Contacts of the helix formed by residues 195 - 216 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B LYS* 4.4 2.0 - - - +
189B LYS* 5.1 1.8 - - - +
193B ASN 4.5 5.4 - - - +
194B LEU* 1.3 74.8 - - - +
196B ASP* 1.3 60.1 + - - +
197B GLN* 3.5 10.9 + - - +
198B GLU* 2.9 40.8 + - - +
199B ILE* 2.9 29.9 + - - +
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Residues in contact with ASP 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B SER* 5.8 1.4 - - - -
151B LYS* 3.5 29.9 + - - +
194B LEU 4.1 0.2 + - - -
195B THR* 1.3 73.4 - - - +
197B GLN* 1.3 60.0 + - - +
199B ILE* 3.6 8.8 - - - +
200B GLU* 3.2 28.8 + - - +
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Residues in contact with GLN 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B THR* 3.0 10.5 - - - +
196B ASP* 1.3 77.7 - - - +
198B GLU* 1.3 65.9 + - + +
200B GLU* 3.1 49.9 + - - +
201B ASN* 3.1 15.0 + - - +
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Residues in contact with GLU 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184B LYS 5.6 0.9 - - - +
185B ILE* 4.4 20.5 - - + +
189B LYS* 2.8 36.1 + - - +
194B LEU* 3.4 19.2 - - + +
195B THR* 2.9 43.4 + - - +
197B GLN* 1.3 74.1 - - + +
199B ILE* 1.3 60.2 + - - +
201B ASN* 3.2 8.2 + - - +
202B LEU* 2.8 31.9 + - - +
288B LEU* 6.0 0.3 - - - +
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Residues in contact with ILE 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B ILE* 3.0 34.0 - - + +
148B SER* 4.0 16.4 - - - +
150B ILE* 3.9 21.8 - - + -
151B LYS* 4.2 20.2 - - + -
194B LEU* 3.7 32.1 - - + -
195B THR 2.9 21.9 + - - +
196B ASP* 3.6 11.9 - - - +
197B GLN 3.2 0.2 - - - -
198B GLU* 1.3 77.0 - - - +
200B GLU* 1.3 59.0 + - + +
202B LEU* 3.1 6.4 + - + +
203B TRP 2.9 24.4 + - - -
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Residues in contact with GLU 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196B ASP* 3.2 14.3 + - - +
197B GLN* 3.1 40.7 + - - +
199B ILE* 1.3 81.7 - - - +
201B ASN* 1.3 61.8 + - - +
203B TRP* 3.5 10.2 + - + +
204B TYR* 3.2 21.7 + - - +
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Residues in contact with ASN 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B ALA* 3.2 38.6 + - - +
185B ILE* 5.4 0.6 - - - +
197B GLN* 3.1 25.9 + - - +
198B GLU* 3.5 9.1 + - - +
200B GLU* 1.3 76.6 - - + +
202B LEU* 1.3 63.3 + - - +
204B TYR* 3.4 7.8 + - - +
205B TRP* 3.0 44.5 + - - +
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Residues in contact with LEU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B ILE* 4.6 7.4 - - + -
150B ILE* 4.9 5.8 - - + -
157B ILE* 3.8 29.8 - - + -
161B LEU* 4.3 9.9 - - + -
179B ILE* 3.9 23.3 - - + -
180B LEU* 4.1 12.8 - - + -
183B ALA* 4.3 9.2 - - + -
185B ILE* 4.1 18.4 - - + -
194B LEU* 4.5 11.2 - - + -
198B GLU 2.8 16.2 + - - +
199B ILE* 3.3 7.6 - - + +
201B ASN* 1.3 75.1 - - - +
203B TRP* 1.3 64.9 + - - +
205B TRP* 3.2 2.4 + - - +
206B ILE* 2.9 38.6 + - + +
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Residues in contact with TRP 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139B PHE* 4.0 14.8 - + - -
