in PDB entry 2C17
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 178 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A LYS* 4.3 18.2 - - + -
176A ILE* 3.4 11.2 - - + -
177A PHE* 1.4 108.5 - - + +
179A ASN* 1.3 53.9 + - - +
180A LYS* 3.3 2.9 - - - +
181A THR* 2.6 53.8 + - - +
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Residues in contact with ASN 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ILE 5.2 2.0 - - - -
177A PHE 2.8 14.4 + - - +
178A PRO* 1.3 69.7 - - - +
180A LYS* 1.3 91.7 + - + +
182A LEU* 2.9 16.0 + - - +
183A GLU* 2.8 34.0 + - - +
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Residues in contact with LYS 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A PRO 3.0 1.8 + - - +
179A ASN* 1.3 95.9 + - - +
181A THR* 1.3 64.2 + - - +
183A GLU* 2.7 39.9 + - + +
184A LYS* 3.0 35.3 + - + +
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Residues in contact with THR 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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157A GLY 5.0 4.3 - - - +
161A ASN* 3.2 31.0 - - - +
164A LYS* 4.0 16.6 - - + +
176A ILE* 4.8 8.7 - - + -
178A PRO* 2.6 35.4 + - - +
180A LYS* 1.3 77.5 - - - +
182A LEU* 1.3 63.5 + - + +
184A LYS* 3.6 2.3 + - - +
185A LEU* 3.2 22.5 + - + +
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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
----------------------------------------------------------
58A ALA* 5.4 2.7 - - + +
59A SER* 4.4 24.2 - - - +
176A ILE* 5.9 6.1 - - + -
179A ASN* 2.9 14.1 + - - +
181A THR* 1.3 78.9 - - - +
183A GLU* 1.3 53.3 + - - +
185A LEU* 3.2 10.6 + - + +
186A LYS* 2.7 53.8 + - + +
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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
----------------------------------------------------------
179A ASN* 2.8 26.0 + - - +
180A LYS* 2.7 44.8 + - + +
181A THR 3.3 0.4 - - - -
182A LEU* 1.3 74.2 - - - +
184A LYS* 1.3 58.2 + - + +
186A LYS* 3.4 8.0 + - + +
187A SER* 3.0 30.2 + - - +
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Residues in contact with LYS 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A LYS* 3.0 26.8 + - + +
181A THR* 4.2 1.6 - - - +
183A GLU* 1.3 74.5 - - + +
185A LEU* 1.3 52.7 + - - +
187A SER* 3.2 10.7 + - - -
188A HIS* 2.7 52.4 + - + -
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Residues in contact with LEU 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LEU* 5.5 0.7 - - + +
59A SER* 3.7 25.1 - - - +
154A TYR* 3.5 58.4 + - + +
157A GLY* 3.9 35.2 - - - +
158A ILE* 4.5 5.4 - - + -
161A ASN* 4.9 4.5 - - - +
181A THR* 3.2 20.0 + - + +
182A LEU* 3.2 13.9 + - + +
184A LYS* 1.3 72.7 - - - +
186A LYS* 1.3 63.1 + - - +
188A HIS* 3.1 27.2 + - + +
189A VAL 3.5 0.7 + - - -
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Residues in contact with LYS 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ALA 2.7 27.9 + - - +
59A SER* 3.7 17.8 + - - +
61A ASN* 4.8 1.2 + - - -
182A LEU* 2.7 38.3 + - + +
183A GLU* 3.6 7.9 - - + +
185A LEU* 1.3 68.0 - - - +
187A SER* 1.3 60.1 + - - +
189A VAL* 2.8 25.0 + - + +
190A LYS* 2.9 13.6 + - - +
235A GLN* 4.1 15.8 - - - +
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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
----------------------------------------------------------
183A GLU* 3.0 16.1 + - - +
184A LYS* 3.2 13.1 + - - -
186A LYS* 1.3 73.8 - - - +
188A HIS* 1.3 56.0 + - - +
189A VAL 3.1 0.7 + - - -
190A LYS* 3.9 11.0 - - - +
191A ILE* 2.9 47.4 + - - +
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Residues in contact with HIS 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A VAL* 3.2 57.5 - - + +
153A ASN* 2.7 31.2 + - - +
154A TYR* 3.5 22.2 - - + -
