Contacts of the helix formed by residues 191 - 212 (chain A) in PDB entry 3A61
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 MET 191 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189A ILE* 3.9 1.4 + - - -
190A PHE* 1.3 75.1 - - - +
192A GLU* 1.3 68.8 + - - +
193A ASP* 3.0 12.4 + - + +
194A THR* 3.1 24.5 + - - +
195A ALA* 2.9 18.9 + - - +
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Residues in contact with GLU 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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190A PHE 3.8 0.8 + - - -
191A MET* 1.3 73.1 - - - +
193A ASP* 1.3 60.2 + - - +
195A ALA* 3.3 2.8 + - - +
196A CYS* 2.9 27.9 + - - +
287A LEU* 4.1 19.3 - - + -
315A TYR 5.8 1.1 - - - +
316A LEU* 3.9 7.6 - - + +
317A THR* 2.7 55.2 + - + +
319A GLU* 5.0 1.2 - - - +
320A ALA* 3.2 16.7 - - - +
351A PHE* 3.5 21.4 - - - -
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Residues in contact with ASP 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 MET* 3.1 11.5 - - + +
192A GLU* 1.3 74.5 - - - +
194A THR* 1.3 61.1 + - - +
195A ALA 2.8 1.1 - - - -
196A CYS* 2.5 38.0 + - - +
197A PHE* 2.9 12.7 + - - +
354A HIS* 5.5 6.4 - - - -
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Residues in contact with THR 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 PHE* 3.3 25.8 - - + -
191A MET* 3.1 36.9 + - - +
193A ASP* 1.3 78.2 - - - +
195A ALA* 1.3 58.2 + - - +
197A PHE* 3.7 3.9 - - - +
198A TYR* 3.4 24.2 + - + -
368A PRO* 3.9 22.3 - - + +
369A PHE* 3.3 36.2 - - + -
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Residues in contact with ALA 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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190A PHE* 4.0 6.1 - - + -
191A MET 2.9 4.9 + - - +
192A GLU 3.6 2.9 - - - +
193A ASP 2.6 4.6 + - - -
194A THR* 1.3 72.5 - - - +
196A CYS* 1.3 63.6 + - - +
197A PHE 3.1 2.0 - - - -
198A TYR 3.6 0.6 + - - +
199A LEU* 3.0 35.3 + - + +
286A MET* 3.8 25.4 - - + +
287A LEU* 3.1 36.1 - - + -
351A PHE* 5.4 0.7 - - + -
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Residues in contact with CYS 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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192A GLU 2.9 13.1 + - - +
193A ASP* 2.5 23.9 + - - +
195A ALA* 1.3 69.6 - - - +
197A PHE* 1.3 73.4 + - - +
199A LEU* 4.3 1.1 - - - -
200A ALA* 3.3 18.5 + - - +
351A PHE* 3.4 43.9 - - + +
352A PHE* 3.8 4.7 - - + -
354A HIS* 6.0 4.9 - - - -
355A ILE* 4.4 20.6 - - - +
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Residues in contact with PHE 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 ASP 2.9 9.0 + - - +
194A THR 3.7 8.1 - - - +
196A CYS* 1.3 77.8 - - - +
198A TYR* 1.3 81.8 + + - +
199A LEU 2.5 17.6 + - - -
200A ALA* 2.6 19.7 + - - +
201A GLU* 2.8 48.9 + - - -
230A GLY 4.4 0.7 - - - -
231A HIS* 4.6 2.0 - - - -
355A ILE* 5.2 4.5 - - + -
360A LEU* 4.0 24.2 - - + -
365A VAL* 4.2 23.3 - - + -
366A GLU 4.9 1.6 - - - -
367A PRO* 3.6 30.5 - - + -
368A PRO* 3.6 23.1 - - + -
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Residues in contact with TYR 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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180A LEU* 3.6 35.0 - - + -
183A GLN* 5.2 0.3 - - - +
190A PHE* 4.3 9.2 - + - -
194A THR 3.4 20.6 + - - +
195A ALA 3.6 3.7 + - - +
197A PHE* 1.3 93.0 - + - +
199A LEU* 1.3 57.3 + - - +
200A ALA 3.5 0.2 - - - -
201A GLU* 3.9 3.1 + - - +
202A ILE* 3.0 31.3 + - - +
226A LEU* 3.3 38.3 - - + +
230A GLY 3.6 16.0 + - - -