142B ASN 3.7 17.7 - - - -
143B ASP 3.7 21.1 + - - -
144B ASP* 5.6 0.8 - - - +
145B ILE* 3.8 32.3 + - + +
147B ILE* 3.2 39.4 - - + +
199B ILE 2.9 7.1 + - - +
200B GLU* 3.6 13.5 - - + +
202B LEU* 1.3 75.5 - - - +
204B TYR* 1.3 64.0 + - - +
206B ILE* 3.3 22.6 + - + -
207B LYS* 3.1 66.9 + - + +
238B HIS* 4.4 1.8 - + - -
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Residues in contact with TYR 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200B GLU 3.2 10.5 + - - +
201B ASN* 3.5 12.3 - - - +
202B LEU 3.2 0.4 - - - -
203B TRP* 1.3 80.7 - - - +
205B TRP* 1.3 99.1 + + - +
207B LYS* 3.3 15.7 + - - +
208B TYR* 2.9 51.0 + + - +
241B ILE* 4.3 24.2 - - + +
242B HIS 5.6 0.7 + - - -
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Residues in contact with TRP 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179B ILE* 4.2 20.6 - - + +
182B ARG* 3.5 56.6 + - + -
183B ALA* 3.6 19.2 - - + +
201B ASN* 3.0 39.4 + - - +
202B LEU 3.2 4.3 + - - +
204B TYR* 1.3 97.0 - + - +
206B ILE* 1.3 60.2 + - - +
208B TYR* 3.7 41.7 - + + -
209B GLU* 2.8 34.9 + - - +
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Residues in contact with ILE 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139B PHE* 3.7 43.1 - - + +
147B ILE* 4.6 6.7 - - + -
161B LEU* 4.3 18.6 - - + -
171B LEU* 4.6 6.5 - - + -
179B ILE* 3.9 26.9 - - + -
202B LEU* 2.9 39.8 + - + +
203B TRP* 3.5 25.8 - - + +
205B TRP* 1.3 76.9 - - - +
207B LYS* 1.3 60.4 + - - +
209B GLU* 4.1 0.3 - - - +
210B THR* 2.9 35.9 + - + +
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Residues in contact with LYS 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B ASP* 3.8 9.7 + - - +
203B TRP* 3.1 62.9 + - + +
204B TYR* 3.6 16.4 - - - +
206B ILE* 1.3 78.3 - - - +
208B TYR* 1.3 62.1 + - - +
210B THR* 3.1 2.3 + - - -
211B LYS* 3.0 28.4 + - - +
238B HIS* 3.4 46.9 - - + +
241B ILE* 4.1 27.0 - - + +
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Residues in contact with TYR 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B ARG* 3.8 16.4 + - - -
204B TYR* 2.9 41.0 + - + +
205B TRP* 3.3 30.5 + + + +
207B LYS* 1.3 77.2 - - - +
209B GLU* 1.3 76.8 + - - +
212B LEU* 2.8 35.0 + - + +
241B ILE* 3.9 21.0 - - + +
242B HIS 4.5 3.4 - - - -
243B PRO* 3.5 26.4 - - + +
244B THR* 2.9 18.0 + - - -
245B GLU* 2.5 31.8 + - - -
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Residues in contact with GLU 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175B LEU* 4.1 8.2 - - + +
178B GLU* 3.2 18.9 - - - +
179B ILE* 3.6 33.4 - - + -
182B ARG* 3.1 43.5 + - + -
205B TRP* 2.8 23.5 + - + +
208B TYR* 1.3 86.8 - - + +
210B THR* 1.3 60.4 + - - +
212B LEU* 3.7 5.4 - - - +
213B ALA* 2.9 30.7 + - - +
248B PHE* 3.0 28.3 - - - -
249B ASP 5.5 0.2 - - - +
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Residues in contact with THR 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5B PRO* 3.6 14.2 - - + +
139B PHE* 4.4 14.6 - - + -
140B LEU* 3.9 17.9 - - + +
170B GLY 6.2 0.2 - - - -
171B LEU* 3.7 30.3 - - + -
175B LEU* 4.5 7.0 - - + -
