Contacts of the helix formed by residues 197 - 219 (chain C) in PDB entry 2OT0
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 ASP 197 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195C ASP 3.8 0.8 + - - -
196C HIS* 1.3 81.7 - - - +
198C LEU* 1.3 66.6 + - - +
199C LYS* 3.7 17.7 - - - +
200C ARG* 2.9 25.6 + - - +
201C CYS* 3.2 15.9 + - - +
235C PRO* 3.8 4.5 - - - -
239C CYS* 3.8 14.8 - - - -
241C GLN* 5.0 4.2 + - - +
243C TYR* 3.4 16.1 + - - +
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Residues in contact with LEU 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ASP* 1.3 76.0 - - - +
199C LYS* 1.3 61.4 + - + +
201C CYS* 3.2 3.6 + - - +
202C GLN* 2.9 28.4 + - - +
233C VAL* 3.4 31.9 - - + +
234C THR* 3.6 15.5 - - - -
235C PRO* 3.9 10.7 - - + +
243C TYR* 3.5 40.8 + - + -
247C GLU* 3.8 27.4 - - + +
248C ILE* 4.6 7.2 - - + -
251C ALA* 3.8 13.0 - - + -
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Residues in contact with LYS 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B SER* 5.5 2.6 - - - -
197C ASP* 3.3 16.0 + - - +
198C LEU* 1.3 79.5 - - + +
200C ARG* 1.3 57.1 + - - +
202C GLN* 3.3 8.0 + - - +
203C TYR* 2.9 29.9 + - - +
243C TYR* 5.8 1.8 - - + +
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Residues in contact with ARG 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B PRO* 2.7 30.3 + - - +
2B HIS* 3.4 36.5 + - - +
3B SER* 4.8 8.5 - - - +
153C ILE* 3.6 19.8 - - + +
154C GLY* 2.8 28.9 + - - -
157C THR 3.6 10.9 + - - -
196C HIS* 3.7 23.6 - - + +
197C ASP* 2.9 21.6 + - - +
199C LYS* 1.3 77.0 - - - +
201C CYS* 1.3 63.8 + - - +
203C TYR* 3.2 6.8 + - - +
204C VAL* 3.0 32.1 + - + +
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Residues in contact with CYS 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ILE* 4.0 18.2 - - + -
190C ILE* 5.3 2.7 - - - -
191C LEU 6.1 0.7 - - - -
192C PRO* 6.6 0.2 - - - -
196C HIS* 4.2 9.1 - - + -
197C ASP 3.2 6.4 + - - +
198C LEU 3.2 7.0 + - - +
200C ARG* 1.3 79.1 - - - +
202C GLN* 1.3 55.6 + - - +
204C VAL* 3.9 0.7 - - - +
205C THR* 2.7 48.6 + - - -
231C ASN* 4.0 11.2 - - - -
232C MET 4.2 0.4 - - - -
233C VAL* 3.8 9.2 - - + -
234C THR* 3.1 42.0 - - - +
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Residues in contact with GLN 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C LEU* 2.9 17.0 + - - +
199C LYS* 3.6 8.9 - - - +
200C ARG 3.2 0.2 - - - -
201C CYS* 1.3 77.4 - - - +
203C TYR* 1.3 63.1 + - - +
205C THR* 3.4 3.1 + - - -
206C GLU* 2.7 51.5 + - - +
233C VAL* 3.4 12.7 - - + +
251C ALA* 3.4 41.3 - - + +
254C THR* 3.5 23.3 - - - +
255C ALA* 4.0 5.4 - - + -
258C ARG* 3.5 7.5 - - - +
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Residues in contact with TYR 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A GLY 5.1 1.7 + - - -
1B PRO* 4.1 20.9 - - + -
2B HIS 3.7 20.7 + - - -
3B SER* 3.4 43.0 - - - +
4B HIS 4.8 2.8 + - - -
220B HIS* 3.4 28.3 + + - -
199C LYS 2.9 17.4 + - - +
200C ARG* 3.5 7.0 - - - +
202C GLN* 1.3 76.8 - - - +
204C VAL* 1.3 65.9 + - + +
206C GLU* 3.2 12.2 + - - +
207C LYS* 3.1 57.3 + - + +
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Residues in contact with VAL 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B PRO* 3.8 23.8 - - + +
153C ILE* 4.0 23.1 - - + -
158C PRO* 3.7 33.4 - - + -
163C ILE* 6.1 1.1 - - + -
190C ILE* 3.7 16.8 - - + -
200C ARG* 3.0 28.6 + - - +
201C CYS 4.0 2.9 - - - +
203C TYR* 1.3 78.4 - - + +
205C THR* 1.3 63.8 + - - +
