Contacts of the helix formed by residues 220 - 241 (chain C) in PDB entry 4HH3
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 220 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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218C ALA 3.7 1.0 - - - +
219C PRO* 1.3 84.1 - - + +
221C ALA* 1.3 64.2 + - - +
222C ALA* 3.4 10.8 + - - +
223C ASP* 2.7 34.3 + - - +
224C PHE 3.1 16.6 + - - -
226C ARG* 4.8 0.3 + - - -
264C HIS* 3.5 13.9 + - - -
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Residues in contact with ALA 221 (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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220C THR* 1.3 73.0 - - - +
222C ALA* 1.3 58.0 + - - +
224C PHE* 3.2 10.4 + - - +
225C ALA* 2.8 28.8 + - - +
264C HIS* 3.8 13.8 + - + +
266C LEU* 6.3 0.9 - - + -
292C LEU* 3.9 8.8 - - + +
295C GLU* 3.4 36.3 - - + +
296C MET* 4.0 15.8 - - + +
299C ALA* 5.9 2.2 - - + -
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Residues in contact with ALA 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C THR* 3.2 9.9 + - - +
221C ALA* 1.3 78.8 - - - +
223C ASP* 1.3 55.6 + - - +
225C ALA* 3.2 3.5 + - - +
226C ARG* 2.9 45.9 + - - +
296C MET* 3.8 26.6 - - + +
388C ALA* 3.8 11.4 - - + +
391C PRO* 5.8 3.1 - - + -
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Residues in contact with ASP 223 (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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217C HIS 3.9 5.6 - - - +
218C ALA* 3.7 17.9 - - - -
219C PRO* 3.3 25.9 - - - +
220C THR* 2.7 28.3 + - - +
222C ALA* 1.3 72.9 - - - +
224C PHE* 1.3 64.5 - - - +
226C ARG* 2.8 32.3 + - - +
227C LEU* 3.0 27.7 + - - +
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Residues in contact with PHE 224 (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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214C LEU* 3.7 44.4 - - + -
218C ALA* 3.6 14.3 - - + +
220C THR 3.1 12.5 + - - +
221C ALA* 3.4 11.4 - - - +
223C ASP* 1.3 75.3 - - - +
225C ALA* 1.3 57.2 + - - +
227C LEU* 3.3 3.8 + - - +
228C PHE* 2.8 36.0 + - + +
256C LEU* 3.9 15.5 - - + -
259C ALA 4.4 1.3 - - - -
260C LEU* 3.6 48.7 - - + -
263C ILE* 4.5 4.3 - - + -
264C HIS* 4.0 11.9 - + + -
288C LEU* 4.7 5.4 - - + -
292C LEU* 3.6 28.7 - - + -
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Residues in contact with ALA 225 (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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221C ALA 2.8 13.8 + - - +
222C ALA 3.5 9.2 - - - +
224C PHE* 1.3 77.6 - - - +
226C ARG* 1.3 57.3 + - - +
228C PHE* 3.9 1.4 - - - +
229C GLU* 2.9 33.5 + - - +
292C LEU* 4.2 13.9 - - + +
296C MET* 4.2 10.8 - - + -
387C LEU* 4.0 28.7 - - + +
388C ALA* 4.2 12.1 - - - +
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Residues in contact with ARG 226 (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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220C THR* 4.8 0.4 + - - -
222C ALA* 2.9 21.7 + - - +
223C ASP* 2.8 46.6 + - - +
225C ALA* 1.3 77.9 - - - +
227C LEU* 1.3 61.3 + - + +
229C GLU* 4.1 3.8 - - - +
230C ALA* 3.2 23.4 + - - +
386C HIS* 6.5 0.4 - - + -
388C ALA* 3.6 30.3 + - + +
389C LEU* 6.1 2.0 - - - +
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Residues in contact with LEU 227 (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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188C ARG 5.8 0.7 - - - +
191C ALA* 4.3 17.0 - - + -
192C VAL* 3.8 26.0 - - + +
195C LEU* 4.8 7.6 - - + -
213C LEU 5.3 0.4 - - - +
214C LEU* 4.4 17.9 - - + -
217C HIS* 3.6 41.1 - - + +