179B ILE* 5.0 0.9 - - + -
206B ILE 2.9 24.2 + - - +
207B LYS* 3.1 10.0 + - - -
209B GLU* 1.3 75.3 - - - +
211B LYS* 1.3 64.2 + - - +
213B ALA* 3.2 2.5 + - - +
214B TYR* 2.8 30.5 + - - +
238B HIS* 3.6 12.3 + - - -
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Residues in contact with LYS 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B LEU* 4.0 10.7 - - + +
207B LYS 3.0 15.9 + - - +
208B TYR* 3.8 3.1 - - - +
210B THR* 1.3 81.0 + - - +
212B LEU* 1.3 58.4 + - - +
214B TYR* 3.4 4.4 + - + +
215B ASP* 3.0 52.0 + - - +
235B LYS 5.6 1.8 - - - -
236B ASN* 4.1 10.7 + - - +
237B TYR* 3.0 24.7 + - + +
238B HIS* 2.5 36.3 + - + +
239B PRO* 3.8 9.7 + - - +
241B ILE* 2.9 22.4 + - + +
242B HIS* 4.4 6.4 + - - -
243B PRO* 4.3 11.0 - - + -
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Residues in contact with LEU 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B ARG* 4.0 13.9 - - - +
208B TYR* 2.8 21.2 + - + +
209B GLU* 3.7 9.4 - - - +
211B LYS* 1.3 77.1 - - - +
213B ALA* 1.3 60.0 - - - +
215B ASP* 3.5 7.3 + - + -
216B SER* 3.0 26.9 + - - +
243B PRO* 3.8 19.7 - - + +
245B GLU* 3.6 52.7 - - + +
246B LYS 4.9 1.8 - - - -
247B GLU 4.2 10.5 - - - +
248B PHE* 3.6 27.1 - - + -
249B ASP 5.1 1.1 - - - +
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Residues in contact with ALA 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5B PRO* 3.7 22.0 - - + +
9B LEU* 5.6 0.5 - - - +
174B TYR* 4.3 2.0 - - - +
175B LEU* 4.2 10.1 - - + -
209B GLU 2.9 18.3 + - - +
210B THR 3.5 4.0 - - - +
212B LEU* 1.3 74.5 - - - +
214B TYR* 1.3 67.2 + - - +
216B SER* 3.1 18.4 + - - +
219B ILE* 3.7 28.4 - - + +
248B PHE* 3.9 9.2 - - + -
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Residues in contact with TYR 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5B PRO* 3.6 20.8 - - + +
8B ALA* 4.3 2.9 - - + -
9B LEU* 3.9 24.2 - - + +
12B ASP* 2.6 29.0 + - - -
140B LEU* 3.8 25.4 - - + -
210B THR 2.8 18.0 + - - +
211B LYS* 3.6 7.0 - - + +
213B ALA* 1.3 79.7 - - - +
215B ASP* 1.3 69.1 + - - +
216B SER 3.3 4.2 + - - +
234B ARG* 2.9 35.1 + - + -
235B LYS* 2.9 49.1 + - - +
237B TYR* 3.7 24.2 - + + -
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Residues in contact with ASP 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211B LYS* 3.0 43.3 + - - +
212B LEU* 3.9 9.3 - - + +
213B ALA 3.3 0.2 - - - -
214B TYR* 1.3 79.5 - - - +
216B SER* 1.3 62.7 + - - +
217B ASN* 3.9 7.1 + - - -
234B ARG* 3.5 41.1 + - + +
235B LYS 4.9 1.7 - - - +
243B PRO* 5.2 4.3 - - - +
246B LYS 4.9 6.8 - - - +
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Residues in contact with SER 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B LEU* 3.9 7.6 - - - +
212B LEU* 3.0 15.2 + - - +
213B ALA 3.1 14.5 + - - +
214B TYR 3.6 5.0 - - - +
215B ASP* 1.3 79.7 - - - +
217B ASN* 1.3 57.1 + - - +
218B HIS 3.7 0.2 - - - -
219B ILE* 3.7 15.5 - - - -
234B ARG* 3.1 14.9 + - - -
246B LYS 4.8 3.8 + - - -
247B GLU* 3.0 21.4 - - - -
248B PHE* 2.9 29.8 + - - +
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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