Contacts of the helix formed by residues 195 - 216 (chain A) in PDB entry 3A46
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 THR 195 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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151A LYS* 4.2 2.0 - - - +
189A LYS* 5.2 1.8 - - - +
193A ASN 4.6 4.7 - - - +
194A LEU* 1.3 74.1 - - - +
196A ASP* 1.3 59.2 + - - +
197A GLN* 3.3 11.2 + - - +
198A GLU* 2.9 42.5 + - + +
199A ILE* 2.9 31.0 + - - +
289A GLU* 5.7 2.0 - - - +
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Residues in contact with ASP 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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148A SER* 5.9 1.2 - - - -
151A LYS* 3.5 28.8 + - - +
195A THR* 1.3 75.0 - - - +
197A GLN* 1.3 60.9 + - - +
199A ILE* 3.4 8.8 + - - +
200A GLU* 3.1 29.9 + - - +
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Residues in contact with GLN 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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195A THR* 3.0 10.2 - - - +
196A ASP* 1.3 79.6 - - - +
198A GLU* 1.3 64.3 + - + +
200A GLU* 3.0 49.0 + - - +
201A ASN* 3.2 15.2 + - - +
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Residues in contact with GLU 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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185A ILE* 4.3 17.7 - - + +
189A LYS* 3.0 27.0 + - - +
194A LEU* 3.3 21.2 - - + +
195A THR* 2.9 50.6 + - - +
197A GLN* 1.3 77.2 - - + +
199A ILE* 1.3 54.6 + - - +
201A ASN* 3.1 8.3 + - - +
202A LEU* 2.8 37.1 + - - +
287A LYS 5.1 0.3 - - - +
289A GLU* 2.8 36.5 + - - +
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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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147A ILE* 3.0 35.9 - - + +
148A SER* 4.0 16.4 - - - -
150A ILE* 4.0 19.5 - - + -
151A LYS* 4.3 16.4 - - + -
194A LEU* 3.6 35.7 - - + +
195A THR 2.9 27.3 + - - +
196A ASP* 3.6 11.2 - - - +
197A GLN 3.3 0.2 - - - -
198A GLU* 1.3 75.8 - - - +
200A GLU* 1.3 64.4 + - - +
202A LEU* 3.2 6.8 + - + +
203A TRP 3.0 19.6 + - - -
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Residues in contact with GLU 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 ASP* 3.1 13.6 + - - +
197A GLN* 3.0 40.9 + - - +
199A ILE* 1.3 79.7 - - - +
201A ASN* 1.3 61.5 + - - +
203A TRP* 3.6 10.1 + - - +
204A TYR* 3.2 21.3 + - - +
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Residues in contact with ASN 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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182A ARG 4.9 0.2 + - - -
183A ALA* 3.3 39.8 + - - +
185A ILE* 5.2 1.2 - - - +
197A GLN* 3.2 22.8 + - - +
198A GLU* 3.1 12.2 + - - +
199A ILE 3.1 0.6 - - - -
200A GLU* 1.3 77.6 - - + +
202A LEU* 1.3 63.5 + - - +
204A TYR* 3.1 9.2 + - - +
205A TRP* 3.1 40.5 + - - +
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Residues in contact with LEU 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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147A ILE* 4.7 8.1 - - + -
150A ILE* 5.0 5.8 - - + -
157A ILE* 3.8 30.7 - - + -
161A LEU* 4.1 12.1 - - + -
179A ILE* 3.7 24.9 - - + -
180A LEU* 4.1 17.7 - - + -
183A ALA* 4.3 10.5 - - + +
185A ILE* 4.2 12.6 - - + -
194A LEU* 4.6 9.6 - - + -
198A GLU 2.8 19.7 + - - +
199A ILE* 3.2 6.7 + - + +
201A ASN* 1.3 71.0 - - - +
203A TRP* 1.3 66.1 + - - +
205A TRP* 3.0 2.9 + - - -
206A ILE* 2.9 37.5 + - + +
