Contacts of the helix formed by residues 222 - 243 (chain F) 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 F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69F LYS* 4.5 4.3 + - - +
219F ASP* 3.1 13.7 + - - +
221F GLY* 1.3 81.3 - - - +
223F GLY* 1.3 65.4 + - - +
225F PRO* 3.6 7.7 - - - +
226F PHE* 3.9 8.7 - - - -
262F HIS* 3.7 13.7 - - + -
313F MET* 3.7 28.7 - - + +
314F LYS 3.7 5.6 - - - +
315F MET* 3.5 41.7 - - + +
2601F CB3 3.5 68.8 - - + +
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Residues in contact with GLY 223 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219F ASP* 2.8 14.5 + - - +
222F LEU* 1.3 69.8 - - - +
224F VAL* 1.3 58.3 - - - -
225F PRO 3.2 2.2 - - - -
226F PHE* 2.8 23.9 + - - +
227F ASN* 2.9 19.4 + - - +
600F UMP 3.8 4.7 - - - -
2601F CB3 3.1 36.3 + - - +
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Residues in contact with VAL 224 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23F TYR* 4.0 14.4 - - + -
215F GLN* 4.4 5.4 - - - +
218F CYS* 3.7 26.5 - - + -
219F ASP 2.9 16.5 + - - +
220F LEU* 3.6 20.6 - - + +
223F GLY* 1.3 70.9 - - - -
225F PRO* 1.4 69.0 - - + +
227F ASN* 3.7 7.8 + - - -
228F ILE* 2.9 47.3 + - + +
251F LEU* 4.5 3.4 - - + -
253F MET* 4.1 19.7 - - + -
600F UMP 4.4 0.4 + - - -
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Residues in contact with PRO 225 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23F TYR* 3.6 14.4 - - + +
64F PRO 5.4 0.5 - - - +
65F LEU* 5.4 0.3 - - - +
66F LEU* 3.8 32.7 + - + +
69F LYS* 4.0 17.9 - - - +
71F VAL* 4.5 15.2 - - + +
220F LEU 3.3 14.1 - - - +
221F GLY 3.6 15.9 - - - +
222F LEU 3.6 9.0 - - - +
223F GLY 3.3 4.7 - - - -
224F VAL* 1.4 91.6 - - + +
226F PHE* 1.3 62.5 + - + +
228F ILE* 3.8 2.9 + - + +
229F ALA* 3.4 21.3 + - - +
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Residues in contact with PHE 226 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71F VAL* 4.3 13.5 - - + -
72F PHE* 3.8 27.1 - + + -
75F GLY 3.9 5.8 - - - -
76F VAL* 3.5 42.0 - - + +
79F GLU* 4.2 7.0 - - - +
100F ILE* 4.1 21.8 - - + -
222F LEU 3.9 5.4 - - - -
223F GLY 2.8 9.5 + - - +
225F PRO* 1.3 81.8 - - + +
227F ASN* 1.3 55.1 + - - +
229F ALA* 3.2 1.9 + - - +
230F SER* 2.7 39.2 + - - -
2601F CB3 3.6 68.2 - + + -
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Residues in contact with ASN 227 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188F HIS* 3.4 22.4 + - - +
213F MET* 4.0 8.5 - - + +
215F GLN* 2.9 42.4 + - - +
223F GLY 2.9 19.0 + - - +
224F VAL* 3.7 6.5 + - - +
226F PHE* 1.3 75.7 - - - +
228F ILE* 1.3 63.2 + - - +
230F SER* 4.3 5.0 - - - -
231F TYR* 3.1 31.0 + - - +
249F PHE* 4.5 1.1 - - - -
251F LEU* 4.9 2.7 - - + -
600F UMP 3.0 31.1 + - - -
2601F CB3 3.8 4.2 - - - +
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Residues in contact with ILE 228 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23F TYR* 4.6 8.3 - - + -
54F PHE* 4.2 9.2 - - + -
56F PHE* 3.8 41.3 - - + -
64F PRO* 3.6 28.9 - - + +
66F LEU* 4.7 11.4 - - + -
224F VAL* 2.9 36.9 + - + +
225F PRO* 4.1 4.3 - - + +
227F ASN* 1.3 75.8 - - - +
229F ALA* 1.3 61.9 + - - +
232F ALA* 3.2 23.2 + - - +
249F PHE* 3.9 11.5 - - + -
251F LEU* 3.6 19.7 - - + -
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Residues in contact with ALA 229 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F LEU* 4.2 6.5 - - + +
