Contacts of the helix formed by residues 220 - 243 (chain C) in PDB entry 4H9Q
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 SER 220 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A GLN* 2.7 23.0 + - - -
210C LEU* 4.0 9.0 - - - -
214C GLU* 3.3 29.4 - - - -
217C ASP* 3.0 13.4 + - - -
218C PRO 3.5 1.2 - - - -
219C ASP* 1.3 81.3 - - - +
221C ALA* 1.3 64.4 + - - +
222C TYR* 3.3 10.2 + - - +
223C LEU* 3.1 7.8 + - - +
224C GLN* 3.0 20.5 + - - +
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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
----------------------------------------------------------
86A SER* 3.8 2.0 - - - +
205C LEU* 3.8 25.1 - - + +
208C LYS* 3.7 37.0 - - + -
210C LEU* 4.2 13.4 - - + +
214C GLU* 5.8 3.6 + - - +
219C ASP 3.9 0.2 + - - -
220C SER* 1.3 73.8 - - - +
222C TYR* 1.3 57.2 - - - +
224C GLN* 3.8 6.7 - - - +
225C ALA* 2.9 30.8 + - - +
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Residues in contact with TYR 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LEU* 4.8 1.7 - - - +
64A LYS* 3.8 38.2 - - + +
67A PHE* 4.8 0.9 - + - -
68A GLN* 3.8 12.6 - - + +
86A SER* 3.2 28.8 + - - +
89A ILE* 3.6 24.9 - - + -
90A GLY* 3.5 25.7 - - - -
93A GLN* 2.6 36.6 + - - +
210C LEU* 4.3 10.8 - - + +
220C SER* 3.1 9.0 + - - +
221C ALA* 1.3 78.4 - - - +
223C LEU* 1.3 68.4 + - + +
225C ALA* 3.4 6.5 + - + +
226C ALA* 3.0 27.2 + - + +
229C LYS* 5.7 6.1 - - - -
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Residues in contact with LEU 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A LYS* 3.6 39.9 - - + +
65A LEU* 3.6 29.4 - - + +
68A GLN* 4.1 2.9 - - - +
217C ASP 4.1 0.9 - - - +
218C PRO* 3.1 38.1 - - + +
219C ASP* 4.9 0.4 - - - -
220C SER* 3.1 16.1 + - - +
222C TYR* 1.3 84.4 - - + +
224C GLN* 1.3 65.4 + - - +
226C ALA* 3.3 5.3 + - + +
227C ARG* 3.0 23.9 + - - +
230C ARG* 5.2 1.0 + - - -
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Residues in contact with GLN 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C GLU* 5.3 1.4 - - - +
204C ARG* 5.0 2.9 + - - -
205C LEU* 3.8 28.0 - - + +
219C ASP* 2.9 45.7 + - - +
220C SER 3.0 20.1 + - - +
221C ALA* 3.8 6.4 - - - +
223C LEU* 1.3 74.8 - - - +
225C ALA* 1.3 58.3 + - - +
227C ARG* 3.3 8.6 + - - +
228C LEU* 3.0 31.6 + - + +
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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
----------------------------------------------------------
86A SER* 4.8 4.0 - - - +
202C ILE* 4.4 10.2 - - + +
205C LEU* 3.9 22.4 - - + +
206C GLN* 5.1 5.4 - - + -
221C ALA 2.9 19.3 + - - +
222C TYR* 3.5 9.6 - - + +
223C LEU 3.2 0.2 - - - -
224C GLN* 1.3 76.3 - - - +
226C ALA* 1.3 57.7 + - - +
228C LEU* 3.2 5.9 + - - +
229C LYS* 2.9 45.6 + - - +
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Residues in contact with ALA 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A SER* 4.9 2.1 + - - +
58A THR* 5.4 0.2 - - - +
64A LYS* 3.5 36.3 - - + -
222C TYR* 3.0 17.9 + - + +
223C LEU* 3.7 7.9 - - + +
224C GLN 3.3 0.2 - - - -
225C ALA* 1.3 75.6 - - - +
227C ARG* 1.3 62.4 + - - +
229C LYS* 3.3 13.8 + - - +
230C ARG* 3.0 39.0 + - - +
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Residues in contact with ARG 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223C LEU 3.0 17.6 + - - +
224C GLN* 3.6 7.9 - - - +
226C ALA* 1.3 78.1 - - - +
228C LEU* 1.3 60.0 + - - +
230C ARG* 3.3 29.0 + - - +
231C LYS* 3.0 63.6 + - - +
403C PO4 5.4 0.2 + - - -
404C PO4 2.9 32.4 + - - +
