Contacts of the helix formed by residues 230 - 255 (chain C) in PDB entry 1OHV
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 PHE 230 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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224C LYS* 3.7 49.6 - - + +
225C TYR 3.4 22.0 - - - -
226C PRO* 3.4 22.0 - - + +
227C LEU 3.3 6.0 + - - -
229C GLU* 1.3 97.6 - - + +
231C VAL* 1.3 58.6 + - - +
232C LYS 3.4 2.2 - - - -
233C GLU* 3.4 28.3 - - + +
234C ASN* 2.9 33.2 + - - +
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Residues in contact with VAL 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227C LEU 3.6 13.9 + - - +
228C GLU* 4.0 17.3 - - + +
229C GLU 3.8 1.2 - - - -
230C PHE* 1.3 76.4 - - - +
232C LYS* 1.3 62.8 + - + +
233C GLU* 4.2 0.2 + - - -
234C ASN* 3.9 3.6 - - - +
235C GLN* 3.0 55.8 + - + +
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Residues in contact with LYS 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230C PHE 3.4 0.2 - - - -
231C VAL* 1.3 81.9 - - + +
233C GLU* 1.3 68.2 + - - +
235C GLN* 3.3 16.5 + - - +
236C GLN* 3.0 30.1 + - - +
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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
----------------------------------------------------------
224C LYS* 4.2 21.6 + - + +
229C GLU 4.1 2.9 - - - +
230C PHE* 3.4 48.8 - - + +
231C VAL 3.4 0.4 + - - -
232C LYS* 1.3 83.9 + - - +
234C ASN* 1.3 59.3 + - - +
236C GLN* 3.3 6.5 + - - +
237C GLU* 2.9 29.0 + - - +
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Residues in contact with ASN 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222C ARG 4.7 1.2 - - - +
223C LEU* 3.7 17.3 - - + +
224C LYS* 2.9 52.7 + - - +
227C LEU* 3.7 24.2 + - - +
230C PHE* 2.9 24.2 + - - +
231C VAL* 4.0 3.3 - - - +
233C GLU* 1.3 75.9 - - - +
235C GLN* 1.3 64.8 + - - +
237C GLU* 3.4 5.4 + - - +
238C GLU* 3.0 32.4 + - - +
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Residues in contact with GLN 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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231C VAL* 3.0 43.2 + - + +
232C LYS* 3.3 16.0 + - - +
234C ASN* 1.3 76.3 - - - +
236C GLN* 1.3 57.8 + - - +
238C GLU* 3.4 8.7 + - - +
239C ALA* 3.0 28.1 + - - +
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Residues in contact with GLN 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 LYS 3.0 17.0 + - - +
233C GLU* 3.7 6.3 - - - +
234C ASN 3.3 0.2 - - - -
235C GLN* 1.3 73.8 - - - +
237C GLU* 1.3 60.7 - - - +
239C ALA* 3.7 6.8 - - - +
240C ARG* 2.9 31.2 + - - +
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Residues in contact with GLU 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C PHE 4.4 0.7 - - - +
221C PRO* 3.8 10.1 - - + +
222C ARG* 2.9 51.9 + - - +
223C LEU* 5.1 2.2 - - + -
224C LYS* 4.9 11.0 + - - +
233C GLU 2.9 17.9 + - - +
234C ASN* 3.6 8.5 - - - +
236C GLN* 1.3 74.9 - - - +
238C GLU* 1.3 64.1 + - - +
240C ARG* 3.4 39.9 + - - +
241C CYS* 3.0 24.6 + - - -
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Residues in contact with GLU 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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221C PRO* 3.9 24.5 - - + -
223C LEU* 3.7 16.8 - - + +
234C ASN* 3.0 22.4 + - - +
235C GLN* 3.7 7.2 - - - +
237C GLU* 1.3 77.3 - - - +
239C ALA* 1.3 56.8 + - - +
241C CYS* 3.2 3.5 + - - +
242C LEU* 3.0 35.8 + - + +
276C ALA* 3.8 1.2 - - - -
277C SER* 2.5 49.2 + - - -
279C ASP* 4.7 4.5 - - - +
280C PHE* 3.6 22.6 + - + +