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Residues in contact with TRP 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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139A PHE* 3.9 24.9 - + - -
142A ASN 3.8 17.9 - - - -
143A ASP 3.6 24.4 + - - -
144A ASP* 5.8 0.2 - - - +
145A ILE* 3.9 27.9 + - + -
147A ILE* 3.1 40.3 - - + +
199A ILE 3.0 9.4 + - - +
200A GLU* 3.8 10.5 - - + +
202A LEU* 1.3 75.1 - - - +
204A TYR* 1.3 64.6 + - - +
206A ILE* 3.2 12.5 + - + -
207A LYS* 3.2 67.8 + - + +
238A HIS* 4.4 2.5 - + - -
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Residues in contact with TYR 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 GLU 3.2 11.7 + - - +
201A ASN* 3.1 13.8 + - - +
203A TRP* 1.3 82.0 - - - +
205A TRP* 1.3 101.8 + + - +
207A LYS* 3.4 13.5 + - - +
208A TYR* 3.0 46.3 + + - +
241A ILE* 3.5 28.8 - - + +
242A HIS 5.3 2.8 + - - -
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Residues in contact with TRP 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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179A ILE* 4.1 20.0 - - + +
182A ARG* 3.4 52.5 + - + -
183A ALA* 3.6 19.3 - - + -
201A ASN* 3.1 35.9 + - - +
202A LEU 3.0 7.3 + - - +
204A TYR* 1.3 94.9 - + - +
206A ILE* 1.3 61.0 + - - +
208A TYR* 3.5 47.1 - + + -
209A GLU* 2.8 34.9 + - - +
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Residues in contact with ILE 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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139A PHE* 3.5 53.6 - - + +
147A ILE* 4.8 5.4 - - + -
161A LEU* 4.3 13.2 - - + -
167A ILE* 6.2 0.2 - - + -
171A LEU* 4.5 8.1 - - + -
179A ILE* 3.8 25.6 - - + -
202A LEU* 2.9 37.1 + - + +
203A TRP* 3.2 22.2 + - + +
205A TRP* 1.3 75.7 - - - +
207A LYS* 1.3 59.8 + - - +
209A GLU* 3.9 0.9 - - - +
210A THR* 2.8 40.0 + - + +
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Residues in contact with LYS 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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143A ASP* 3.9 10.4 + - - +
203A TRP* 3.2 64.8 + - + +
204A TYR* 3.6 14.1 - - - +
206A ILE* 1.3 73.4 - - - +
208A TYR* 1.3 64.9 + - - +
210A THR* 3.1 6.2 + - - -
211A LYS* 3.0 29.0 + - - +
238A HIS* 3.5 38.4 - - + +
241A ILE* 4.1 26.6 - - + +
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Residues in contact with TYR 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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182A ARG* 4.0 10.4 + - - -
204A TYR* 3.0 40.8 + - + +
205A TRP* 3.4 35.0 + + + +
207A LYS* 1.3 77.5 - - - +
209A GLU* 1.3 77.1 + - - +
211A LYS 3.9 0.2 - - - -
212A LEU* 3.0 32.2 + - + +
241A ILE* 3.8 21.2 - - + +
242A HIS 4.0 5.8 - - - -
243A PRO* 3.4 27.6 - - + +
244A THR* 3.0 17.8 + - + +
245A GLU* 2.3 35.8 + - - -
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Residues in contact with GLU 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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175A LEU* 4.4 7.2 - - + -
178A GLU* 3.5 13.0 - - - +
179A ILE* 3.5 35.4 - - + +
182A ARG* 3.3 39.9 + - + -
205A TRP* 2.8 23.7 + - + +
208A TYR* 1.3 88.4 - - + +
210A THR* 1.3 61.3 + - - +
212A LEU* 3.7 5.2 - - - +
213A ALA* 2.9 30.1 + - - +
248A PHE* 3.1 32.7 - - - -
249A ASP 5.3 0.3 - - - +
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Residues in contact with THR 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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5A PRO* 3.6 14.1 - - + +
139A PHE* 4.0 9.3 + - + -