184A LYS* 2.7 48.3 + - + -
185A LEU* 3.1 19.1 + - + +
187A SER* 1.3 73.8 - - - +
189A VAL* 1.3 49.3 + - - +
191A ILE* 4.7 2.5 - - + +
192A ARG* 2.8 37.8 + - - +
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Residues in contact with VAL 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A SER 3.3 25.4 - - - +
60A ASN* 3.9 7.0 - - - +
61A ASN* 3.6 25.1 - - - +
154A TYR* 3.5 15.3 - - + +
185A LEU 3.5 3.1 + - - +
186A LYS* 2.8 12.1 + - + +
188A HIS* 1.3 75.1 - - - +
190A LYS* 1.3 58.6 + - - +
191A ILE 3.4 1.3 - - - -
192A ARG* 3.4 23.8 + - - +
193A ASN* 2.8 51.0 + - - +
243A ASN* 5.2 0.4 - - - +
246A LEU* 5.4 1.1 - - + -
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Residues in contact with LYS 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A LYS 2.9 11.6 + - - +
187A SER* 3.7 14.8 - - - +
189A VAL* 1.3 76.2 - - - +
191A ILE* 1.3 65.6 + - + +
193A ASN* 3.1 8.7 + - + +
194A ASP* 2.7 62.3 + - - +
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Residues in contact with ILE 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A PRO* 5.9 1.3 - - + -
147A GLU* 3.8 30.7 - - + +
150A VAL* 4.2 25.8 - - + -
187A SER* 2.9 35.3 + - - +
188A HIS* 5.1 3.6 - - - +
190A LYS* 1.3 72.4 - - + +
192A ARG* 1.3 62.6 + - - +
194A ASP* 3.3 18.2 + - - +
195A LEU* 3.6 11.6 + - - +
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Residues in contact with ARG 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ASN* 2.7 33.7 + - - +
147A GLU* 4.9 13.9 - - + -
150A VAL* 5.0 5.1 - - + +
151A ILE* 4.0 33.1 - - + +
154A TYR* 3.2 17.2 - - - -
188A HIS 2.8 27.3 + - - +
189A VAL* 3.4 18.5 + - - +
190A LYS 3.3 0.4 - - - -
191A ILE* 1.3 75.1 - - - +
193A ASN* 1.3 54.8 + - - +
195A LEU* 3.0 6.1 + - - -
196A LEU* 2.8 57.1 + - + +
246A LEU* 3.9 26.3 + - + +
247A THR* 5.1 2.4 + - - +
250A GLY* 4.9 14.8 - - - -
253A PHE* 5.6 0.9 - - - -
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Residues in contact with ASN 193 (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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61A ASN* 4.4 0.2 - - - +
189A VAL* 2.8 44.4 + - - +
190A LYS* 3.1 12.1 + - + +
192A ARG* 1.3 75.0 - - - +
194A ASP* 1.3 61.0 + - - +
195A LEU 3.2 1.7 + - - -
197A ASN* 2.8 46.9 + - - +
198A LYS 4.9 0.3 + - - -
243A ASN* 3.5 23.2 + - - +
246A LEU* 3.6 20.1 - - - +
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Residues in contact with ASP 194 (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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190A LYS* 2.7 49.3 + - - +
191A ILE* 3.6 12.8 - - - +
192A ARG 3.3 0.4 - - - -
193A ASN* 1.3 75.3 - - - +
195A LEU* 1.3 58.4 + - - +
198A LYS* 4.8 12.9 - - - +
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Residues in contact with LEU 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PHE* 6.3 0.2 - - + -
141A TYR* 3.4 15.7 - - + +
145A ASP* 5.9 0.7 - - - +
147A GLU* 3.3 32.5 - - + +
191A ILE 3.6 6.9 + - - +
192A ARG* 3.0 8.3 + - - +
193A ASN 3.2 0.4 - - - -
194A ASP* 1.3 81.0 - - - +
196A LEU* 1.3 69.1 + - + +
197A ASN 3.3 2.0 - - - -
198A LYS* 3.0 23.5 + - - +
199A ILE* 3.0 51.8 + - + +
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Residues in contact with LEU 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PHE* 3.6 42.4 - - + -
141A TYR* 4.7 5.4 - - + +
151A ILE* 5.8 0.2 - - + -
192A ARG* 2.8 45.8 + - + +
195A LEU* 1.3 89.0 - - + +
197A ASN* 1.3 55.2 + - - +
199A ILE* 3.3 6.3 + - + +
200A LEU* 2.8 38.6 + - + +
246A LEU* 3.9 22.9 - - + +
249A ILE* 4.7 14.4 - - + -
253A PHE* 4.6 14.1 - - + -
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Residues in contact with ASN 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A ASN* 2.8 52.2 + - - +
195A LEU 3.3 0.2 - - - -