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Residues in contact with ALA 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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235C GLN 3.0 17.8 + - - +
236C GLN* 3.7 7.4 - - - +
238C GLU* 1.3 72.1 - - - +
240C ARG* 1.3 65.7 + - - +
242C LEU* 3.4 11.8 + - - +
243C GLU* 2.9 24.9 + - - +
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Residues in contact with ARG 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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219C PRO* 4.0 14.3 - - - +
220C PHE 5.2 0.8 + - - -
236C GLN 2.9 18.5 + - - +
237C GLU* 3.4 38.1 + - - +
239C ALA* 1.3 75.2 - - - +
241C CYS* 1.3 75.3 + - - +
243C GLU* 3.3 6.7 + - - +
244C GLU* 2.9 59.6 + - + +
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Residues in contact with CYS 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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219C PRO* 3.3 35.0 - - - +
220C PHE 3.8 1.8 - - - -
221C PRO* 3.5 34.3 - - + -
237C GLU* 3.0 18.7 + - - +
238C GLU 3.2 7.6 + - - +
240C ARG* 1.3 98.0 - - - +
242C LEU* 1.3 58.1 + - - +
244C GLU* 3.2 4.2 + - - +
245C VAL* 2.9 32.8 + - - +
280C PHE* 4.2 3.8 - - + -
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Residues in contact with LEU 242 (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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238C GLU* 3.0 25.9 + - + +
239C ALA* 3.7 9.4 - - - +
241C CYS* 1.3 72.4 - - - +
243C GLU* 1.3 65.5 + - - +
245C VAL* 3.3 7.9 + - + +
246C GLU* 3.2 18.1 + - - +
280C PHE* 3.5 41.7 - - + +
283C LYS* 3.7 33.0 - - + +
284C LEU* 3.8 25.6 - - + +
287C ILE* 3.7 23.2 - - + +
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Residues in contact with GLU 243 (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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239C ALA 2.9 17.8 + - - +
240C ARG* 3.6 7.0 - - - +
242C LEU* 1.3 75.1 - - - +
244C GLU* 1.3 59.4 + - + +
246C GLU* 3.1 9.6 + - - +
247C ASP* 3.0 37.5 + - - +
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Residues in contact with GLU 244 (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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219C PRO* 3.3 32.9 - - + +
240C ARG* 2.9 47.4 + - + +
241C CYS 3.6 7.4 - - - +
243C GLU* 1.3 72.9 - - + +
245C VAL* 1.3 66.0 + - - +
247C ASP* 3.4 10.7 + - - +
248C LEU* 3.0 32.8 + - + +
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Residues in contact with VAL 245 (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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183C LEU* 3.8 11.5 - - + +
185C PHE* 3.6 23.1 - - + -
218C ALA* 3.6 27.1 - - + -
241C CYS 2.9 19.6 + - - +
242C LEU* 3.4 9.9 - - + +
244C GLU* 1.3 76.8 - - - +
246C GLU* 1.3 64.6 + - - +
248C LEU* 3.1 6.5 + - - +
249C ILE* 3.0 37.6 + - + +
262C ILE* 4.4 3.8 - - + -
280C PHE* 5.8 0.7 - - + -
284C LEU* 3.9 22.7 - - + -
287C ILE* 4.2 7.6 - - + -
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Residues in contact with GLU 246 (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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242C LEU 3.2 8.2 + - - +
243C GLU* 3.1 11.8 + - - +
245C VAL* 1.3 81.9 - - - +
247C ASP* 1.3 64.9 + - - +
249C ILE* 3.2 11.2 + - - +
250C VAL* 3.0 26.2 + - + +
287C ILE* 3.9 20.4 - - + +
290C LYS* 2.7 32.1 + - - +
291C HIS* 2.6 36.1 + - + +
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Residues in contact with ASP 247 (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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243C GLU* 3.0 24.3 + - - +
