Contacts of the helix formed by residues 192 - 216 (chain A) in PDB entry 7A62
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 GLU 192 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187A ALA* 3.0 15.2 + - - +
190A MET* 3.7 29.0 - - + +
191A GLN* 1.3 74.5 - - - +
193A ARG* 1.3 65.4 + - - +
194A ASP* 3.3 3.0 - - - +
195A THR* 3.4 24.1 + - + +
196A LEU* 3.1 22.8 + - - +
319A PHE* 5.9 1.1 - - - -
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Residues in contact with ARG 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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191A GLN 3.7 5.6 + - - +
192A GLU* 1.3 73.9 - - - +
194A ASP* 1.3 88.7 + - - +
196A LEU* 3.4 8.6 + - - +
197A LEU* 3.1 36.0 + - - +
319A PHE* 6.1 3.1 - - + -
325A ASP* 2.7 42.9 + - - +
327A GLY* 3.7 17.0 - - - +
328A LEU* 4.1 16.2 - - + +
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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
----------------------------------------------------------
192A GLU* 3.3 1.0 + - - +
193A ARG* 1.3 106.7 + - - +
195A THR* 1.3 58.3 + - - +
197A LEU* 3.2 6.8 + - - +
198A LYS* 2.9 30.0 + - - +
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Residues in contact with THR 195 (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 THR* 4.0 24.9 - - + -
187A ALA* 4.0 10.8 - - + -
192A GLU* 3.4 28.2 + - + +
193A ARG 3.4 0.4 - - - -
194A ASP* 1.3 77.9 - - - +
196A LEU* 1.3 59.3 + - - +
198A LYS* 3.3 7.2 + - - +
199A ALA* 2.8 28.2 + - - +
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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
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184A VAL* 3.8 37.9 - - + +
187A ALA* 3.7 12.5 - - + +
188A MET* 4.2 9.2 - - + +
192A GLU 3.1 16.6 + - - +
193A ARG* 3.7 4.7 - - - +
194A ASP 3.3 0.2 - - - -
195A THR* 1.3 76.8 - - - +
197A LEU* 1.3 58.3 + - - +
199A ALA* 3.3 3.8 + - - +
200A LEU* 2.9 43.6 + - + +
316A VAL* 5.3 2.5 - - + -
319A PHE* 3.5 38.6 - - + -
320A VAL* 5.0 3.6 - - + -
328A LEU* 4.1 20.4 - - + -
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Residues in contact with LEU 197 (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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193A ARG* 3.1 33.8 + - - +
194A ASP* 3.7 7.0 - - - +
196A LEU* 1.3 75.7 - - - +
198A LYS* 1.3 69.4 + - + +
200A LEU* 3.3 5.2 + - - +
201A LEU* 3.1 41.2 + - + +
327A GLY* 3.2 42.6 - - - +
328A LEU* 3.7 15.5 - - + +
331A ALA* 4.0 7.6 - - + -
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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
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194A ASP 2.9 16.7 + - - +
195A THR* 3.7 6.5 - - - +
197A LEU* 1.3 80.5 - - + +
199A ALA* 1.3 64.8 + - - +
201A LEU* 3.3 16.4 + - + +
202A GLU* 2.9 39.6 + - + +
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Residues in contact with ALA 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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180A VAL* 3.6 22.9 - - + +
183A THR* 4.3 15.3 - - + -
184A VAL* 3.8 15.7 - - + +
195A THR 2.8 17.5 + - - +
196A LEU* 3.6 7.6 - - - +
198A LYS* 1.3 77.2 - - - +
200A LEU* 1.3 62.3 + - - +
202A GLU* 3.3 5.8 + - - +
203A ILE* 3.1 27.7 + - - +
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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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184A VAL* 4.5 15.9 - - + -
196A LEU* 2.9 41.8 + - + +
197A LEU 3.8 3.6 - - - +
198A LYS 3.3 0.4 - - - -
199A ALA* 1.3 76.3 - - - +
201A LEU* 1.3 62.8 + - - +
203A ILE* 3.2 7.2 + - + -
204A ALA* 3.0 18.7 + - - +
276A LEU* 5.6 2.5 - - + -
277A LEU* 5.1 7.4 - - + -
316A VAL* 4.6 15.3 - - + -
320A VAL* 4.6 9.9 - - + -
328A LEU* 4.5 7.0 - - + +
