Contacts of the helix formed by residues 183 - 204 (chain B) in PDB entry 2AXZ
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 GLY 183 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A PHE 6.3 0.4 - - - -
60A GLU* 5.9 0.2 - - - -
63A ASN* 2.9 22.6 - - - +
68A ASN* 4.7 0.4 + - - -
300A GLU* 5.7 1.6 - - - -
181B SER* 3.7 4.2 + - - -
182B PHE* 1.3 76.5 - - - +
184B LYS* 1.3 59.6 + - - -
185B ASP* 3.3 3.4 - - - -
186B TYR* 3.2 3.4 + - - +
187B ASP* 2.7 34.6 + - - +
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Residues in contact with LYS 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LYS* 3.4 46.5 + - + +
185A ASP* 3.3 32.3 - - - +
188A LEU* 5.4 9.7 - - - +
298A TYR* 5.7 2.8 - - - -
299A TYR 4.9 5.1 + - - -
300A GLU* 3.6 33.2 + - - +
183B GLY* 1.3 70.1 - - - -
185B ASP* 1.3 61.2 + - - +
187B ASP* 3.2 10.1 + - - +
188B LEU* 2.9 28.2 + - - +
227B SER* 4.0 17.8 + - - +
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Residues in contact with ASP 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ASN* 4.3 12.2 + - - +
59A PHE* 5.5 7.4 - - - +
184A LYS* 3.1 28.2 + - - +
70B LYS* 5.6 1.6 + - - -
150B GLY* 5.5 0.7 - - - -
183B GLY* 3.3 1.0 - - - -
184B LYS* 1.3 77.5 - - - +
186B TYR* 1.3 59.7 + - - +
188B LEU* 3.6 8.0 - - - +
189B THR* 3.3 25.8 + - - +
299B TYR 5.4 2.1 - - - +
300B GLU* 5.2 2.9 - - - +
7F VAL* 3.4 37.8 - - + +
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Residues in contact with TYR 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A GLU* 4.2 10.1 - - + +
64A ARG* 3.9 10.3 - - - -
148B PHE 4.3 7.7 + - - -
149B PHE 4.4 1.1 - - - -
150B GLY* 3.6 28.7 - - - -
153B TYR* 4.2 6.2 + + - -
178B ILE* 3.9 19.1 - - + +
180B ASP 3.5 24.1 + - - -
181B SER* 4.3 0.2 - - - -
182B PHE* 3.5 54.9 - + + +
183B GLY 3.2 9.0 + - - +
184B LYS 3.1 0.2 - - - -
185B ASP* 1.3 78.0 - - - +
187B ASP* 1.3 68.6 + - - +
188B LEU 3.1 0.4 - - - -
189B THR* 3.0 18.8 + - - -
190B ILE* 3.1 44.5 + - + +
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Residues in contact with ASP 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A GLU* 4.6 1.0 - - - +
181B SER* 2.5 29.9 + - - -
183B GLY 2.7 17.6 + - - +
184B LYS* 3.2 16.1 - - - +
186B TYR* 1.3 84.5 - - - +
188B LEU* 1.3 59.5 + - - +
190B ILE* 3.2 11.4 - - - +
191B GLN* 2.9 33.7 + - - +
225B ASN 3.9 1.6 - - - +
226B ILE* 2.7 38.3 - - + +
227B SER* 3.9 11.3 - - - +
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Residues in contact with LEU 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LYS* 4.4 13.0 - - - +
184B LYS 2.9 16.9 + - - +
185B ASP* 3.6 9.4 - - - +
186B TYR 3.1 0.2 - - - -
187B ASP* 1.3 79.5 - - - +
189B THR* 1.3 57.7 + - - +
191B GLN* 3.3 6.3 + - - +
192B THR* 3.0 27.9 + - - -
229B ASN* 4.4 11.9 - - + +
232B TYR* 3.6 28.3 - - + +
298B TYR* 3.8 30.7 - - + +
299B TYR 4.5 8.5 - - - +
5F VAL* 3.5 29.6 - - + -
7F VAL* 4.7 10.8 - - + -
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Residues in contact with THR 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B GLY* 3.5 23.0 + - - +
153B TYR* 3.9 8.3 - - - +
154B GLU* 3.9 23.3 - - + +
157B SER* 3.7 0.7 + - - -
185B ASP 3.3 13.4 + - - +
186B TYR* 3.0 18.9 + - - -
188B LEU* 1.3 72.4 - - - +
190B ILE* 1.3 63.2 + - - +
191B GLN 3.1 2.5 - - - -
192B THR* 3.1 17.7 + - - -
193B VAL* 3.2 18.0 + - - +
5F VAL* 4.0 11.7 - - + -
7F VAL* 3.7 23.3 - - + -
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Residues in contact with ILE 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B TYR* 3.4 35.0 - - + -
