Contacts of the helix formed by residues 219 - 241 (chain C) in PDB entry 4WLU
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 PRO 219 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185C LYS* 6.0 0.7 - - - +
217C ASP 4.5 3.1 - - - +
218C PHE* 1.3 87.7 - - - +
220C GLN* 1.3 66.8 + - - +
221C ASP* 3.2 18.6 - - - +
222C GLN* 3.0 36.5 + - - +
223C LEU 3.0 15.6 + - - -
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Residues in contact with GLN 220 (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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218C PHE 3.7 1.6 + - - -
219C PRO* 1.3 72.2 - - - +
221C ASP* 1.3 56.7 + - - +
223C LEU* 3.7 27.5 - - - +
224C THR* 2.8 46.3 + - - +
311C PHE* 3.9 29.7 - - - +
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Residues in contact with ASP 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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219C PRO* 3.3 25.1 - - - +
220C GLN* 1.3 75.3 - - - +
222C GLN* 1.3 73.6 + - - +
224C THR* 3.6 6.2 + - - -
225C ALA* 3.2 21.8 + - - +
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Residues in contact with GLN 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C LEU* 5.4 10.0 - - + +
185C LYS* 5.5 1.6 + - - -
218C PHE* 3.8 25.3 - - + -
219C PRO* 3.0 34.5 + - + +
221C ASP* 1.3 86.0 + - - +
223C LEU* 1.3 57.6 + - - +
225C ALA* 3.2 7.3 + - - +
226C LEU* 2.8 36.2 + - - +
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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
----------------------------------------------------------
209C ILE* 3.6 45.1 - - + -
218C PHE* 3.9 21.2 - - + +
219C PRO 3.0 12.4 + - - +
220C GLN* 3.5 27.4 - - - +
222C GLN* 1.3 76.8 - - - +
224C THR* 1.3 53.5 + - - +
226C LEU* 3.4 6.8 + - + +
227C THR* 2.7 39.5 + - - +
309C SER* 6.0 0.7 - - - +
311C PHE* 3.7 31.0 - - + -
312C GLU* 6.1 1.1 - - - +
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Residues in contact with THR 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C GLN* 2.8 36.5 + - - +
221C ASP* 3.8 6.5 - - - -
223C LEU* 1.3 72.0 - - - +
225C ALA* 1.3 59.6 + - - +
227C THR* 3.4 6.6 + - - -
228C GLY* 3.0 25.1 + - - -
311C PHE* 4.2 15.9 - - + -
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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 ASP 3.2 11.2 + - - +
222C GLN* 3.2 10.4 + - - +
224C THR* 1.3 78.8 - - - +
226C LEU* 1.3 58.5 + - - +
228C GLY* 3.3 2.0 + - - -
229C ARG* 2.9 29.6 + - - +
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Residues in contact with LEU 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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180C PHE* 3.6 34.8 - - + -
181C VAL* 3.9 13.7 - - + +
184C LEU* 4.1 18.2 - - + -
209C ILE* 4.1 13.2 - - + -
218C PHE* 3.8 42.0 - - + -
222C GLN 2.8 19.0 + - - +
223C LEU* 3.6 5.6 - - + +
225C ALA* 1.3 71.5 - - - +
227C THR* 1.3 64.8 + - - +
229C ARG* 3.4 5.9 + - + +
230C ILE* 3.1 41.4 + - + +
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Residues in contact with THR 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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207C PRO* 3.9 24.5 + - + +
209C ILE* 4.7 3.1 - - - +
223C LEU* 2.7 33.9 + - - +
224C THR* 3.6 7.4 - - - -
226C LEU* 1.3 72.7 - - - +
228C GLY* 1.3 57.0 + - - +
230C ILE* 3.3 5.1 + - - +
231C GLN* 3.0 45.0 + - - +
311C PHE* 3.7 17.9 - - + -