331A ALA* 3.9 19.7 - - + +
332A TYR* 4.2 25.4 - - + +
335A CYS* 3.1 23.7 - - - -
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Residues in contact with LEU 201 (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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197A LEU* 3.1 36.5 + - + +
198A LYS* 3.5 19.3 - - + +
200A LEU* 1.3 76.3 - - - +
202A GLU* 1.3 58.4 + - - +
204A ALA* 3.3 5.7 + - + +
205A SER* 2.9 29.5 + - - -
330A GLU* 5.3 0.9 - - + -
331A ALA* 3.7 26.0 - - + -
334A ALA* 4.4 12.3 - - + -
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Residues in contact with GLU 202 (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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176A SER* 4.9 2.6 + - - +
180A VAL* 3.8 24.0 - - + +
198A LYS* 2.9 32.9 + - + +
199A ALA* 3.5 7.6 - - - +
200A LEU 3.2 0.2 - - - -
201A LEU* 1.3 76.6 - - - +
203A ILE* 1.3 57.1 + - - +
205A SER* 3.2 9.5 + - - -
206A CYS* 2.9 48.6 + - - -
209A LYS* 5.3 3.8 + - - -
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Residues in contact with ILE 203 (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 ALA* 3.7 20.5 - - + +
180A VAL* 3.7 30.7 - - + -
181A ILE* 4.6 4.9 - - + -
184A VAL* 4.0 17.7 - - + -
199A ALA 3.1 14.5 + - - +
200A LEU* 3.5 11.4 - - + +
202A GLU* 1.3 75.1 - - - +
204A ALA* 1.3 57.3 + - - +
206A CYS* 3.2 2.3 + - - +
207A LEU* 2.8 36.8 + - + +
273A PHE* 3.9 24.0 - - + -
276A LEU* 4.2 19.3 - - + -
335A CYS* 3.7 15.9 - - + -
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Residues in contact with ALA 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 3.0 11.5 + - - +
201A LEU* 3.7 7.9 - - + +
203A ILE* 1.3 77.1 - - - +
205A SER* 1.3 58.4 + - - +
207A LEU* 3.3 6.1 + - - +
208A GLU* 2.8 35.3 + - + +
334A ALA* 3.5 44.6 - - + +
335A CYS* 3.6 9.9 - - - +
338A ALA* 4.0 1.6 - - + +
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Residues in contact with SER 205 (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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201A LEU 2.9 17.2 + - - -
202A GLU* 3.5 11.8 + - - -
204A ALA* 1.3 77.6 - - - +
206A CYS* 1.3 59.0 + - - +
208A GLU* 3.1 9.5 + - - +
209A LYS* 2.9 52.5 + - - +
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Residues in contact with CYS 206 (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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173A ALA 4.5 6.2 - - - +
174A ALA* 6.0 0.2 - - - -
176A SER* 3.7 34.3 - - - -
177A ALA* 3.8 20.0 - - + +
202A GLU* 2.9 42.6 + - - +
203A ILE 3.8 2.9 - - - +
205A SER* 1.3 76.7 - - - +
207A LEU* 1.3 60.7 + - - +
209A LYS* 3.1 18.8 + - - +
210A ALA* 2.8 27.4 + - - +
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Residues in contact with LEU 207 (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 ALA* 5.2 7.4 - - + -
177A ALA* 4.3 5.4 - - + -
203A ILE* 2.8 35.7 + - + +
204A ALA* 3.7 4.7 - - - +
206A CYS* 1.3 76.9 - - - +
208A GLU* 1.3 58.3 + - - +
210A ALA* 3.3 10.2 + - + +
211A LEU* 3.1 24.6 + - - +
269A VAL* 5.3 3.4 - - + -
273A PHE* 4.1 40.8 - - + -
277A LEU* 6.0 0.9 - - + -
335A CYS* 4.3 12.1 - - + +
338A ALA* 3.8 22.1 - - + +
339A LEU* 4.5 10.3 - - + +
342A LEU* 4.1 23.6 - - + +
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Residues in contact with GLU 208 (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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204A ALA* 2.8 18.5 + - + +
205A SER* 3.1 11.0 + - - +
207A LEU* 1.3 76.0 - - - +
209A LYS* 1.3 65.2 + - + +
211A LEU* 3.2 35.7 + - - +
212A GLN* 3.4 19.4 + - - +
337A LYS* 4.9 0.5 - - - +
338A ALA* 3.6 26.8 + - + +
341A SER* 3.9 10.7 + - - -
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Residues in contact with LYS 209 (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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173A ALA* 4.8 3.4 - - + -