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Residues in contact with LEU 228 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C TYR* 3.8 36.2 - - + +
201C GLU* 3.4 34.3 - - + +
202C ILE* 3.8 18.1 - - + +
205C LEU* 3.8 15.9 - - + -
224C GLN* 3.0 12.2 + - + +
225C ALA 3.2 8.2 + - - +
227C ARG* 1.3 76.0 - - - +
229C LYS* 1.3 60.2 + - - +
231C LYS* 3.3 16.8 + - + +
232C LEU* 2.9 30.8 + - - +
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Residues in contact with LYS 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A ARG 5.5 1.0 + - - -
54A TYR* 3.8 41.2 - - + +
57A SER* 3.3 33.7 + - - +
58A THR* 4.4 2.0 - - + -
90A GLY* 5.8 4.6 - - - -
202C ILE* 3.8 20.0 - - + -
206C GLN* 3.9 22.8 - - - +
222C TYR* 5.7 7.1 - - - -
225C ALA* 2.9 29.1 + - - +
226C ALA* 3.6 10.3 - - - +
228C LEU* 1.3 74.1 - - - +
230C ARG* 1.3 64.7 + - - +
232C LEU* 3.3 3.7 + - - +
233C ILE* 2.9 29.6 + - - +
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Residues in contact with ARG 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A THR* 3.9 26.9 - - + +
64A LYS* 5.3 7.5 - - - +
223C LEU 5.2 0.6 + - - -
226C ALA* 3.0 30.4 + - - +
227C ARG* 3.4 30.6 - - - +
229C LYS* 1.3 76.1 - - - +
231C LYS* 1.3 63.6 + - - +
233C ILE* 3.2 3.0 + - - +
234C ARG* 3.0 41.1 + - + +
404C PO4 2.8 39.9 + - - +
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Residues in contact with LYS 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C TYR* 3.6 30.9 - - + -
227C ARG* 3.0 52.4 + - - +
228C LEU* 3.3 25.8 + - + +
230C ARG* 1.3 75.4 - - - +
232C LEU* 1.3 57.8 + - - +
234C ARG* 3.3 27.5 + - - +
235C LEU* 3.0 27.7 + - - +
403C PO4 3.3 29.1 + - - +
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Residues in contact with LEU 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 3.8 27.8 - - + -
54A TYR* 3.7 34.8 - - + -
195C LEU* 3.7 16.6 - - + +
198C TYR* 3.8 25.7 - - + -
199C VAL* 3.7 19.5 - - + -
202C ILE* 3.7 12.1 - - + -
228C LEU 2.9 17.0 + - - +
229C LYS* 3.6 4.3 - - - +
231C LYS* 1.3 73.7 - - - +
233C ILE* 1.3 71.4 + - + +
235C LEU* 3.2 3.6 + - - +
236C PHE* 2.8 25.4 + - + +
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Residues in contact with ILE 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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51A ILE* 3.7 22.7 - - + +
54A TYR* 4.0 9.6 - - + -
55A GLN* 3.6 48.9 - - + +
58A THR* 4.2 13.7 - - + +
229C LYS 2.9 20.9 + - - +
230C ARG 3.2 4.7 + - - +
232C LEU* 1.3 84.3 - - + +
234C ARG* 1.3 62.6 + - + +
236C PHE* 3.3 9.7 + - + +
237C GLY* 3.0 19.6 + - - -
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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
----------------------------------------------------------
230C ARG* 3.0 25.1 + - - +
231C LYS* 3.3 30.0 - - - +
232C LEU 3.3 0.2 - - - -
233C ILE* 1.3 78.5 - - + +
235C LEU* 1.3 57.8 + - - +
237C GLY* 3.3 2.6 + - - -
238C ARG* 3.0 47.8 + - - +
403C PO4 2.9 44.4 + - - -
404C PO4 3.0 43.1 + - - -
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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
----------------------------------------------------------
191C LEU* 3.8 51.1 - - + +
194C LEU* 3.8 17.0 - - + -
195C LEU* 3.9 16.6 - - + +
198C TYR* 3.7 24.2 - - + -
231C LYS 3.0 14.2 + - - +
232C LEU* 3.2 8.3 + - - +
234C ARG* 1.3 72.3 - - - +
236C PHE* 1.3 67.4 + - - +
238C ARG* 3.1 20.6 + - + +
239C LEU* 2.9 26.7 + - + +
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Residues in contact with PHE 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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41A TYR* 3.4 29.2 - + - -
