Contacts of the helix formed by residues 222 - 243 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B LYS* 4.5 4.3 + - - +
219B ASP* 3.1 13.1 + - - +
221B GLY* 1.3 80.2 - - - +
223B GLY* 1.3 63.4 + - - +
225B PRO* 3.6 7.8 - - - +
226B PHE* 3.9 17.5 - - - -
262B HIS* 3.7 13.5 - - + -
313B MET* 3.6 30.1 - - + +
314B LYS 3.7 5.8 - - - +
315B MET* 3.6 40.6 - - + -
2401B CB3 3.4 61.0 - - + +
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Residues in contact with GLY 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219B ASP* 2.9 14.0 + - - +
222B LEU* 1.3 70.0 - - - +
224B VAL* 1.3 64.7 + - - -
225B PRO 3.2 2.7 - - - -
226B PHE 2.8 13.7 + - - -
227B ASN* 2.9 18.8 + - - +
400B UMP 3.7 4.5 - - - -
2401B CB3 3.1 39.6 + - - +
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Residues in contact with VAL 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 3.9 15.5 - - + -
215B GLN* 4.4 6.7 - - - +
218B CYS* 3.8 26.5 - - + -
219B ASP 3.0 13.3 + - - +
220B LEU* 3.7 21.8 - - + +
223B GLY* 1.3 70.7 - - - -
225B PRO* 1.4 71.4 - - + +
227B ASN* 3.6 6.9 + - - -
228B ILE* 2.9 54.0 + - + +
251B LEU* 4.6 2.7 - - + -
253B MET* 4.2 19.5 - - + -
400B UMP 4.4 0.2 + - - -
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Residues in contact with PRO 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 3.6 18.6 - - - +
64B PRO 5.4 0.5 - - - +
65B LEU* 5.4 0.3 - - - +
66B LEU* 3.8 33.6 + - + +
69B LYS* 4.0 18.4 - - - +
71B VAL* 4.5 15.8 - - + +
220B LEU 3.3 14.4 - - - +
221B GLY 3.6 9.2 - - - +
222B LEU 3.6 9.6 - - - +
223B GLY 3.4 4.5 - - - -
224B VAL* 1.4 92.2 - - + +
226B PHE* 1.3 61.9 + - + +
228B ILE* 4.0 3.4 - - + +
229B ALA* 3.4 21.3 + - - +
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Residues in contact with PHE 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B LYS* 6.5 0.2 - - - -
71B VAL* 4.3 14.4 - - + -
72B PHE* 3.9 28.3 - + + -
75B GLY 3.9 6.5 - - - -
76B VAL* 3.5 43.1 - - + +
79B GLU* 4.2 6.7 - - - +
100B ILE* 4.0 15.9 - - + -
222B LEU 3.9 6.3 - - - -
223B GLY 2.8 8.7 + - - +
225B PRO* 1.3 81.0 - - + +
227B ASN* 1.3 55.7 + - - +
229B ALA* 3.3 1.9 + - - +
230B SER* 2.8 38.1 + - - -
2401B CB3 3.6 73.4 - + + -
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Residues in contact with ASN 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188B HIS* 3.4 22.2 + - - +
213B MET* 4.0 9.2 - - + -
215B GLN* 2.9 40.1 + - - +
223B GLY 2.9 21.4 + - - +
224B VAL* 3.7 6.3 - - - +
226B PHE* 1.3 76.3 - - - +
228B ILE* 1.3 61.7 + - - +
230B SER* 4.2 5.2 - - - -
231B TYR* 3.1 31.5 + - - +
249B PHE* 4.5 0.7 - - - -
251B LEU* 5.0 2.7 - - + -
400B UMP 3.0 29.0 + - - -
2401B CB3 3.6 4.2 - - - +
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Residues in contact with ILE 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 4.6 4.3 - - + -
54B PHE* 4.2 9.9 - - + -
56B PHE* 3.8 39.9 - - + -
64B PRO* 3.6 28.9 - - + +
66B LEU* 4.6 15.3 - - + -
224B VAL* 2.9 38.0 + - + +
225B PRO* 4.0 4.3 - - + +
227B ASN* 1.3 76.7 - - - +
229B ALA* 1.3 63.3 + - - +
232B ALA* 3.1 22.5 + - - +
249B PHE* 3.8 12.6 - - + -
251B LEU* 3.7 19.1 - - + -
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Residues in contact with ALA 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B LEU* 4.6 7.2 - - + -
64B PRO 4.4 9.9 - - - +
65B LEU* 3.8 28.5 - - + -
73B LEU* 5.8 0.4 - - + -
76B VAL* 4.0 15.7 - - + -