140A LEU* 3.9 17.9 - - + +
171A LEU* 3.7 30.3 - - + -
175A LEU* 4.6 8.5 - - + -
179A ILE* 4.9 2.0 - - + -
206A ILE* 2.8 30.1 + - + +
207A LYS* 3.1 9.9 + - - -
209A GLU* 1.3 75.1 - - - +
211A LYS* 1.3 60.4 + - - +
213A ALA* 3.3 2.9 + - - +
214A TYR* 2.8 29.6 + - - +
238A HIS* 3.6 12.8 + - - -
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Residues in contact with LYS 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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140A LEU* 4.1 9.6 - - + -
207A LYS 3.0 19.8 + - - +
208A TYR* 3.9 2.5 - - - +
210A THR* 1.3 75.5 + - - +
212A LEU* 1.3 63.7 + - - +
214A TYR* 3.4 3.9 + - + +
215A ASP* 3.0 48.4 + - - +
235A LYS 5.8 0.9 - - - -
236A ASN* 3.2 22.3 + - - +
237A TYR* 3.0 23.1 + - + +
238A HIS* 2.7 32.5 + - + +
239A PRO 3.9 5.3 + - - -
241A ILE* 2.9 25.9 + - + +
242A HIS* 4.7 3.8 + - - -
243A PRO* 4.3 11.0 - - + -
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Residues in contact with LEU 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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182A ARG* 4.3 4.7 - - - +
208A TYR* 3.0 20.3 + - + +
209A GLU* 3.7 16.6 - - - +
210A THR 3.3 0.2 - - - -
211A LYS* 1.3 76.7 - - - +
213A ALA* 1.3 61.4 + - - +
215A ASP* 3.3 7.7 + - + +
216A SER* 2.9 26.7 + - - -
243A PRO* 3.8 17.2 - - + +
245A GLU* 3.4 57.7 - - + +
246A LYS 4.9 0.9 - - - -
247A GLU* 4.3 2.0 - - - +
248A PHE* 3.4 37.9 - - + +
249A ASP 4.7 2.0 - - - +
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Residues in contact with ALA 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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5A PRO* 3.8 21.0 - - + +
6A GLU* 5.2 0.3 - - - +
9A LEU* 5.7 0.7 - - - +
174A TYR* 4.3 2.0 - - - +
175A LEU* 4.1 11.4 - - + -
209A GLU 2.9 17.7 + - - +
210A THR 3.5 4.5 - - - +
212A LEU* 1.3 79.4 - - - +
214A TYR* 1.3 62.7 + - - +
216A SER* 3.1 17.8 + - - +
219A ILE* 3.6 26.5 - - + +
248A PHE* 3.7 10.9 - - + -
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Residues in contact with TYR 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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5A PRO* 3.7 21.5 - - + +
8A ALA* 4.2 6.1 - - + -
9A LEU* 3.9 23.6 - - + +
12A ASP* 2.7 28.9 + - - -
140A LEU* 3.8 24.2 - - + -
210A THR 2.8 18.3 + - - +
211A LYS* 3.7 6.5 - - + +
213A ALA* 1.3 78.1 - - - +
215A ASP* 1.3 68.9 + - - +
216A SER 3.3 4.2 + - - +
233A GLY 4.9 0.2 + - - -
234A ARG* 2.9 40.1 + - + -
235A LYS* 3.0 45.5 + - - +
237A TYR* 3.7 18.5 - + + -
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Residues in contact with ASP 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 LYS* 3.0 43.4 + - - +
212A LEU* 3.8 9.5 - - + +
214A TYR* 1.3 81.3 - - - +
216A SER* 1.3 64.7 + - - +
217A ASN* 3.9 7.3 + - - -
234A ARG* 3.4 40.8 + - + +
235A LYS 4.9 1.2 - - - +
243A PRO* 5.1 5.0 - - - +
246A LYS 5.0 6.6 - - - +
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Residues in contact with SER 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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9A LEU* 3.9 7.4 - - - +
212A LEU 2.9 15.9 + - - -
213A ALA 3.1 13.8 + - - +
214A TYR 3.7 4.0 - - - +
215A ASP* 1.3 79.1 - - - +
217A ASN* 1.3 57.8 + - - +
218A HIS 3.7 0.2 - - - -
219A ILE* 3.6 16.6 - - - -
234A ARG* 2.8 16.9 + - - -
246A LYS 5.1 0.2 - - - -
247A GLU* 3.1 22.2 - - - +
248A PHE* 2.8 30.3 + - - +
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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