64F PRO 4.4 9.8 + - - +
65F LEU* 3.9 28.3 - - + -
76F VAL* 3.9 15.9 - - + -
225F PRO 3.4 14.1 + - - +
226F PHE 3.2 3.2 + - - +
228F ILE* 1.3 79.7 - - - +
230F SER* 1.3 58.4 + - - +
232F ALA* 3.4 6.1 + - - +
233F LEU* 2.8 36.4 + - + +
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Residues in contact with SER 230 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76F VAL* 3.6 15.9 + - - +
79F GLU* 4.7 7.4 + - - -
80F LEU* 3.7 25.2 - - - +
83F PHE* 4.4 13.2 - - - -
188F HIS* 6.5 0.2 - - - -
226F PHE 2.7 24.0 + - - -
227F ASN* 3.7 7.4 - - - -
229F ALA* 1.3 72.9 - - - +
231F TYR* 1.3 68.5 + - - +
233F LEU* 3.1 6.5 + - - +
234F LEU* 2.8 28.1 + - - +
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Residues in contact with TYR 231 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131F TRP* 3.4 20.2 + + - -
188F HIS* 2.5 53.6 + + + +
190F PHE* 5.2 3.1 + - - -
191F CYS* 3.8 19.6 - - + +
211F CYS* 4.2 12.1 - - - -
213F MET* 3.7 35.0 - - + +
227F ASN* 3.1 17.4 + - - +
230F SER* 1.3 83.8 - - - +
232F ALA* 1.3 63.4 + - - +
234F LEU* 3.3 23.7 + - + +
235F THR* 2.9 30.9 + - - -
249F PHE* 3.5 26.9 - - + -
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Residues in contact with ALA 232 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58F LEU* 3.9 16.6 - - + -
63F LEU* 4.0 5.4 - - + -
64F PRO* 3.6 33.4 - - + -
228F ILE 3.2 19.7 + - - +
229F ALA 3.6 4.3 - - - +
231F TYR* 1.3 75.6 - - - +
233F LEU* 1.3 62.6 + - - +
235F THR* 3.3 4.3 + - - -
236F HIS* 3.0 29.8 + - + -
249F PHE* 4.7 6.6 - - + -
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Residues in contact with LEU 233 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F LEU* 3.7 29.2 - - + -
73F LEU* 4.7 7.0 - - + -
76F VAL* 3.8 23.3 - - + -
77F ILE* 4.0 22.4 - - + +
80F LEU* 3.6 16.4 - - + -
229F ALA* 2.8 21.9 + - + +
230F SER 3.5 4.0 - - - +
232F ALA* 1.3 75.3 - - - +
234F LEU* 1.3 66.4 + - - +
236F HIS* 3.1 5.7 + - - +
237F MET* 2.8 26.0 + - - +
280F LEU* 3.9 17.9 - - + -
300F PHE* 3.9 23.8 - - + -
302F VAL* 5.6 0.4 - - + -
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Residues in contact with LEU 234 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80F LEU* 3.7 21.5 - - + +
84F VAL* 4.6 13.9 - - + -
131F TRP* 4.0 16.8 - - + -
153F LEU* 4.7 8.7 - - + -
171F LEU* 4.0 26.0 - - + -
193F PHE* 4.3 9.4 - - + -
230F SER 2.8 13.6 + - - +
231F TYR* 3.5 25.8 - - + +
233F LEU* 1.3 75.6 - - - +
235F THR* 1.3 59.4 + - - +
237F MET* 3.1 10.7 + - + +
238F ILE* 2.8 52.1 + - + +
292F ILE* 5.0 2.5 - - + -
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Residues in contact with THR 235 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58F LEU* 3.7 23.6 - - + +
193F PHE* 4.0 9.6 - - + -
209F LEU* 3.7 33.8 - - + +
210F SER 4.9 0.9 - - - -
211F CYS* 3.3 30.6 - - + +
231F TYR 2.9 18.1 + - - -
232F ALA 3.6 4.7 - - - -
234F LEU* 1.3 74.0 - - - +
236F HIS* 1.3 60.0 + - - +
238F ILE* 3.4 1.7 + - - +
239F ALA* 2.9 31.1 + - - +
246F PRO* 4.6 4.9 - - + -
249F PHE* 5.1 0.5 - - - -
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Residues in contact with HIS 236 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58F LEU* 3.7 19.9 - - + +
61F ASN* 4.2 16.7 + - - -
62F THR 3.0 28.5 + - - -
63F LEU* 4.6 5.3 - - + -
232F ALA* 3.0 32.4 + - + -
233F LEU* 3.1 7.8 + - - +
235F THR* 1.3 76.4 - - - +
