Contacts of the helix formed by residues 241 - 261 (chain C) in PDB entry 4WCX
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 241 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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15C ARG* 5.1 3.8 + - - -
18C LEU* 4.2 8.0 - - - +
240C TYR* 1.3 92.6 - - + +
242C TYR* 1.3 70.3 + - - +
243C LYS* 3.1 30.3 + - - +
244C TYR* 3.1 23.6 + - - +
245C GLU* 3.1 22.2 + - - +
285C TYR* 3.4 19.6 - - + -
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Residues in contact with TYR 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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51C LEU* 4.1 15.0 - - + -
54C GLU* 4.4 1.4 + - - -
237C TYR* 3.8 27.1 - - + -
240C TYR 3.2 6.0 + - - -
241C ASP* 1.3 79.5 + - - +
243C LYS* 1.3 93.5 + - + +
245C GLU* 3.8 2.8 - - - +
246C THR* 2.8 30.7 + - - -
285C TYR 5.5 0.6 + - - -
287C VAL* 3.8 18.6 - - + +
291C ASP* 3.4 46.0 + - + -
294C LYS* 3.1 29.9 + - - -
295C LEU* 3.8 20.0 - - + -
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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
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18C LEU* 4.0 17.0 - - + -
48C ALA 5.9 0.4 - - - +
51C LEU* 3.3 39.8 + - + +
52C ASN* 3.2 29.5 + - - +
54C GLU* 4.3 9.3 + - - -
241C ASP* 3.1 18.5 + - - +
242C TYR* 1.3 106.1 - - + +
244C TYR* 1.3 65.1 + - - +
246C THR* 3.2 1.7 + - - -
247C VAL* 3.0 30.8 + - - +
294C LYS* 4.7 0.2 - - - +
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Residues in contact with TYR 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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9C ILE* 5.2 1.9 - - - +
11C ASP* 2.6 41.2 + - - +
14C ILE* 3.6 37.0 - - + +
15C ARG* 4.1 14.8 - - - -
18C LEU* 4.1 18.7 - - + +
196C TYR* 4.0 9.9 + - + -
197C HIS* 3.8 40.6 - + + -
198C ARG 5.1 1.0 + - - -
240C TYR* 3.7 23.1 - + + -
241C ASP* 3.1 20.6 + - - +
243C LYS* 1.3 76.9 - - - +
245C GLU* 1.3 68.0 + - - +
247C VAL* 3.8 1.6 - - - +
248C ALA* 3.0 20.7 + - + +
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Residues in contact with GLU 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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194C GLU 4.0 1.6 - - - +
195C THR* 2.5 33.6 + - - -
196C TYR* 2.7 35.7 + - - +
197C HIS 3.9 2.2 + - - -
235C VAL* 3.7 29.6 - - + +
236C LEU 5.3 0.7 - - - +
237C TYR* 4.2 4.7 - - + -
239C LEU* 4.8 0.5 - - - +
240C TYR* 3.4 22.6 + - - +
241C ASP 3.1 17.8 + - - +
242C TYR* 3.8 8.1 - - - +
244C TYR* 1.3 80.4 - - - +
246C THR* 1.3 58.8 + - - +
248C ALA* 3.4 2.9 + - - +
249C MET* 2.9 29.3 + - - +
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Residues in contact with THR 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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51C LEU* 3.9 23.8 - - + -
237C TYR* 2.8 23.6 + - - -
242C TYR 2.8 20.7 + - - -
243C LYS 3.2 2.7 + - - -
245C GLU* 1.3 73.8 - - - +
247C VAL* 1.3 66.4 + - - +
249C MET* 3.3 5.0 + - + +
250C LEU* 3.1 35.8 + - + +
295C LEU* 4.1 10.7 - - - +
298C VAL* 4.8 2.7 - - + -
299C ILE* 3.6 33.0 - - + -
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Residues in contact with VAL 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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14C ILE* 4.2 16.6 - - + -
17C ASP* 3.8 14.1 - - + +
18C LEU* 4.2 7.2 - - + -
44C PRO* 3.8 14.2 - - + +
47C ALA* 4.9 0.4 - - + -