176B TYR* 2.6 26.7 + - + +
178B ILE* 4.3 17.3 - - + -
186B TYR* 3.2 41.7 - - + +
187B ASP* 3.2 28.0 - - + +
189B THR* 1.3 76.9 + - - +
191B GLN* 1.3 65.5 + - + +
194B LEU* 3.6 12.9 + - - +
220B LEU* 4.5 11.0 - - + -
226B ILE* 4.0 20.0 - - + -
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Residues in contact with GLN 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B ASP* 2.9 28.4 + - - +
188B LEU* 3.3 6.1 + - - +
189B THR 3.1 0.4 - - - -
190B ILE* 1.3 80.6 - - + +
192B THR* 1.3 58.9 + - - +
194B LEU* 3.3 5.9 + - - +
195B LYS* 3.0 28.6 + - - +
217B PHE* 3.7 21.9 - - + -
220B LEU* 3.9 24.0 - - + -
226B ILE* 4.3 2.8 - - - +
227B SER 3.2 26.9 + - - -
228B ILE* 3.4 12.4 - - - +
229B ASN* 2.9 30.8 + - - +
232B TYR* 3.6 15.0 - - + +
236B ILE* 4.6 2.6 - - - +
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Residues in contact with THR 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B SER* 3.5 5.4 - - - +
188B LEU 3.0 14.0 + - - -
189B THR 3.1 8.6 + - - -
191B GLN* 1.3 75.4 - - - +
193B VAL* 1.3 59.8 + - - +
195B LYS* 3.2 3.0 + - - +
196B ASN* 2.8 47.6 + - - +
232B TYR* 2.8 30.5 + - + +
3F THR* 3.7 7.6 - - - +
5F VAL* 3.1 38.7 - - + +
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Residues in contact with VAL 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B TYR* 3.1 28.3 - - + +
156B VAL* 4.3 20.2 - - + -
157B SER* 2.9 28.2 + - - +
160B LEU* 4.0 3.4 - - + +
172B ILE* 4.4 16.8 - - + -
175B MSE 6.2 0.7 - - - -
176B TYR* 3.2 30.3 - - + +
189B THR 3.2 9.6 + - - +
191B GLN 3.3 0.4 - - - -
192B THR* 1.3 76.2 - - - +
194B LEU* 1.3 59.1 + - + +
196B ASN* 3.9 2.6 - - - +
197B ALA* 2.9 32.9 + - + +
213B TYR* 5.5 0.2 - - + -
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Residues in contact with LEU 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B TYR* 3.6 29.2 - - + -
190B ILE 3.6 10.1 + - - +
191B GLN* 3.3 6.4 + - - +
192B THR 3.2 0.4 - - - -
193B VAL* 1.3 75.2 - - - +
195B LYS* 1.3 59.1 + - - +
197B ALA* 3.8 0.2 - - - +
198B LEU* 2.8 34.0 + - - +
213B TYR* 3.5 33.9 - - + +
216B GLN* 3.5 25.6 - - + -
217B PHE* 3.7 26.5 - - + +
220B LEU* 3.7 30.1 - - + -
236B ILE* 5.0 3.6 - - + -
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Residues in contact with LYS 195 (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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191B GLN 3.0 17.6 + - - +
192B THR* 3.7 4.5 - - - +
194B LEU* 1.3 78.4 - - - +
196B ASN* 1.3 63.8 + - - +
198B LEU* 3.8 3.7 - - - +
199B THR* 2.7 34.2 + - - +
232B TYR* 3.4 39.5 - - + -
235B GLU* 3.1 30.3 + - + +
236B ILE* 4.0 26.4 - - + +
239B LEU* 4.0 2.2 - - + +
302B TYR* 3.0 24.4 + - - -
1F LEU 2.8 29.7 + - - -
3F THR* 3.1 14.8 + - - -
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Residues in contact with ASN 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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157B SER 3.3 14.2 - - - +
160B LEU* 4.0 14.1 - - + -
192B THR* 2.8 28.2 + - - +
193B VAL* 3.9 2.9 - - - +
195B LYS* 1.3 79.7 - - - +
197B ALA* 1.3 66.1 + - - +
199B THR* 3.3 3.5 + - - -
200B ILE* 3.1 28.3 + - - +
1F LEU 3.2 12.8 + - - -
2F VAL* 3.7 13.6 - - + +
3F THR* 2.7 48.9 + - - +
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Residues in contact with ALA 197 (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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160B LEU* 4.0 13.0 - - + +
165B TYR* 4.5 7.1 - - + -