218C ALA* 4.3 8.1 - - + -
223C ASP 3.0 17.0 + - - +
224C PHE 3.8 3.1 - - - +
226C ARG* 1.3 75.0 - - + +
228C PHE* 1.3 67.4 + - - +
230C ALA* 3.4 4.2 + - - +
231C CYS* 3.0 29.5 + - - -
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Residues in contact with PHE 228 (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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195C LEU* 5.4 3.5 - - - +
214C LEU* 5.8 0.4 - - - +
224C PHE* 2.8 35.5 + - + +
225C ALA* 3.9 2.5 - - - +
227C LEU* 1.3 74.4 - - - +
229C GLU* 1.3 58.6 + - - +
231C CYS* 3.1 7.2 + - + +
232C ALA* 2.8 41.3 + - + +
235C LEU* 6.0 0.7 - - + -
253C TYR* 4.2 7.6 - + - -
256C LEU* 3.7 29.6 - - + -
288C LEU* 3.6 24.2 - - + -
289C GLU* 3.8 28.0 - - + -
292C LEU* 4.0 15.9 - - + -
333C LEU* 3.7 24.7 - - + -
334C LEU* 4.2 14.8 - - + -
387C LEU* 4.5 4.3 - - + -
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Residues in contact with GLU 229 (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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225C ALA 2.9 18.5 + - - +
226C ARG* 4.1 4.0 - - - +
228C PHE* 1.3 76.9 - - - +
230C ALA* 1.3 62.9 + - - +
232C ALA* 3.3 3.1 + - + +
233C GLU* 3.1 35.4 + - + +
333C LEU* 3.7 37.3 - - + +
369C GLN* 4.7 4.2 + - - -
385C ALA 4.2 2.3 - - - +
386C HIS* 2.8 37.4 + - - +
387C LEU* 2.9 33.3 + - + +
388C ALA 4.6 0.5 + - - -
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Residues in contact with ALA 230 (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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192C VAL* 3.8 28.5 - - + -
226C ARG 3.2 18.3 + - - +
227C LEU 3.7 4.5 - - - +
229C GLU* 1.3 77.0 - - - +
231C CYS* 1.3 61.1 + - - +
233C GLU* 3.3 21.3 + - - +
234C ARG* 3.3 15.8 + - - +
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Residues in contact with CYS 231 (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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192C VAL* 3.7 19.3 - - - -
195C LEU* 3.6 30.7 - - + -
196C SER* 3.4 25.7 + - - +
199C LEU* 4.4 15.0 - - + -
227C LEU 3.0 22.3 + - - +
228C PHE* 3.6 7.9 - - + +
230C ALA* 1.3 77.5 - - - +
232C ALA* 1.3 58.5 + - - +
234C ARG* 3.0 5.2 + - - +
235C LEU* 2.9 33.4 + - + +
256C LEU* 5.9 0.4 - - + -
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Residues in contact with ALA 232 (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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228C PHE* 2.8 31.4 + - + +
229C GLU* 3.6 6.7 - - + +
230C ALA 3.2 0.2 - - - -
231C CYS* 1.3 73.8 - - - +
233C GLU* 1.3 57.3 + - + +
235C LEU* 4.4 4.7 - - - -
236C THR* 2.9 35.8 + - - -
333C LEU* 4.2 19.1 - - + +
334C LEU* 3.7 27.7 - - + +
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Residues in contact with GLU 233 (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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229C GLU* 3.1 31.3 + - + +
230C ALA* 3.6 11.9 - - - +
231C CYS 3.2 0.4 - - - -
232C ALA* 1.3 78.3 - - + +
234C ARG* 1.3 57.8 + - + +
236C THR* 3.5 6.7 + - - +
237C ARG* 3.1 43.5 + - - +
366C ARG* 6.2 2.0 - - - +
386C HIS* 4.7 10.9 - - - -
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Residues in contact with ARG 234 (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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192C VAL* 3.6 24.7 - - - +
193C ALA* 4.2 24.5 + - - +
196C SER* 3.2 33.1 + - - +
230C ALA 3.3 8.2 + - - +
231C CYS 3.0 7.9 + - - +
233C GLU* 1.3 75.3 - - + +
235C LEU* 1.3 61.1 + - - +
237C ARG* 3.4 23.7 + - - +
238C ALA* 3.0 28.1 + - - +
243C ARG* 4.8 1.7 + - - -