48C ALA* 3.8 22.7 - - + -
51C LEU* 3.7 17.9 - - + -
243C LYS 3.0 16.4 + - - +
244C TYR 3.8 3.4 - - - +
246C THR* 1.3 77.4 - - - +
248C ALA* 1.3 61.7 + - - +
250C LEU* 3.2 11.1 + - - +
251C TYR* 3.0 45.1 + - + -
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Residues in contact with ALA 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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9C ILE* 3.4 10.2 - - + +
14C ILE* 3.9 25.1 - - + +
196C TYR* 3.3 35.9 - - + -
244C TYR* 3.0 18.4 + - + +
245C GLU 3.6 1.3 - - - +
247C VAL* 1.3 77.1 - - - +
249C MET* 1.3 62.6 + - - +
251C TYR* 3.0 8.9 + - - +
252C HIS* 3.0 17.8 + - - +
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Residues in contact with MET 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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196C TYR* 3.7 24.6 - - + +
233C LEU* 4.2 12.2 - - + +
234C GLY* 3.8 26.5 - - - -
235C VAL* 3.8 19.5 - - + +
237C TYR* 3.6 24.7 - - + +
245C GLU 2.9 15.8 + - - +
246C THR* 3.8 4.3 - - - +
248C ALA* 1.3 76.0 - - - +
250C LEU* 1.3 59.5 + - + +
252C HIS* 3.1 2.9 + - - +
253C ALA* 2.9 25.6 + - - +
267C ILE* 3.5 37.2 - - + -
268C SER 4.7 1.3 - - - +
299C ILE* 4.0 12.1 - - + -
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Residues in contact with LEU 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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42C ILE 6.1 0.2 - - - +
43C THR 5.5 0.2 - - - -
44C PRO* 3.8 17.5 - - + -
47C ALA* 3.6 31.9 - - + -
246C THR* 3.1 30.9 + - + +
247C VAL* 3.6 6.7 - - - +
248C ALA 3.1 0.2 - - - -
249C MET* 1.3 76.3 - - + +
251C TYR* 1.3 59.7 + - - +
253C ALA* 3.2 3.3 + - + +
254C ASN* 2.9 36.5 + - - +
267C ILE* 4.9 4.7 - - + -
298C VAL* 4.9 2.5 - - + +
299C ILE* 4.6 12.6 - - + -
302C ALA* 3.7 27.6 - - + -
303C VAL* 4.2 27.4 - - + -
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Residues in contact with TYR 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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8C PHE* 4.1 11.4 - - - +
9C ILE* 4.0 12.6 - - + -
10C ASN 6.1 0.4 - - - -
13C LYS* 3.4 41.5 - - + +
14C ILE* 4.0 22.9 - - + -
17C ASP* 2.6 33.6 + - - -
44C PRO* 3.5 30.0 - - + +
45C GLU* 4.3 4.9 + - - +
247C VAL* 3.0 28.0 + - + -
248C ALA* 3.0 8.0 + - - +
250C LEU* 1.3 76.0 - - - +
252C HIS* 1.3 56.6 + - - +
254C ASN* 3.5 7.4 + - + +
255C HIS* 2.9 29.6 + - - +
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Residues in contact with HIS 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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8C PHE* 3.5 25.9 - + - -
9C ILE* 4.1 2.2 - - + +
191C LEU 6.1 0.2 - - - -
193C GLN* 5.3 3.4 - - + -
196C TYR* 2.7 35.8 + + + +
217C LEU* 3.9 28.5 + - + -
220C MET* 4.3 17.3 - - + +
221C ASP* 5.0 0.8 + - - -
233C LEU* 3.7 26.6 - - + +
248C ALA 3.0 10.6 + - - +
249C MET 3.1 9.2 + - - +
251C TYR* 1.3 76.5 - - - +
253C ALA* 1.3 64.0 + - - +
255C HIS* 3.3 1.4 + + - +
256C LEU* 3.1 33.0 + - + +
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Residues in contact with ALA 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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233C LEU* 4.1 4.2 - - + +
249C MET 2.9 12.6 + - - +
250C LEU* 3.6 11.0 - - - +
252C HIS* 1.3 78.4 - - - +
254C ASN* 1.3 62.6 + - - +
256C LEU* 3.3 4.5 + - - +
257C GLU* 3.1 21.5 + - - +
263C GLY* 4.2 0.2 - - - -
264C PRO* 3.7 35.7 - - + +