202A GLU* 5.3 4.0 + - - -
205A SER* 2.9 35.9 + - - +
206A CYS* 3.6 19.4 - - - +
208A GLU* 1.3 74.3 - - + +
210A ALA* 1.3 65.2 + - - +
212A GLN* 3.1 17.8 + - - +
213A VAL* 3.2 19.0 + - + +
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Residues in contact with ALA 210 (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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170A VAL* 4.5 14.3 - - + +
173A ALA* 3.7 23.7 - - + +
174A ALA* 4.4 12.3 - - + +
206A CYS 2.8 13.7 + - - +
207A LEU* 3.5 15.9 - - + +
208A GLU 3.2 0.2 - - - -
209A LYS* 1.3 78.1 - - - +
211A LEU* 1.3 60.0 + - - +
213A VAL* 3.3 4.2 + - - +
214A PHE* 3.2 20.3 + - - +
342A LEU* 4.3 11.6 - - + +
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Residues in contact with LEU 211 (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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207A LEU 3.1 12.4 + - - +
208A GLU* 3.4 28.3 - - - +
209A LYS 3.2 0.4 - - - -
210A ALA* 1.3 77.4 - - - +
212A GLN* 1.3 68.3 + - - +
214A PHE* 3.2 13.0 + - + +
215A HIS* 2.8 26.8 + - + -
338A ALA 5.8 0.2 - - - +
341A SER* 3.8 27.8 - - - +
342A LEU* 3.7 20.1 - - + +
345A TYR* 3.5 39.3 - - + -
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Residues in contact with GLN 212 (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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208A GLU* 3.7 13.9 + - - +
209A LYS* 3.1 11.0 + - - +
211A LEU* 1.3 87.5 - - - +
213A VAL* 1.3 69.4 + - + +
215A HIS* 2.9 47.7 + - - +
216A GLN* 4.1 3.3 + - - +
222D ASN* 5.9 2.6 - - - +
223D PRO* 5.5 6.8 - - - +
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Residues in contact with VAL 213 (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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166A VAL* 4.2 4.5 - - + +
169A LEU* 3.6 36.8 - - + +
170A VAL* 3.8 7.9 - - + +
173A ALA* 3.9 16.6 - - + -
209A LYS* 3.2 15.3 + - + +
210A ALA* 3.5 9.2 - - - +
212A GLN* 1.3 75.6 - - + +
214A PHE* 1.3 64.4 + - - +
216A GLN* 3.0 44.4 + - - +
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Residues in contact with PHE 214 (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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166A VAL* 4.5 2.6 - - + +
170A VAL* 4.0 17.7 - - + +
210A ALA 3.2 10.9 + - - +
211A LEU* 3.3 15.0 - - - +
212A GLN 3.1 0.2 - - - -
213A VAL* 1.3 77.7 - - - +
215A HIS* 1.3 60.4 + - - +
216A GLN 3.1 1.2 + - - -
217A ILE* 3.3 25.5 + - + +
270A PHE* 5.0 6.1 - + - -
342A LEU* 4.5 18.6 - - + -
345A TYR* 3.9 21.1 - + + -
346A HIS* 4.0 26.0 - + + -
349A ILE* 3.9 22.2 - - + -
502A HEM 3.6 55.0 - + + -
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Residues in contact with HIS 215 (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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211A LEU* 2.8 35.3 + - + -
212A GLN* 2.9 40.2 + - - +
214A PHE* 1.3 77.5 - - - +
216A GLN* 1.3 58.2 + - + +
217A ILE 2.9 6.5 + - - -
218A HIS* 3.1 24.7 + - + +
219A ASP* 4.5 1.6 + - - +
345A TYR* 3.3 43.0 - + - +
218D HIS* 4.3 19.1 - - + +
219D ASP* 4.5 3.4 - - - +
222D ASN* 6.5 1.1 - - + -
352D LYS* 5.5 8.1 + - - -
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Residues in contact with GLN 216 (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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145A TYR* 4.4 11.1 - - - +
166A VAL* 4.2 11.6 - - + +
169A LEU* 3.9 23.4 - - - +
212A GLN 4.6 2.0 - - - +
213A VAL* 3.0 43.2 + - - +
215A HIS* 1.3 75.0 - - - +
217A ILE* 1.3 63.0 + - - +
218A HIS 3.1 0.7 - - - -
219A ASP* 3.1 24.0 + - - +
220A HIS* 3.4 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