232A VAL* 3.4 22.5 - - + +
286A MET* 4.5 7.2 - - + -
367A PRO* 4.5 0.3 - - - +
368A PRO* 3.9 10.1 - - + -
369A PHE* 3.8 44.3 + + - +
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Residues in contact with LEU 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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195A ALA* 3.0 28.2 + - + +
196A CYS 4.0 3.8 - - - +
197A PHE 2.5 5.9 + - - -
198A TYR* 1.3 73.1 - - - +
200A ALA* 1.3 64.1 + - - +
202A ILE* 3.5 7.3 + - + +
203A SER* 3.0 20.6 + - - -
279A LEU* 4.1 28.8 - - + +
282A LEU* 4.5 1.1 - - + -
283A MET* 3.1 58.1 - - + +
286A MET* 3.5 26.2 - - + -
323A LEU* 5.4 0.2 - - + -
351A PHE* 4.2 4.7 - - + -
352A PHE* 4.0 14.6 - - + -
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Residues in contact with ALA 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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196A CYS 3.3 10.1 + - - +
197A PHE 2.6 15.0 + - - +
199A LEU* 1.3 69.8 - - - +
201A GLU* 1.3 69.6 + - - +
203A SER* 2.2 31.2 + - - -
204A MET* 3.0 4.9 + - - +
352A PHE* 3.6 12.1 - - + -
355A ILE* 4.2 7.0 - - + -
357A TRP* 3.2 28.7 - - + -
360A LEU* 3.6 12.8 - - + -
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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
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154A PHE* 3.6 44.0 - - + -
197A PHE* 2.8 43.4 + - + +
198A TYR 4.0 5.8 - - - +
200A ALA* 1.3 75.7 - - - +
202A ILE* 1.3 68.7 + - - +
203A SER 2.6 2.1 + - - -
204A MET* 2.7 15.9 + - - +
205A ALA 3.2 5.9 + - - -
231A HIS* 3.0 21.8 + - - -
232A VAL* 2.9 40.6 + - + +
360A LEU* 3.8 15.2 - - + +
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Residues in contact with ILE 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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198A TYR 3.0 19.9 + - - +
199A LEU* 3.5 10.3 - - + +
200A ALA 3.3 0.6 - - - -
201A GLU* 1.3 75.8 - - - +
203A SER* 1.3 53.0 + - - +
205A ALA* 2.7 29.6 + - - +
206A LEU* 2.9 21.5 + - + +
219A LEU* 4.2 16.6 - - + -
224A ILE* 3.4 28.5 - - + -
232A VAL* 3.8 21.5 - - + +
234A LEU* 4.4 10.8 - - + -
279A LEU* 4.2 16.4 - - + -
282A LEU* 4.2 16.8 - - + -
286A MET* 4.5 8.3 - - + -
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Residues in contact with SER 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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199A LEU 3.0 14.2 + - - -
200A ALA* 2.2 30.5 + - - -
201A GLU 2.6 4.0 + - - -
202A ILE* 1.3 73.3 - - - +
204A MET* 1.3 58.8 + - - +
206A LEU* 3.5 5.3 + - - +
207A GLY* 3.2 16.6 + - - -
276A TRP* 4.0 17.5 - - - -
279A LEU* 4.9 8.1 - - - -
343A ALA* 3.8 6.1 - - - +
346A VAL* 5.0 5.4 - - - -
347A GLN* 3.3 32.8 + - - +
352A PHE* 5.1 2.9 - - - -
357A TRP* 4.0 0.3 - - - -
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Residues in contact with MET 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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152A HIS* 3.1 21.1 - - + +
154A PHE* 4.6 10.3 - - + -
200A ALA 3.5 12.3 - - - +
201A GLU 2.7 10.2 + - - +
203A SER* 1.3 76.0 + - - +
205A ALA* 1.3 62.0 + - - +
207A GLY* 3.6 2.9 - - - +
208A HIS 3.3 11.3 + - - -
347A GLN* 3.3 23.1 - - - +
357A TRP* 3.8 41.3 - - + +
360A LEU* 4.4 10.1 - - - -
361A LEU* 4.1 33.4 - - + -
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Residues in contact with ALA 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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152A HIS* 3.6 10.9 + - - +
154A PHE* 4.0 24.0 - - + +
155A ILE* 4.5 5.9 - - + +