172B ILE* 4.6 2.0 - - + -
193B VAL 2.9 19.7 + - - +
196B ASN* 1.3 74.7 - - - +
198B LEU* 1.3 60.0 + - - +
199B THR 3.2 0.2 + - - -
200B ILE* 3.2 6.6 + - - +
201B SER* 2.8 36.0 + - - -
213B TYR* 3.4 39.7 - - + +
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Residues in contact with LEU 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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194B LEU 2.8 19.5 + - - +
195B LYS 3.8 3.4 - - - +
197B ALA* 1.3 76.8 - - - +
199B THR* 1.3 57.8 + - - +
201B SER* 4.2 3.6 - - - -
202B ILE* 3.0 44.7 + - + +
210B ALA* 3.4 29.6 - - + +
213B TYR* 4.1 10.9 - - + -
214B ILE* 3.5 23.8 - - + -
236B ILE* 3.8 29.4 - - + +
239B LEU* 3.5 33.2 - - + -
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Residues in contact with THR 199 (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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195B LYS 2.7 19.0 + - - -
196B ASN 3.4 8.7 - - - -
197B ALA 3.1 0.6 - - - -
198B LEU* 1.3 74.6 - - - +
200B ILE* 1.3 62.0 + - - +
202B ILE* 3.3 2.9 + - - +
203B MSE 2.9 46.0 + - + +
235B GLU* 4.6 0.2 + - - -
239B LEU* 3.4 15.1 - - + +
279B GLU* 3.3 20.2 - - - +
1F LEU* 2.8 44.5 + - - +
2F VAL* 4.4 7.0 - - + +
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Residues in contact with ILE 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B LEU* 3.6 49.8 - - + +
165B TYR* 3.9 26.0 - - + +
196B ASN 3.1 15.4 + - - +
197B ALA* 3.7 5.6 - - - +
199B THR* 1.3 75.4 - - - +
201B SER* 1.3 58.6 + - - +
203B MSE 3.4 5.5 + - - +
204B ASN* 3.0 48.9 + - - +
289B PHE* 3.7 24.5 - - + -
2F VAL* 3.7 15.9 - - + -
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Residues in contact with SER 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B TYR* 4.5 8.3 - - - -
197B ALA 2.8 20.1 + - - -
198B LEU* 3.7 5.2 - - - -
200B ILE* 1.3 77.7 - - - +
202B ILE* 1.3 60.0 + - - +
204B ASN 3.7 0.3 - - - -
205B ARG 3.1 3.8 + - - -
206B ASN* 2.8 37.7 + - - -
209B GLU* 3.4 20.5 - - - +
210B ALA* 3.6 26.0 - - - -
213B TYR* 3.7 10.2 - - - -
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Residues in contact with ILE 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B LEU* 3.0 34.7 + - + +
199B THR 3.9 2.9 - - - +
201B SER* 1.3 75.3 - - - +
203B MSE 1.3 62.9 + - - +
205B ARG* 3.1 25.4 + - - +
206B ASN 5.0 0.2 - - - +
207B LEU* 4.0 7.9 - - + -
210B ALA* 3.4 21.8 - - + -
239B LEU* 4.3 13.7 - - + +
242B ILE* 3.7 28.0 - - + -
243B TYR* 3.6 35.2 - - + -
246B LEU* 4.1 4.3 - - + -
283B ILE* 3.8 15.7 - - + -
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Residues in contact with MSE 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199B THR* 2.9 35.5 + - + +
200B ILE* 3.6 6.5 - - - +
202B ILE* 1.3 76.5 - - - +
204B ASN* 1.3 58.8 + - - +
205B ARG* 3.0 21.1 + - - +
279B GLU* 4.4 22.4 - - + +
282B LYS* 4.6 21.3 - - + -
283B ILE* 4.0 26.7 - - + -
286B LYS* 4.9 1.6 - - - +
287B GLU 3.4 26.6 - - - +
288B LYS* 4.2 2.1 - - - +
289B PHE* 3.4 48.7 - - + +
290B THR 4.6 4.0 - - - +
292B PRO* 6.2 1.3 - - + -
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Residues in contact with ASN 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B TYR* 4.8 7.5 - - - +
200B ILE* 3.0 37.1 + - - +
201B SER* 4.4 2.0 - - - +
203B MSE 1.3 73.1 - - - +
205B ARG* 1.3 70.5 + - - +
206B ASN* 3.4 7.6 + - + +
288B LYS* 3.3 23.5 - - + +
289B PHE* 2.7 33.2 + - - +
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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