Contacts of the helix formed by residues 222 - 243 (chain O) in PDB entry 2AAZ
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 LEU 222 (chain O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69O LYS* 4.5 10.9 + - - +
219O ASP* 3.2 13.4 + - - +
221O GLY* 1.3 79.8 - - - +
223O GLY* 1.3 64.5 + - - +
225O PRO* 3.5 8.2 - - - +
226O PHE* 3.8 18.7 - - - -
262O HIS* 3.8 13.2 - - + -
311O ILE 5.6 1.1 - - - +
313O MET* 3.5 38.4 - - + +
314O LYS 3.7 5.4 - - - +
315O MET* 3.6 38.6 - - + +
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Residues in contact with GLY 223 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219O ASP* 2.8 18.8 + - - +
222O LEU* 1.3 70.8 - - - +
224O VAL* 1.3 65.1 + - - -
225O PRO 3.2 2.2 - - - -
226O PHE* 2.8 19.3 + - - +
227O ASN* 3.0 19.8 + - - +
650O UMP 3.7 19.5 - - - -
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Residues in contact with VAL 224 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23O TYR* 3.9 15.3 - - + -
54O PHE* 4.7 0.2 - - + -
215O GLN* 4.5 4.7 - - - +
218O CYS* 3.8 21.8 - - + -
219O ASP 3.0 4.8 + - - +
220O LEU* 3.5 35.4 - - + +
223O GLY* 1.3 70.0 - - - -
225O PRO* 1.3 70.7 - - + +
227O ASN* 3.7 8.2 + - - -
228O ILE* 2.9 48.4 + - + +
251O LEU* 4.5 2.9 - - + -
253O MET* 4.2 18.4 - - + -
650O UMP 4.4 0.4 + - - -
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Residues in contact with PRO 225 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23O TYR* 3.6 18.8 - - + +
65O LEU* 5.4 0.7 - - - +
66O LEU* 3.8 33.1 + - + +
69O LYS* 3.9 17.5 - - - +
71O VAL* 4.5 13.3 - - + +
220O LEU 3.3 13.9 - - - +
221O GLY 3.6 10.5 - - - +
222O LEU 3.5 10.1 - - - +
223O GLY 3.3 5.2 - - - -
224O VAL* 1.3 91.3 - - + +
226O PHE* 1.3 64.7 + - + +
228O ILE* 4.1 3.3 - - + +
229O ALA* 3.4 20.6 + - - +
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Residues in contact with PHE 226 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69O LYS* 6.5 0.7 - - - -
71O VAL* 4.3 16.6 - - + -
72O PHE* 3.9 29.4 - + + -
75O GLY 4.0 4.9 - - - -
76O VAL* 3.5 39.6 - - + +
79O GLU* 4.2 16.6 - - - +
100O ILE* 4.0 30.7 - - + -
222O LEU 3.8 15.0 - - - +
223O GLY* 2.8 10.7 + - - +
225O PRO* 1.3 80.7 - - + +
227O ASN* 1.3 57.2 + - - +
229O ALA* 3.3 2.6 + - - +
230O SER* 2.7 38.2 + - - -
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Residues in contact with ASN 227 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188O HIS* 3.4 19.6 + - - -
213O MET* 4.0 9.9 - - + -
215O GLN* 2.9 29.6 + - - +
223O GLY 3.0 18.8 + - - +
224O VAL* 3.7 7.1 + - - +
226O PHE* 1.3 77.8 - - - +
228O ILE* 1.3 62.3 + - - +
230O SER* 4.2 5.6 - - - -
231O TYR* 3.1 31.9 + - - +
249O PHE* 4.5 0.6 - - - -
251O LEU* 5.0 2.2 - - + -
650O UMP 2.8 44.2 + - - -
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Residues in contact with ILE 228 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23O TYR* 4.7 7.4 - - + -
54O PHE* 4.3 9.0 - - + -
56O PHE* 3.8 39.5 - - + -
64O PRO* 3.6 28.5 - - + +
66O LEU* 4.7 11.7 - - + -
224O VAL* 2.9 37.6 + - + +
225O PRO* 4.1 4.0 - - + +
227O ASN* 1.3 76.8 - - - +
229O ALA* 1.3 63.8 + - - +
232O ALA* 3.1 22.7 + - - +
249O PHE* 3.8 13.0 - - + -
251O LEU* 3.7 19.1 - - + -
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Residues in contact with ALA 229 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63O LEU* 4.7 7.2 - - + -