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Residues in contact with LEU 235 (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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196C SER* 4.4 8.7 - - - +
199C LEU* 4.7 17.7 - - + +
200C SER* 3.2 31.2 - - - +
228C PHE* 6.0 0.7 - - + -
231C CYS* 2.9 23.7 + - + +
232C ALA* 3.8 6.7 - - - +
234C ARG* 1.3 73.7 - - - +
236C THR* 1.3 61.1 + - - +
238C ALA* 3.2 2.6 + - + +
239C LEU* 2.9 30.7 + - - +
244C ILE* 3.7 21.2 - - + +
249C VAL* 4.8 8.0 - - + +
252C ALA* 4.3 21.1 - - + -
256C LEU* 5.4 3.8 - - + -
334C LEU* 4.0 28.3 - - + -
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Residues in contact with THR 236 (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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232C ALA 2.9 23.1 + - - -
233C GLU* 3.6 8.2 - - - +
235C LEU* 1.3 77.1 - - - +
237C ARG* 1.3 57.3 + - - +
239C LEU* 3.4 9.5 + - + +
240C ALA* 3.0 27.0 + - + +
333C LEU 3.8 11.5 + - - +
334C LEU* 3.7 15.0 - - - +
366C ARG* 5.8 6.1 - - - +
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Residues in contact with ARG 237 (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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233C GLU* 3.1 31.1 + - - +
234C ARG* 3.7 31.4 - - - +
235C LEU 3.3 0.2 - - - -
236C THR* 1.3 76.6 - - - +
238C ALA* 1.3 65.2 + - - +
240C ALA* 3.1 7.8 + - + +
241C GLU* 3.0 47.2 + - - +
243C ARG* 4.0 7.6 - - - +
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Residues in contact with ALA 238 (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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200C SER* 5.4 2.7 - - - +
234C ARG 3.0 17.1 + - - +
235C LEU* 3.2 5.8 + - + +
237C ARG* 1.3 75.7 - - - +
239C LEU* 1.3 61.5 + - - +
241C GLU 3.3 1.6 + - - -
242C ASP 3.1 3.3 + - - -
243C ARG* 2.8 62.3 + - + +
244C ILE* 3.8 23.8 - - + -
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Residues in contact with LEU 239 (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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65A GLU* 5.4 9.9 - - + +
69A LYS* 2.8 33.8 + - - +
87A GLU* 4.1 8.5 - - - +
235C LEU 2.9 15.1 + - - +
236C THR* 3.6 9.9 - - + +
238C ALA* 1.3 76.2 - - - +
240C ALA* 1.3 61.0 + - - +
242C ASP* 3.1 8.7 + - - +
244C ILE* 3.4 26.4 - - + +
245C SER* 3.8 3.6 - - - -
246C ARG* 3.7 56.8 - - + +
249C VAL* 4.4 9.2 - - + -
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Residues in contact with ALA 240 (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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65A GLU* 6.0 0.4 - - - -
69A LYS* 3.6 22.3 - - - +
72A LEU* 3.8 18.3 - - + +
73A ARG* 4.9 0.2 + - - -
236C THR* 3.0 16.3 + - + +
237C ARG* 3.1 13.0 + - + +
239C LEU* 1.3 77.7 - - - +
241C GLU* 1.3 60.1 + - + +
242C ASP* 3.3 1.1 + - - +
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Residues in contact with GLU 241 (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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72A LEU* 5.0 5.8 - - + -
73A ARG* 3.0 29.8 + - - +
84A VAL* 5.3 0.3 - - - +
237C ARG* 3.0 29.5 + - + +
238C ALA 3.3 0.9 + - - +
239C LEU 3.2 0.2 - - - -
240C ALA* 1.3 80.1 - - + +
242C ASP* 1.3 67.5 + - - +
243C ARG* 2.6 55.2 + - + +
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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
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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) + - + + + + + -
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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