244C GLU* 3.7 12.9 - - + +
246C GLU* 1.3 79.2 - - - +
248C LEU* 1.3 58.5 + - + +
250C VAL* 3.4 8.8 + - - +
251C LYS* 2.9 30.5 + - - +
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Residues in contact with LEU 248 (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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183C LEU* 4.0 4.9 - - + -
216C PRO* 4.0 21.1 - - + -
217C ILE 3.5 31.4 - - - +
218C ALA* 3.5 23.8 - - + +
219C PRO* 4.8 2.9 - - + -
244C GLU* 3.0 23.2 + - + +
245C VAL* 3.1 7.2 + - - +
247C ASP* 1.3 74.9 - - + +
249C ILE* 1.3 66.4 + - - +
251C LYS* 4.3 17.9 - - + +
252C TYR* 2.9 41.8 + - + +
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Residues in contact with ILE 249 (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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183C LEU* 3.9 13.2 - - + -
245C VAL* 3.0 18.1 + - + +
246C GLU* 3.5 7.2 - - - +
248C LEU* 1.3 77.4 - - - +
250C VAL* 1.3 63.2 + - - +
252C TYR* 4.0 1.7 - - - +
253C ARG* 3.1 23.1 + - + +
259C VAL* 3.9 18.9 + - + +
262C ILE* 3.9 25.8 - - + -
287C ILE* 3.9 23.1 - - + -
291C HIS* 3.8 34.3 - - + +
293C CYS* 3.9 18.4 - - - -
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Residues in contact with VAL 250 (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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246C GLU* 3.0 21.0 + - + +
247C ASP* 3.7 10.8 - - - +
249C ILE* 1.3 76.8 - - - +
251C LYS* 1.3 63.4 + - - +
253C ARG* 3.2 9.5 + - - +
254C LYS* 3.2 46.9 + - - +
291C HIS* 4.1 20.2 - - + +
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Residues in contact with LYS 251 (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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247C ASP 2.9 20.1 + - - +
248C LEU* 3.7 19.9 - - + +
250C VAL* 1.3 77.7 - - - +
252C TYR* 1.3 69.4 + - + +
254C LYS* 3.3 13.1 + - - +
255C LYS* 3.1 49.6 + - + +
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Residues in contact with TYR 252 (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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181C SER* 4.4 0.4 - - - -
214C ASP* 2.8 42.7 + - - -
215C TRP 3.9 6.1 + - - -
216C PRO* 3.8 37.6 - - + +
248C LEU* 2.9 32.7 + - + +
251C LYS* 1.3 87.4 + - + +
253C ARG* 1.3 62.9 + - - +
255C LYS* 3.2 29.0 + - + +
256C LYS 3.1 3.3 + - - -
257C LYS* 2.8 62.7 + - + +
258C THR* 4.6 0.2 - - - -
259C VAL* 3.9 12.8 - - + -
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Residues in contact with ARG 253 (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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249C ILE* 3.1 15.1 + - + +
250C VAL* 3.4 13.2 - - + +
252C TYR* 1.3 75.6 - - - +
254C LYS* 1.3 60.6 + - + +
256C LYS* 3.1 20.8 + - - +
258C THR* 4.6 26.3 + - + +
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Residues in contact with LYS 254 (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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250C VAL* 3.2 35.0 + - + +
251C LYS* 3.5 13.5 - - - +
252C TYR 3.2 0.2 - - - -
253C ARG* 1.3 74.0 - - + +
255C LYS* 1.3 61.4 + - + +
256C LYS* 3.1 12.0 + - - +
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Residues in contact with LYS 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C ASP* 4.4 11.6 + - - -
251C LYS* 3.1 36.6 + - + +
252C TYR* 3.2 50.4 + - + +
254C LYS* 1.3 76.0 - - + +
256C LYS* 1.3 69.7 + - - +
257C LYS* 4.1 20.6 - - + +
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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