207C LYS* 3.2 5.7 + - - +
208C VAL* 2.9 26.4 + - + +
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Residues in contact with THR 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C ILE* 3.4 15.8 - - + +
201C CYS* 2.7 29.6 + - - -
202C GLN 3.7 3.8 - - - -
204C VAL* 1.3 76.2 - - - +
206C GLU* 1.3 57.3 + - - +
208C VAL* 3.5 0.5 + - - +
209C LEU* 3.0 51.8 + - + +
230C PRO* 5.7 2.0 - - + -
231C ASN* 3.5 30.0 + - - +
233C VAL* 4.0 19.1 - - + +
255C ALA* 4.2 7.9 - - + -
256C LEU* 5.8 1.3 - - + -
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Residues in contact with GLU 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217B SER* 4.6 0.9 + - - -
202C GLN* 2.7 51.5 + - - +
203C TYR* 3.5 9.6 - - - +
204C VAL 3.2 0.2 - - - -
205C THR* 1.3 77.3 - - - +
207C LYS* 1.3 69.0 + - + +
210C ALA* 3.1 21.3 + - - +
255C ALA* 3.8 23.3 - - - +
258C ARG* 3.1 32.2 + - - +
259C THR* 3.3 21.4 - - + +
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Residues in contact with LYS 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B PRO* 6.4 0.4 - - + -
214B LYS* 5.7 0.3 - - - -
217B SER* 2.7 39.7 + - - +
218B ASP* 5.0 1.3 - - - +
220B HIS* 3.1 24.1 - - - +
163C ILE* 4.5 15.7 - - + +
203C TYR* 3.1 55.6 + - + +
204C VAL* 3.2 7.2 + - - +
206C GLU* 1.3 79.1 - - + +
208C VAL* 1.3 66.3 + - - +
210C ALA* 3.5 5.4 + - - +
211C ALA* 3.2 22.0 + - - +
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Residues in contact with VAL 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C LEU* 4.1 31.2 - - + -
158C PRO* 4.7 0.4 - - + -
163C ILE* 4.4 16.8 - - + +
188C PRO* 4.2 26.9 - - + +
190C ILE* 3.7 22.4 - - + -
204C VAL* 2.9 30.2 + - + +
205C THR 3.8 3.1 - - - +
207C LYS* 1.3 76.6 - - - +
209C LEU* 1.3 59.9 + - + +
211C ALA* 3.2 7.9 + - - +
212C VAL* 2.9 33.2 + - + +
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Residues in contact with LEU 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C PRO* 3.9 28.9 - - + +
190C ILE* 6.2 0.2 - - + -
205C THR* 3.0 39.6 + - + +
208C VAL* 1.3 75.1 - - + +
210C ALA* 1.3 64.6 + - - +
212C VAL* 4.2 4.3 - - + -
213C TYR* 3.0 36.4 + - + -
228C LEU* 4.1 19.3 - - + -
230C PRO* 4.6 7.6 - - + -
255C ALA 4.8 1.8 - - - +
256C LEU* 3.9 23.8 - - + -
259C THR* 3.4 29.6 - - - +
260C VAL* 4.3 4.3 - - + -
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Residues in contact with ALA 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213B TYR 5.6 0.4 - - - +
214B LYS* 3.8 13.5 - - + +
217B SER* 3.3 30.7 - - - +
206C GLU 3.1 19.7 + - - +
207C LYS 3.7 4.3 - - - +
208C VAL 3.2 0.2 - - - -
209C LEU* 1.3 78.5 - - - +
211C ALA* 1.3 62.9 + - - +
213C TYR* 4.0 3.2 - - - +
214C LYS* 3.1 23.2 + - - +
259C THR* 4.2 12.3 - - + +
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Residues in contact with ALA 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B LYS* 3.8 19.0 - - - +
163C ILE* 3.4 32.5 - - + +
164C MET* 5.4 1.6 - - - +
167C ALA* 3.7 11.3 - - + +
207C LYS 3.2 6.5 + - - +
208C VAL 3.2 7.1 + - - +
210C ALA* 1.3 77.7 - - - +
212C VAL* 1.3 66.3 + - - +
214C LYS* 3.3 1.9 + - - +
215C ALA* 3.0 24.4 + - - +
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Residues in contact with VAL 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C ALA* 3.9 17.7 - - + +
170C LEU* 4.4 9.0 - - + -
186C VAL* 3.9 27.4 - - + -
188C PRO* 3.9 29.2 - - + -
208C VAL* 2.9 26.8 + - + +
209C LEU* 3.3 8.7 + - + +
211C ALA* 1.3 76.5 - - - +
213C TYR* 1.4 66.7 + - + +