225B PRO 3.4 13.7 + - - +
226B PHE 3.3 3.4 + - - +
228B ILE* 1.3 77.3 - - - +
230B SER* 1.3 60.8 + - - +
232B ALA* 3.3 6.9 + - - +
233B LEU* 2.9 37.8 + - + +
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Residues in contact with SER 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B VAL* 3.6 14.0 - - - +
79B GLU* 4.7 7.9 + - - -
80B LEU* 3.6 25.1 - - - +
83B PHE* 4.4 13.2 - - - -
188B HIS* 6.5 0.2 - - - -
226B PHE 2.8 24.7 + - - -
227B ASN* 3.7 7.9 - - - -
229B ALA* 1.3 73.3 - - - +
231B TYR* 1.3 66.8 + - - +
233B LEU* 3.2 6.2 + - - +
234B LEU* 2.8 26.9 + - - +
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Residues in contact with TYR 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B PHE* 6.1 0.2 - + - -
131B TRP* 3.5 21.0 + + - -
171B LEU 5.7 0.2 + - - -
188B HIS* 2.6 53.2 + + + +
190B PHE* 5.2 3.6 + - - -
191B CYS* 3.7 24.1 - - + +
211B CYS* 4.1 13.5 - - - -
213B MET* 3.7 31.7 - - + +
227B ASN* 3.1 17.9 + - - +
230B SER* 1.3 85.1 - - - +
232B ALA* 1.3 64.4 + - - +
234B LEU* 3.7 20.3 - - + +
235B THR* 2.8 30.3 + - - -
249B PHE* 3.5 27.4 - - + -
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Residues in contact with ALA 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B LEU* 3.9 17.1 - - + +
63B LEU* 3.9 6.5 - - + -
64B PRO* 3.6 33.7 - - + -
228B ILE 3.1 19.0 + - - +
229B ALA 3.6 4.5 - - - +
231B TYR* 1.3 76.0 - - - +
233B LEU* 1.3 63.2 + - - +
235B THR* 3.3 4.5 + - - -
236B HIS* 3.0 29.8 + - + -
249B PHE* 4.7 6.6 - - + -
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Residues in contact with LEU 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B LEU* 3.8 26.7 - - + -
73B LEU* 4.7 8.7 - - + -
76B VAL* 3.9 22.9 - - + -
77B ILE* 4.0 21.8 - - + +
80B LEU* 3.6 16.4 - - + -
229B ALA* 2.9 25.3 + - + +
230B SER* 3.5 4.3 - - - +
232B ALA* 1.3 75.1 - - - +
234B LEU* 1.3 64.5 + - - +
236B HIS* 3.1 5.8 + - - +
237B MET* 2.9 27.4 + - - +
280B LEU* 4.0 17.9 - - + -
300B PHE* 3.9 24.9 - - + -
302B VAL* 5.6 0.7 - - + -
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Residues in contact with LEU 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B LEU* 3.7 21.5 - - + +
84B VAL* 4.6 14.6 - - + -
131B TRP* 4.0 16.8 - - + -
153B LEU* 4.7 8.5 - - + -
171B LEU* 3.9 25.4 - - + -
193B PHE* 4.3 8.5 - - + -
230B SER 2.8 16.2 + - - +
231B TYR* 3.7 24.9 - - + +
232B ALA 3.3 0.2 - - - -
233B LEU* 1.3 75.3 - - - +
235B THR* 1.3 58.0 + - - +
237B MET* 3.2 10.9 + - + +
238B ILE* 2.9 53.1 + - + +
292B ILE* 5.0 2.5 - - + -
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Residues in contact with THR 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B LEU* 3.8 24.4 - - + +
193B PHE* 4.0 9.3 - - + -
209B LEU* 3.7 33.8 - - + +
210B SER 4.8 0.4 - - - -
211B CYS* 3.3 30.9 - - + +
231B TYR 2.8 18.7 + - - -
232B ALA 3.6 4.7 - - - -
233B LEU 3.2 0.2 - - - -
234B LEU* 1.3 75.1 - - - +
236B HIS* 1.3 59.1 + - - +
238B ILE* 3.5 1.1 + - - -
239B ALA* 2.9 30.5 + - - +
246B PRO* 4.6 5.2 - - + -
249B PHE* 5.1 0.7 - - - -
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Residues in contact with HIS 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B LEU* 3.7 19.7 - - + +
61B ASN* 4.2 16.5 + - - -
62B THR 3.0 28.3 + - - -
63B LEU* 4.6 4.9 - - + -
232B ALA* 3.0 33.1 + - + -
233B LEU* 3.5 7.6 - - - +
235B THR* 1.3 76.3 - - - +
237B MET* 1.3 62.1 + - - +
239B ALA* 3.3 7.5 + - - +