267C ILE* 5.1 4.7 - - + -
303C VAL* 4.3 18.8 - - + -
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Residues in contact with ASN 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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392A ARG* 4.9 9.1 - - - +
42C ILE 5.4 1.6 + - - -
43C THR* 5.1 3.2 - - - +
44C PRO* 3.5 29.7 - - - +
250C LEU* 2.9 16.6 + - - +
251C TYR* 3.8 9.4 - - + +
253C ALA* 1.3 75.8 - - - +
255C HIS* 1.3 58.8 + - - +
257C GLU* 3.2 7.3 + - - +
258C GLU* 2.8 46.7 + - - +
303C VAL* 5.1 7.3 - - - +
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Residues in contact with HIS 255 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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7C ASP* 5.2 2.5 - - - -
8C PHE* 3.4 53.9 - + + +
221C ASP* 2.8 41.3 + - - -
251C TYR 2.9 18.1 + - - +
252C HIS* 3.3 4.2 + + - +
254C ASN* 1.3 75.7 - - - +
256C LEU* 1.3 75.6 + - + +
258C GLU* 3.8 6.6 - - - +
259C LYS* 2.9 44.8 + - + +
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Residues in contact with LEU 256 (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 MET* 4.0 28.7 - - + -
221C ASP* 3.7 22.4 - - - +
224C MET* 4.4 7.6 - - + -
231C VAL* 4.1 19.7 - - + -
233C LEU* 4.2 17.5 - - + -
252C HIS* 3.1 19.3 + - + +
253C ALA 3.7 4.7 - - - +
255C HIS* 1.3 82.8 - - + +
257C GLU* 1.3 63.0 + - - +
260C PHE* 2.9 42.7 + - + +
262C VAL 3.4 16.9 - - - +
263C GLY* 4.6 1.6 - - - -
264C PRO* 4.6 7.6 - - + -
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Residues in contact with GLU 257 (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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253C ALA 3.1 16.0 + - - +
254C ASN* 3.8 7.9 - - - +
256C LEU* 1.3 76.6 - - - +
258C GLU* 1.3 60.7 + - + +
261C GLY* 2.9 30.5 + - - +
262C VAL* 3.5 13.6 + - - +
263C GLY* 3.9 20.5 + - - +
398C LYS* 5.6 3.6 + - - -
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Residues in contact with GLU 258 (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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182A LYS* 5.3 6.0 + - - -
392A ARG* 2.1 50.8 + - - -
254C ASN* 2.8 28.0 + - - +
255C HIS* 3.8 5.5 - - - +
257C GLU* 1.3 82.9 - - + +
259C LYS* 1.3 62.1 + - - +
261C GLY* 4.5 1.4 + - - -
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Residues in contact with LYS 259 (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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182A LYS* 5.6 6.3 - - - +
183A LYS* 5.4 22.3 + - - +
221C ASP* 2.8 33.5 + - - +
255C HIS* 2.9 32.2 + - + +
258C GLU* 1.3 80.2 - - - +
260C PHE* 1.3 91.5 + - + +
261C GLY 3.8 0.2 - - - -
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Residues in contact with PHE 260 (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* 3.5 37.9 - - - -
224C MET* 3.6 46.2 - - + -
225C GLU* 3.9 14.6 - - + -
256C LEU* 2.9 22.0 + - + +
259C LYS* 1.3 120.5 - - + +
261C GLY* 1.3 60.0 + - - +
262C VAL* 3.4 10.7 + - + +
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Residues in contact with GLY 261 (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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257C GLU* 2.9 26.3 + - - +
258C GLU 4.3 1.7 + - - -
259C LYS 3.8 0.8 - - - -
260C PHE* 1.3 75.3 - - - +
262C VAL* 1.3 66.8 + - - +
391C ASP* 4.2 12.0 - - - +
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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