201A GLU 3.2 5.3 + - - +
202A ILE* 2.7 18.2 + - - +
204A MET* 1.3 75.3 - - - +
206A LEU* 1.3 61.4 + - - +
207A GLY 2.8 5.6 + - - -
208A HIS* 3.3 4.2 + - - +
209A LEU* 3.1 25.6 + - - +
234A LEU* 3.9 20.6 - - + -
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Residues in contact with LEU 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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202A ILE* 2.9 14.7 + - + +
203A SER* 3.5 8.0 + - - +
205A ALA* 1.3 76.7 - - - +
207A GLY* 1.3 61.4 + - - +
209A LEU* 3.8 7.7 - - + +
210A HIS* 3.2 30.4 + - - +
216A TYR* 4.6 11.2 - - + -
219A LEU* 4.0 27.8 - - + -
234A LEU* 3.6 26.0 - - + -
275A ASP* 3.6 44.4 - - + +
276A TRP* 4.0 25.4 - - + -
279A LEU* 5.1 4.9 - - + -
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Residues in contact with GLY 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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203A SER 3.2 7.8 + - - -
204A MET* 3.5 4.2 + - - -
205A ALA 2.8 1.8 - - - -
206A LEU* 1.3 76.7 - - - +
208A HIS* 1.3 70.4 + - - +
210A HIS* 3.2 9.2 + - - +
211A GLN* 3.4 11.1 + - - +
342A ASP* 4.0 5.4 - - - +
343A ALA* 3.7 27.4 - - - -
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Residues in contact with HIS 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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150A VAL* 4.0 14.9 - - + +
151A LYS 4.0 20.2 - - - -
152A HIS* 3.0 53.2 + - + +
155A ILE* 4.7 1.2 - - + +
204A MET 3.3 4.9 + - - -
205A ALA 3.3 6.5 + - - +
207A GLY* 1.3 70.4 - - - +
209A LEU* 1.3 59.9 + - - +
210A HIS 2.4 15.6 + - - -
211A GLN* 2.7 30.9 + - - +
212A LYS* 3.3 29.4 + - + -
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Residues in contact with LEU 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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146A ILE* 4.8 0.2 - - + -
150A VAL* 4.2 17.9 - - + -
155A ILE* 3.7 30.3 - - + -
205A ALA 3.1 12.0 + - - +
206A LEU* 3.8 11.7 - - + +
208A HIS* 1.3 80.4 - - - +
210A HIS* 1.3 57.9 + - + +
212A LYS* 3.0 21.1 + - - +
214A ILE* 3.1 55.2 + - + +
216A TYR* 3.7 32.8 - - + -
234A LEU* 4.2 8.5 - - + -
237A PHE* 4.3 10.3 - - + -
275A ASP* 5.8 0.4 - - - +
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Residues in contact with HIS 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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206A LEU* 3.2 18.3 + - + +
207A GLY 3.2 5.1 + - - +
208A HIS 2.4 7.7 + - - -
209A LEU* 1.3 74.7 - - + +
211A GLN* 1.3 56.1 + - - +
212A LYS 3.0 4.7 - - - -
213A GLY* 2.8 20.0 + - - +
214A ILE 3.4 18.6 - - - +
215A ILE* 3.7 12.4 - - + +
272A ARG* 3.5 46.0 - - + +
275A ASP* 2.5 39.1 + - + -
276A TRP* 3.8 11.9 + + - -
342A ASP* 3.1 25.8 + - - +
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Residues in contact with GLN 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 GLY 3.4 6.0 + - - +
208A HIS* 2.7 20.7 + - - +
210A HIS* 1.3 74.5 - - - +
212A LYS* 1.3 79.8 + - - +
213A GLY 3.2 2.4 + - - -
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Residues in contact with LYS 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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149A GLU* 4.6 30.3 - - + -
150A VAL* 4.9 9.6 - - + -
151A LYS 5.9 0.2 - - - +
208A HIS* 3.3 32.2 + - + +
209A LEU* 3.0 12.7 + - - +
210A HIS 3.0 0.8 - - - -
211A GLN* 1.3 96.1 + - - +
213A GLY* 1.3 63.2 + - - +
214A ILE* 3.0 17.7 + - + +
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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