43A PRO* 4.0 16.8 - - + -
48A LEU* 4.1 16.4 - - + -
51A ILE* 4.1 24.2 - - + -
55A GLN* 5.8 0.7 - - - -
195C LEU* 4.2 11.6 - - + +
232C LEU 2.8 13.9 + - - +
233C ILE* 3.5 17.3 - - + +
234C ARG 3.3 0.2 - - - -
235C LEU* 1.3 75.9 - - - +
237C GLY* 1.3 59.5 + - - +
239C LEU* 3.2 8.1 + - - +
240C CYS* 2.9 49.4 + - - -
247C SER* 4.0 9.9 - - - -
248C LEU 3.9 12.3 - - - -
249C THR* 3.6 26.5 - - + -
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Residues in contact with GLY 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C ILE 3.0 14.4 + - - -
234C ARG 3.3 4.0 + - - -
235C LEU 3.2 0.2 - - - -
236C PHE* 1.3 80.8 - - - +
238C ARG* 1.3 61.2 + - - +
240C CYS* 3.1 10.1 + - - +
241C GLU* 3.0 29.7 + - - +
247C SER* 5.3 8.0 - - - -
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Residues in contact with ARG 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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191C LEU* 5.9 4.9 - - + -
234C ARG* 3.0 32.2 + - - +
235C LEU* 3.5 24.0 - - + +
237C GLY* 1.3 75.5 - - - +
239C LEU* 1.3 57.3 + - - +
241C GLU* 3.3 17.8 + - - +
242C LEU* 2.9 27.9 + - - +
403C PO4 2.6 45.2 + - - -
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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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41A TYR* 3.5 35.2 - - + +
188C ILE* 4.2 24.7 - - + +
191C LEU* 3.7 44.9 - - + +
192C GLU* 4.3 3.8 - - + -
195C LEU* 4.2 18.6 - - + -
235C LEU* 2.9 28.1 + - + +
236C PHE* 3.5 7.4 - - - +
238C ARG* 1.3 72.7 - - - +
240C CYS* 1.3 66.8 + - - +
242C LEU* 3.2 9.3 + - + +
243C LYS* 3.0 29.0 + - + +
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Residues in contact with CYS 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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41A TYR* 3.7 15.9 - - - -
236C PHE* 2.9 50.1 + - - -
237C GLY* 3.1 10.1 + - - +
239C LEU* 1.3 75.9 - - - +
241C GLU* 1.3 61.2 - - + +
243C LYS 3.3 1.0 + - - -
244C ASP 3.0 4.0 + - - -
245C CYS* 2.8 36.7 + - - +
246C SER 3.2 29.2 - - - +
247C SER* 3.9 7.9 - - - -
248C LEU 5.2 0.2 - - - -
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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
----------------------------------------------------------
237C GLY 3.0 15.6 + - - +
238C ARG* 3.6 22.6 - - - +
240C CYS* 1.3 76.7 - - + +
242C LEU* 1.3 63.0 + - - +
244C ASP* 3.2 15.8 + - - +
245C CYS 4.8 2.5 - - - +
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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
----------------------------------------------------------
182C ARG* 4.5 1.0 - - - -
183C GLY* 3.6 32.2 + - - -
184C SER 4.5 3.1 - - - +
187C GLN* 3.9 28.9 - - + +
188C ILE* 3.7 29.6 - - + +
191C LEU* 4.1 22.2 - - + -
238C ARG 2.9 16.4 + - - +
239C LEU* 3.2 9.4 + - + +
241C GLU* 1.3 78.2 - - - +
243C LYS* 1.3 59.5 + - + +
244C ASP* 3.3 1.1 + - - +
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Residues in contact with LYS 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A TYR* 3.5 33.5 - - + -
182C ARG* 6.0 2.9 - - - +
183C GLY 5.0 3.4 - - - +
188C ILE* 3.8 40.4 - - + +
192C GLU* 5.4 1.6 + - - -
239C LEU* 3.0 18.2 + - + +
240C CYS 4.2 0.7 - - - +
241C GLU 3.3 0.2 - - - -
242C LEU* 1.3 75.7 - - - +
244C ASP* 1.3 69.0 + - - +
245C CYS* 3.2 21.1 + - - -
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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) + - + + + + + -
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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