215C ALA* 3.2 4.4 + - - +
216C LEU* 2.9 44.1 + - + +
228C LEU* 5.1 1.3 - - + -
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Residues in contact with TYR 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B ALA* 5.6 0.3 - - - +
186C VAL* 5.7 1.0 - - - +
209C LEU* 3.0 32.6 + - + +
210C ALA* 4.4 2.9 - - - +
212C VAL* 1.4 80.3 - - + +
214C LYS* 1.3 63.5 + - - +
216C LEU* 3.5 27.9 - - + +
217C SER* 3.2 21.7 + - - -
223C LEU* 4.1 13.9 - - + +
226C THR* 5.4 1.8 + - - -
227C LEU 5.4 0.7 - - - -
228C LEU* 3.4 38.8 - - + +
259C THR 3.8 14.8 - - - +
260C VAL* 3.8 20.4 - - + +
261C PRO* 3.8 22.4 - - + -
264C VAL* 3.5 32.4 - - + +
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Residues in contact with LYS 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207B LYS 5.6 0.2 - - - -
210B ALA* 3.9 24.0 - - + +
211B ALA* 3.8 28.5 - - - +
214B LYS* 3.7 31.2 - - + -
210C ALA 3.1 19.5 + - - +
211C ALA 3.3 4.2 + - - +
213C TYR* 1.3 75.7 - - - +
215C ALA* 1.3 58.5 + - - +
217C SER* 3.2 5.8 + - - -
218C ASP* 2.8 66.3 + - - +
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Residues in contact with ALA 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C ALA* 3.5 34.1 - - + +
168C ASN* 4.3 5.2 - - - +
171C ALA* 4.0 5.6 - - + -
211C ALA 3.0 17.1 + - - +
212C VAL 3.5 3.4 - - - +
214C LYS* 1.3 75.3 - - - +
216C LEU* 1.3 65.1 + - - +
218C ASP* 3.2 8.8 + - - +
219C HIS* 2.9 32.8 + - + -
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Residues in contact with LEU 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C ALA 5.4 0.4 - - - +
170C LEU* 4.5 2.7 - - + +
171C ALA* 3.9 21.5 - - - +
174C ALA* 4.3 9.9 - - + -
186C VAL* 4.6 17.5 - - + -
212C VAL* 2.9 31.9 + - + +
213C TYR* 3.5 37.9 - - + +
215C ALA* 1.3 76.9 - - - +
217C SER* 1.3 61.7 + - - +
220C HIS 3.2 4.3 + - - -
221C ILE* 2.9 57.2 + - + +
223C LEU* 3.9 16.8 - - + -
226C THR* 5.3 2.7 - - - +
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Residues in contact with SER 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206B GLU 4.6 1.4 + - - -
207B LYS* 2.8 42.4 + - - +
210B ALA* 3.4 30.6 - - - +
259B THR* 5.9 0.2 - - - +
213C TYR 3.2 14.4 + - - -
214C LYS* 3.3 9.4 - - - -
215C ALA 3.1 0.4 - - - -
216C LEU* 1.3 74.5 - - - +
218C ASP* 1.3 67.4 + - - +
220C HIS* 3.0 5.4 + - - +
221C ILE 4.9 2.7 - - - +
223C LEU* 5.8 0.4 - - - +
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Residues in contact with ASP 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B LYS* 5.1 1.9 - - - +
214C LYS* 2.8 56.7 + - - +
215C ALA* 3.2 8.1 + - - +
217C SER* 1.3 78.7 + - - +
219C HIS* 1.3 66.7 - - + +
220C HIS* 3.5 12.6 + - - -
161D LEU* 3.5 22.6 - - + +
164D MET* 4.6 16.6 - - + +
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Residues in contact with HIS 219 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C ASN* 2.8 32.5 + - - -
171C ALA* 3.4 27.4 + - + +
172C ARG* 3.7 39.0 + - + -
175C SER* 4.3 11.1 + - - -
215C ALA* 2.9 29.3 + - - +
216C LEU 3.4 2.7 + - - +
217C SER 3.1 0.2 - - - -
218C ASP* 1.3 80.5 - - + +
220C HIS* 1.3 73.9 + - - +
221C ILE* 3.4 10.2 + - + +
115D LEU* 5.4 2.0 - - + +
116D ALA* 4.4 4.3 - - - +
161D LEU* 3.7 31.9 - - + +
164D MET* 3.9 2.5 - - + +
165D GLU* 4.1 6.7 - - + -
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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
------------------------------------------------------------
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