237F MET* 1.3 63.2 + - - +
239F ALA* 3.2 7.6 + - - +
240F LEU* 3.1 22.3 + - - +
246F PRO* 3.5 28.8 - - + +
280F LEU* 3.5 34.0 - - + +
282F TRP* 3.9 10.5 + - + +
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Residues in contact with MET 237 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80F LEU* 3.6 32.3 - - - -
81F LEU* 3.8 15.7 - - + -
84F VAL* 4.3 12.8 - - + -
233F LEU 2.8 14.5 + - - +
234F LEU* 3.3 11.4 - - + +
236F HIS* 1.3 76.1 - - - +
238F ILE* 1.3 62.8 + - - +
240F LEU* 3.1 13.7 + - - +
241F ILE* 3.2 16.8 + - - +
282F TRP* 3.9 19.9 - - + -
292F ILE* 4.1 20.0 - - + +
295F PHE* 3.6 42.1 - - + -
300F PHE* 3.8 13.0 - - + -
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Residues in contact with ILE 238 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153F LEU* 4.3 12.6 - - + -
156F VAL* 4.6 3.8 - - + -
157F ILE* 3.6 26.9 - - + -
160F ILE* 3.6 29.4 - - + -
193F PHE* 3.3 38.4 - - + -
209F LEU* 3.8 9.0 - - + -
234F LEU* 2.8 35.4 + - + +
235F THR 4.0 3.4 - - - +
237F MET* 1.3 72.9 - - - +
239F ALA* 1.3 61.9 + - - +
241F ILE* 3.3 2.1 + - - +
242F THR* 2.8 30.2 + - + +
292F ILE* 4.2 11.9 - - + -
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Residues in contact with ALA 239 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209F LEU* 3.8 5.1 - - + +
235F THR 2.9 18.8 + - - +
236F HIS 3.4 5.8 - - - +
238F ILE* 1.3 77.5 - - - +
240F LEU* 1.3 62.5 + - - +
243F ASP* 3.1 4.9 + - - -
244F THR* 2.9 57.3 + - - +
246F PRO* 3.7 24.5 - - + -
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Residues in contact with LEU 240 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236F HIS 3.1 12.0 + - - +
237F MET 3.1 8.9 + - - +
239F ALA* 1.3 78.9 - - - +
241F ILE* 1.3 63.8 + - + +
242F THR 3.4 0.2 + - - -
243F ASP* 3.5 8.2 + - - +
282F TRP* 3.7 38.4 - - + +
284F ARG 5.1 0.7 - - - +
285F SER* 5.1 0.7 - - - -
286F LYS* 3.6 44.6 - - + +
289F ILE* 3.6 31.6 - - + -
295F PHE* 3.9 9.2 - - + -
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Residues in contact with ILE 241 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157F ILE* 4.0 26.9 - - + -
161F LYS* 4.1 12.8 + - + +
237F MET 3.2 13.5 + - - +
238F ILE 3.3 6.0 + - - +
240F LEU* 1.3 82.4 - - + +
242F THR* 1.3 58.0 + - - +
243F ASP 3.4 0.2 - - - -
286F LYS* 3.7 23.4 + - + +
289F ILE* 4.3 6.5 - - + -
290F GLY 4.1 10.5 - - - +
291F ASP* 3.6 39.0 - - + +
292F ILE* 3.9 13.9 - - + +
295F PHE* 3.8 21.8 - - + -
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Residues in contact with THR 242 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157F ILE* 3.8 35.9 - - + +
160F ILE* 3.7 23.2 - - + +
161F LYS* 3.8 20.5 - - + +
238F ILE* 2.8 34.3 + - + +
239F ALA* 3.5 0.5 + - - -
241F ILE* 1.3 79.0 - - - +
243F ASP* 1.3 70.4 + - - +
244F THR* 2.8 31.5 + - - +
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Residues in contact with ASP 243 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206F LYS* 3.9 27.4 + - + +
207F PRO* 3.9 8.8 - - - +
239F ALA 3.1 5.6 + - - -
240F LEU 3.5 3.1 + - - +
241F ILE 3.4 1.0 - - - -
242F THR* 1.3 80.9 - - - +
244F THR* 1.3 60.6 + - - +
286F LYS* 2.7 43.0 + - - +
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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
------------------------------------------------------------
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