64O PRO 4.3 9.9 - - - +
65O LEU* 3.9 27.1 - - + -
73O LEU* 5.8 0.4 - - + -
76O VAL* 4.0 16.4 - - + -
225O PRO 3.4 14.0 + - - +
226O PHE 3.3 3.0 + - - +
228O ILE* 1.3 78.1 - - - +
230O SER* 1.3 60.4 + - - +
232O ALA* 3.6 6.0 - - - +
233O LEU* 2.9 37.4 + - + +
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Residues in contact with SER 230 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76O VAL* 3.6 15.3 - - - +
79O GLU* 4.7 7.3 + - - -
80O LEU* 3.6 26.8 - - - +
83O PHE* 4.5 13.4 - - - -
131O TRP* 6.1 0.2 - - - -
226O PHE 2.7 24.6 + - - -
227O ASN* 3.6 7.9 - - - -
229O ALA* 1.3 72.9 - - - +
231O TYR* 1.3 66.7 + - - +
233O LEU* 3.2 7.2 + - - +
234O LEU* 2.9 24.8 + - - +
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Residues in contact with TYR 231 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83O PHE* 6.1 0.2 - + - -
131O TRP* 3.4 19.1 + + - -
171O LEU 5.7 0.5 + - - -
188O HIS* 2.6 53.6 + + + +
190O PHE* 5.1 4.2 + - - -
191O CYS* 3.7 28.9 - - + +
211O CYS* 4.3 5.8 - - - -
213O MET* 3.7 32.6 - - + +
227O ASN* 3.1 16.2 + - - +
230O SER* 1.3 83.2 - - - +
232O ALA* 1.3 64.4 + - - +
234O LEU* 3.7 23.9 - - + +
235O THR* 2.8 30.0 + - - -
249O PHE* 3.5 26.5 - - + -
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Residues in contact with ALA 232 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58O LEU* 3.9 14.5 - - + +
63O LEU* 4.0 5.6 - - + -
64O PRO* 3.6 33.7 - - + -
228O ILE 3.1 20.6 + - - +
229O ALA 3.6 4.5 - - - +
231O TYR* 1.3 76.9 - - - +
233O LEU* 1.3 61.9 + - - +
235O THR* 3.3 6.3 + - - -
236O HIS* 3.0 30.5 + - - -
249O PHE* 4.8 6.9 - - + -
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Residues in contact with LEU 233 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63O LEU* 3.7 31.0 - - + -
73O LEU* 4.7 7.4 - - + -
76O VAL* 3.9 23.6 - - + -
77O ILE* 4.0 22.2 - - + +
80O LEU* 3.6 15.9 - - + -
229O ALA* 2.9 24.5 + - + +
230O SER 3.4 4.0 - - - +
232O ALA* 1.3 76.2 - - - +
234O LEU* 1.3 59.1 + - - +
236O HIS* 3.1 5.5 + - - +
237O MET* 2.9 32.4 + - - +
280O LEU* 4.0 15.9 - - + -
300O PHE* 4.0 23.5 - - + -
302O VAL* 5.6 0.7 - - + -
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Residues in contact with LEU 234 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80O LEU* 3.7 22.1 - - + +
84O VAL* 4.6 14.8 - - + -
131O TRP* 4.0 16.4 - - + -
153O LEU* 4.7 8.3 - - + -
171O LEU* 4.0 25.6 - - + -
193O PHE* 4.3 9.9 - - + -
211O CYS* 6.0 0.2 - - - -
230O SER 2.9 15.8 + - - +
231O TYR* 3.7 23.8 - - + +
232O ALA 3.3 0.2 - - - -
233O LEU* 1.3 75.1 - - - +
235O THR* 1.3 57.6 + - - +
237O MET* 3.2 9.4 + - - +
238O ILE* 2.9 52.9 + - + +
292O ILE* 4.9 3.1 - - + -
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Residues in contact with THR 235 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58O LEU* 3.7 24.7 - - + +
193O PHE* 4.1 5.5 - - + -
209O LEU* 3.7 33.6 - - + +
210O SER 4.9 0.4 - - - -
211O CYS* 3.3 29.9 - - + +
231O TYR 2.8 21.5 + - - -
232O ALA* 3.5 5.6 - - - -
233O LEU 3.2 0.2 - - - -
234O LEU* 1.3 75.3 - - - +
236O HIS* 1.3 59.8 + - - +
238O ILE* 3.5 4.6 + - - -
239O ALA* 2.9 28.1 + - - +
246O PRO* 4.5 5.2 - - + -
249O PHE* 5.1 0.3 - - - -
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Residues in contact with HIS 236 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58O LEU* 3.7 17.9 - - + +