315C MET* 3.6 30.9 - - + +
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Residues in contact with GLY 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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224C THR 3.0 15.0 + - - -
225C ALA* 3.3 3.6 + - - -
227C THR* 1.3 73.3 - - - +
229C ARG* 1.3 59.8 + - - +
231C GLN* 3.2 13.7 + - - +
232C GLU* 2.8 39.7 + - - +
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Residues in contact with ARG 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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180C PHE* 3.6 42.3 - - + +
183C GLU* 5.3 5.1 + - - -
225C ALA 2.9 17.4 + - - +
226C LEU* 3.5 9.4 - - + +
227C THR 3.3 0.2 - - - -
228C GLY* 1.3 76.3 - - - +
230C ILE* 1.3 56.9 + - - +
232C GLU* 3.7 2.1 - - - -
233C ALA* 3.0 32.4 + - - +
236C GLU* 2.8 39.0 + - - +
69D SER* 5.9 0.6 + - - -
70D HIS* 4.7 1.4 + - - -
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Residues in contact with ILE 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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173C ASP* 4.1 22.1 - - + +
176C ARG* 4.8 6.5 + - + -
177C ALA* 3.7 26.7 - - + +
180C PHE* 3.7 24.2 - - + -
196C VAL* 5.2 0.4 - - + -
205C ILE* 4.1 24.2 - - + +
207C PRO* 3.8 28.7 - - + -
209C ILE* 4.3 5.6 - - + -
226C LEU* 3.1 33.5 + - + +
227C THR 3.6 5.6 - - - +
229C ARG* 1.3 75.5 - - - +
231C GLN* 1.3 63.6 + - - +
233C ALA* 3.6 11.3 + - - +
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Residues in contact with GLN 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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110C ARG* 4.9 5.4 + - - -
202C GLY* 3.4 23.5 + - - +
203C LYS* 3.8 22.7 + - - +
205C ILE* 3.0 50.8 + - + +
207C PRO* 4.8 0.7 - - + -
227C THR* 3.0 35.0 + - + +
228C GLY* 3.6 15.1 - - - +
230C ILE* 1.3 78.3 - - - +
232C GLU* 1.3 70.2 + - - +
233C ALA 3.7 0.5 + - - -
234C GLY 4.8 1.7 + - - -
235C THR* 5.5 0.3 + - - -
315C MET* 4.0 12.7 - - - +
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Residues in contact with GLU 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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202C GLY* 4.2 16.4 - - - -
228C GLY* 2.8 24.5 + - - +
229C ARG* 3.7 2.9 - - - +
231C GLN* 1.3 82.0 - - + +
233C ALA* 1.3 60.3 - - - +
234C GLY 3.3 3.1 - - - -
235C THR* 3.0 27.2 + - + +
236C GLU* 2.9 27.8 + - + +
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Residues in contact with ALA 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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176C ARG* 3.5 32.3 - - - +
180C PHE* 4.1 9.2 - - + -
229C ARG 3.0 16.9 + - - +
230C ILE 3.7 6.7 - - - +
231C GLN 3.4 2.0 - - - -
232C GLU* 1.3 77.6 - - - +
234C GLY* 1.3 62.4 + - - +
236C GLU* 3.3 11.3 + - - +
237C VAL* 3.2 27.5 + - - +
70D HIS* 3.6 11.9 - - + -
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Residues in contact with GLY 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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104C ARG* 3.3 6.5 - - - -
110C ARG* 3.7 10.4 - - - +
176C ARG* 3.5 23.5 - - - +
231C GLN 4.8 0.8 + - - -
232C GLU 3.3 0.8 - - - -
233C ALA* 1.3 77.6 - - - +
235C THR* 1.3 56.6 + - - +
237C VAL* 3.5 3.5 + - - +
238C VAL* 3.1 30.8 + - - +
246C SER* 5.3 0.3 - - - -
247C ALA 5.4 0.2 + - - -
401C LMR 3.6 18.1 - - - +