196A LEU* 1.3 77.1 - - - +
198A LYS* 1.3 55.2 + - - +
200A LEU* 3.4 8.9 + - - +
201A GLU* 2.8 40.8 + - - +
242A ASP* 3.5 38.4 - - + +
243A ASN* 4.0 1.2 + - - +
246A LEU* 3.7 9.2 - - - +
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Residues in contact with LYS 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A ASN 4.9 1.0 + - - -
194A ASP 4.8 10.8 - - - +
195A LEU* 3.0 31.3 + - - +
197A ASN* 1.3 74.0 - - - +
199A ILE* 1.3 65.3 + - - +
201A GLU* 3.4 10.0 + - + +
202A ASN* 2.8 54.1 + - - +
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Residues in contact with ILE 199 (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 PHE* 3.9 24.7 - - + +
139A THR* 3.5 34.8 - - + +
195A LEU* 3.0 42.7 + - + +
196A LEU* 3.7 13.0 - - + +
198A LYS* 1.3 82.2 - - - +
200A LEU* 1.3 61.0 + - - +
202A ASN* 3.4 15.7 + - + +
203A TYR* 3.1 28.0 + - + -
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Residues in contact with LEU 200 (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 CYS 5.6 1.6 - - - +
137A PHE* 5.0 9.6 - - + -
196A LEU* 2.8 28.3 + - + +
197A ASN* 3.5 10.5 - - - +
199A ILE* 1.3 71.6 - - - +
201A GLU* 1.3 56.0 + - + +
203A TYR* 2.9 10.5 + - + +
204A LYS* 2.8 35.3 + - - +
218A THR* 6.2 0.7 - - + -
219A LEU* 4.1 22.2 - - + +
242A ASP* 4.3 10.1 - - + +
245A ILE* 3.8 42.2 - - + -
246A LEU* 4.1 11.9 - - - +
249A ILE* 4.0 18.4 - - + -
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Residues in contact with GLU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A ASN* 2.8 30.1 + - - +
198A LYS* 3.8 7.9 + - - +
200A LEU* 1.3 70.4 - - - +
202A ASN* 1.3 57.5 + - - +
204A LYS* 3.0 19.1 + - + +
205A GLU* 2.8 46.8 + - - +
240A LEU* 5.2 7.6 - - - +
242A ASP* 4.1 19.1 - - - +
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Residues in contact with ASN 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A LYS* 2.8 45.4 + - - +
199A ILE* 3.6 17.6 - - + +
201A GLU* 1.3 73.9 - - - +
203A TYR* 1.3 61.1 + - + +
205A GLU* 4.1 17.9 - - - +
206A LYS* 3.5 20.3 + - - +
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Residues in contact with TYR 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PHE* 4.2 17.9 - - + -
138A ASN* 2.6 38.6 + - + -
139A THR* 4.5 4.7 - - - -
199A ILE* 3.1 18.1 + - + +
200A LEU* 2.9 11.3 + - + +
202A ASN* 1.3 79.4 - - + +
204A LYS* 1.3 62.1 + - - +
205A GLU 3.3 1.1 - - - -
206A LYS* 3.0 56.8 + - + +
207A PHE* 3.8 4.0 + - - -
208A ARG 6.1 0.7 - - - -
210A ASP* 5.1 4.7 - - + -
215A MET* 3.7 33.9 - - + -
219A LEU* 3.7 19.0 - - + +
220A MET* 5.8 2.8 - - - +
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Residues in contact with LYS 204 (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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200A LEU* 2.8 21.3 + - - +
201A GLU* 3.0 23.1 + - + +
203A TYR* 1.3 71.8 - - - +
205A GLU* 1.3 61.6 + - + +
206A LYS 3.5 0.5 + - - -
207A PHE* 3.5 24.8 + - - -
219A LEU* 3.6 30.5 - - + +
220A MET* 6.0 4.3 - - - +
240A LEU* 4.1 9.5 - - - +
242A ASP* 2.7 43.5 + - - -
245A ILE* 4.8 3.4 - - - -
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Residues in contact with GLU 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A GLU* 2.8 32.1 + - - +
202A ASN* 4.1 17.0 - - - +
204A LYS* 1.3 74.2 - - + +
206A LYS* 1.3 58.2 + - - +
207A PHE* 3.2 29.6 - - + -
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Residues in contact with LYS 206 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ASN* 4.6 1.8 + - - -
202A ASN 3.5 13.8 + - - +
203A TYR* 3.0 61.9 + - + +
205A GLU* 1.3 78.5 - - - +
207A PHE* 1.3 56.1 + - - +
208A ARG* 2.7 65.3 + - + +
210A ASP* 4.7 12.1 + - + -
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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