240B LEU* 3.1 18.4 + - - +
246B PRO* 3.6 28.2 - - + +
280B LEU* 3.5 34.4 - - + +
282B TRP* 3.8 12.8 + - + -
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Residues in contact with MET 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B LEU* 3.6 32.8 - - - -
81B LEU* 3.7 17.7 - - + -
84B VAL* 4.3 13.2 - - + -
233B LEU 2.9 13.6 + - - +
234B LEU* 3.4 11.0 - - + +
236B HIS* 1.3 76.3 - - - +
238B ILE* 1.3 63.7 + - - +
240B LEU* 3.1 13.9 + - - +
241B ILE* 3.2 16.6 + - - +
282B TRP* 3.8 19.5 - - + -
292B ILE* 4.1 20.0 - - + +
295B PHE* 3.6 42.3 - - + -
300B PHE* 3.8 10.8 - - + -
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Residues in contact with ILE 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B LEU* 4.3 11.9 - - + -
156B VAL* 4.6 4.0 - - + -
157B ILE* 3.6 26.2 - - + -
160B ILE* 3.6 29.8 - - + -
193B PHE* 3.4 38.4 - - + -
209B LEU* 3.8 9.9 - - + -
234B LEU* 2.9 35.6 + - + +
235B THR 3.9 3.1 - - - +
237B MET* 1.3 75.7 - - - +
239B ALA* 1.3 55.6 + - - +
241B ILE* 3.3 1.9 + - - +
242B THR* 2.7 35.9 + - + +
292B ILE* 4.2 8.3 - - + -
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Residues in contact with ALA 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209B LEU* 4.0 5.4 - - + -
235B THR 2.9 18.4 + - - +
236B HIS 3.4 6.7 - - - +
237B MET 3.2 0.2 - - - -
238B ILE* 1.3 77.8 - - - +
240B LEU* 1.3 61.2 - - - +
242B THR 3.4 0.2 + - - -
243B ASP* 3.0 5.5 + - - -
244B THR* 3.0 56.1 + - - +
246B PRO* 3.6 24.2 - - + -
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Residues in contact with LEU 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B HIS 3.1 12.0 + - - +
237B MET 3.1 8.5 + - - +
239B ALA* 1.3 80.0 - - - +
241B ILE* 1.3 64.0 + - + +
242B THR 3.4 0.2 + - - -
243B ASP* 3.5 8.2 + - - +
282B TRP* 3.6 39.9 - - + +
284B ARG 5.8 0.4 - - - +
285B SER* 5.1 0.4 - - - -
286B LYS* 3.6 44.5 - - + +
289B ILE* 3.6 32.3 - - + -
295B PHE* 3.9 9.4 - - + -
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Residues in contact with ILE 241 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B ILE* 4.0 27.4 - - + -
161B LYS* 4.1 13.6 + - + +
237B MET 3.2 13.7 + - - +
238B ILE 3.9 6.3 - - - +
240B LEU* 1.3 81.0 - - + +
242B THR* 1.3 58.3 + - - +
243B ASP 3.4 0.2 - - - -
286B LYS* 3.7 24.3 + - + +
289B ILE* 4.3 6.5 - - + -
290B GLY 4.1 10.1 - - - +
291B ASP* 3.6 38.6 - - + +
292B ILE* 3.9 14.1 - - + +
295B PHE* 3.7 22.0 - - + -
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Residues in contact with THR 242 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B ILE* 3.8 35.4 - - + +
160B ILE* 3.7 22.8 - - + +
161B LYS* 3.8 20.4 - - + +
238B ILE* 2.7 33.7 + - + +
239B ALA 3.5 0.2 + - - -
241B ILE* 1.3 79.0 - - - +
243B ASP* 1.3 70.9 + - - +
244B THR* 2.8 31.0 + - - +
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Residues in contact with ASP 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B LYS* 6.2 0.3 - - - -
206B LYS* 3.9 30.1 + - + +
207B PRO* 3.9 6.9 - - - +
239B ALA 3.0 6.5 + - - -
240B LEU 3.5 2.9 + - - +
241B ILE 3.4 0.8 - - - -
242B THR* 1.3 79.5 - - - +
244B THR* 1.3 61.2 + - - +
286B LYS* 2.7 43.7 + - - +
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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) + - + + + + + -
------------------------------------------------------------
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