61O ASN* 4.2 16.5 + - - -
62O THR 3.0 28.7 + - - -
63O LEU* 4.6 7.0 - - + -
232O ALA 3.0 30.9 + - - -
233O LEU* 3.1 8.3 + - - +
235O THR* 1.3 75.8 - - - +
237O MET* 1.3 61.7 + - - +
239O ALA* 3.3 7.3 + - - +
240O LEU* 3.1 18.2 + - - +
246O PRO* 3.6 29.5 - - + +
280O LEU* 3.6 33.8 - - + +
282O TRP* 3.8 13.6 + - + +
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Residues in contact with MET 237 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80O LEU* 3.5 33.0 - - - -
81O LEU* 3.8 16.8 - - + -
84O VAL* 4.3 10.3 - - + -
233O LEU 2.9 13.2 + - - +
234O LEU* 3.2 11.4 + - - +
236O HIS* 1.3 76.2 - - - +
238O ILE* 1.3 64.1 + - - +
240O LEU* 3.1 14.2 + - - +
241O ILE* 3.2 16.8 + - - +
282O TRP* 3.8 19.9 - - + -
292O ILE* 4.0 22.7 - - + +
295O PHE* 3.6 42.0 - - + -
300O PHE* 3.8 12.1 - - + -
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Residues in contact with ILE 238 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153O LEU* 4.4 12.3 - - + -
156O VAL* 4.6 4.5 - - + -
157O ILE* 3.6 26.2 - - + -
160O ILE* 3.6 29.8 - - + -
193O PHE* 3.4 37.2 - - + -
209O LEU* 3.9 8.7 - - + -
234O LEU* 2.9 35.4 + - + +
235O THR 3.9 3.4 - - - +
237O MET* 1.3 74.8 - - - +
239O ALA* 1.3 55.6 - - - +
241O ILE* 3.3 1.7 + - - +
242O THR* 2.7 35.2 + - + +
292O ILE* 4.2 7.6 - - + -
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Residues in contact with ALA 239 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209O LEU* 3.9 4.9 - - + +
235O THR 2.9 19.2 + - - +
236O HIS 3.4 6.3 - - - +
238O ILE* 1.3 78.4 - - - +
240O LEU* 1.3 57.0 + - - +
242O THR 3.4 0.2 + - - -
243O ASP* 3.0 10.7 + - - -
244O THR* 2.9 56.0 + - - +
246O PRO* 3.7 24.2 - - + -
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Residues in contact with LEU 240 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236O HIS 3.1 12.0 + - - +
237O MET 3.4 8.3 - - - +
239O ALA* 1.3 79.2 - - - +
241O ILE* 1.3 62.6 + - + +
243O ASP* 3.6 6.5 + - - +
282O TRP* 3.6 40.4 - - + +
285O SER* 5.3 0.4 - - - -
286O LYS* 3.5 47.0 - - + +
289O ILE* 3.6 31.2 - - + -
295O PHE* 3.9 9.2 - - + -
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Residues in contact with ILE 241 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157O ILE* 4.0 26.5 - - + -
161O LYS* 4.1 13.4 + - + +
237O MET 3.2 14.9 + - - +
238O ILE 3.3 5.6 + - - +
240O LEU* 1.3 81.6 - - + +
242O THR* 1.3 59.9 + - - +
286O LYS* 3.6 23.9 + - + +
289O ILE* 4.3 5.8 - - + -
290O GLY 4.0 10.5 - - - +
291O ASP* 3.6 39.9 - - + +
292O ILE* 3.9 13.5 - - + +
295O PHE* 3.7 21.5 - - + -
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Residues in contact with THR 242 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157O ILE* 3.8 24.9 - - + +
160O ILE* 3.7 23.1 - - + +
161O LYS* 3.8 31.3 - - + +
238O ILE* 2.7 32.0 + - + +
239O ALA 3.5 0.2 + - - -
241O ILE* 1.3 78.8 - - - +
243O ASP* 1.3 70.7 + - - +
244O THR* 2.8 31.7 + - - +
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Residues in contact with ASP 243 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206O LYS* 3.9 29.0 + - + +
207O PRO* 3.9 7.1 - - - +
239O ALA 3.0 6.4 + - - -
240O LEU 3.6 3.1 + - - +
241O ILE 3.4 0.8 - - - -
242O THR* 1.3 80.2 - - - +
244O THR* 1.3 61.0 + - - +
286O LYS* 2.7 44.3 + - - +
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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