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Residues in contact with THR 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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104C ARG* 3.3 28.4 + - - +
107C GLY 5.9 2.7 - - - +
108C MET 5.5 2.0 - - - +
110C ARG* 4.7 3.7 + - - +
231C GLN 5.5 0.2 + - - -
232C GLU* 3.0 30.0 + - - +
234C GLY* 1.3 75.3 - - - +
236C GLU* 1.3 59.8 + - - +
238C VAL* 3.3 6.5 + - + +
239C LYS* 2.9 54.6 + - + +
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Residues in contact with GLU 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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229C ARG* 2.8 44.0 + - - +
232C GLU* 2.9 12.9 + - + +
233C ALA* 3.4 12.3 - - - +
235C THR* 1.3 77.1 - - - +
237C VAL* 1.3 58.3 + - + +
239C LYS* 3.5 6.7 + - - +
240C ALA* 3.0 27.0 + - + +
66D ALA* 5.1 9.0 - - + +
69D SER* 5.3 1.4 + - - -
70D HIS* 3.1 27.3 + - + -
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Residues in contact with VAL 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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176C ARG* 4.4 5.4 - - - +
233C ALA 3.2 6.0 + - - +
234C GLY 3.9 6.5 - - - +
236C GLU* 1.3 73.8 - - + +
238C VAL* 1.3 66.7 + - - +
240C ALA* 3.2 6.3 + - - +
241C LYS* 2.9 33.4 + - + +
246C SER 4.2 0.2 - - - -
247C ALA* 3.7 33.0 - - + +
63D GLY 4.5 0.9 - - - +
66D ALA* 4.3 4.3 - - + -
67D ASP* 4.2 30.7 - - + +
70D HIS* 3.4 34.5 - - + +
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Residues in contact with VAL 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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104C ARG* 4.0 29.8 - - + +
105C LYS 3.6 8.5 - - - +
106C PRO* 3.5 39.0 - - + +
107C GLY 5.0 0.9 - - - +
108C MET 5.8 0.4 - - - +
234C GLY 3.1 16.3 + - - +
235C THR* 3.3 11.4 + - + +
237C VAL* 1.3 76.3 - - - +
239C LYS* 1.3 60.5 + - + +
241C LYS* 3.3 3.3 + - - +
242C ALA 3.2 16.3 + - - -
243C GLY 4.2 0.7 + - - -
245C GLY 3.9 9.7 - - - +
246C SER* 3.5 28.9 - - - +
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Residues in contact with LYS 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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106C PRO* 4.5 19.3 - - + +
107C GLY* 4.2 20.5 - - - +
235C THR* 2.9 39.2 + - + +
236C GLU* 3.9 6.7 - - - +
238C VAL* 1.3 76.2 - - + +
240C ALA* 1.3 64.9 + - - +
242C ALA* 3.2 15.1 + - - +
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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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236C GLU* 3.0 18.5 + - + +
237C VAL 3.2 4.5 + - - +
239C LYS* 1.3 76.9 - - - +
241C LYS* 1.3 59.1 + - - +
242C ALA* 3.5 3.8 + - - +
62D PRO* 4.3 10.5 - - + +
63D GLY* 3.6 18.4 + - - +
66D ALA* 3.8 26.9 - - + -
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Residues in contact with LYS 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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237C VAL* 2.9 18.6 + - + +
238C VAL 3.3 0.6 + - - +
239C LYS 3.2 0.2 - - - -
240C ALA* 1.3 74.9 - - - +
242C ALA* 1.3 68.5 + - - +
243C GLY 3.2 1.1 - - - -
244C ALA* 2.9 40.6 + - + +
245C GLY 3.5 27.6 - - - +
246C SER 2.8 26.9 + - - +
248C THR* 3.1 24.4 + - - +
38D GLN* 5.0 4.9 + - - -
60D HIS* 5.0 3.6 + - - -
63D GLY* 3.7 33.9 - - - +
64D VAL* 4.6 6.7 - - - +
67D ASP* 3.3 15.8 + - - -
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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