Contacts of the helix formed by residues 222 - 243 (chain L) 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 L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69L LYS* 4.5 9.5 + - - +
219L ASP* 3.1 12.5 + - - +
221L GLY* 1.3 79.7 - - - +
223L GLY* 1.3 66.0 + - - +
225L PRO* 3.6 8.2 - - - +
226L PHE* 3.8 18.9 - - - +
262L HIS* 3.8 13.2 - - + -
311L ILE 5.6 1.6 - - - +
313L MET* 3.6 38.8 - - + +
314L LYS 3.8 5.2 - - - +
315L MET* 3.6 39.0 - - + +
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Residues in contact with GLY 223 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219L ASP* 2.8 19.9 + - - +
222L LEU* 1.3 73.1 - - - +
224L VAL* 1.3 64.4 + - - -
226L PHE* 2.8 19.7 + - - +
227L ASN* 3.0 19.5 + - - +
500L UMP 3.8 19.5 - - - -
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Residues in contact with VAL 224 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23L TYR* 3.9 15.0 - - + -
215L GLN* 4.5 4.5 - - - +
218L CYS* 3.8 22.7 - - + -
219L ASP 3.0 4.6 + - - +
220L LEU* 3.5 33.9 - - + +
223L GLY* 1.3 69.0 - - - -
225L PRO* 1.3 72.4 - - + +
227L ASN* 3.6 9.1 + - - -
228L ILE* 2.9 47.7 + - + +
251L LEU* 4.5 2.7 - - + -
253L MET* 4.2 19.5 - - + -
500L UMP 4.4 0.2 + - - -
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Residues in contact with PRO 225 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23L TYR* 3.6 19.1 - - - +
64L PRO 5.4 0.7 - - - +
65L LEU* 5.4 0.7 - - - +
66L LEU* 3.8 31.8 + - + +
69L LYS* 4.0 18.2 - - - +
71L VAL* 4.6 14.2 - - + +
220L LEU 3.3 14.4 - - - +
221L GLY 3.6 9.6 - - - +
222L LEU 3.6 10.1 - - - +
223L GLY 3.3 4.7 - - - -
224L VAL* 1.3 91.0 - - + +
226L PHE* 1.3 64.9 + - + +
228L ILE* 4.1 3.4 - - + +
229L ALA* 3.5 20.6 + - - +
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Residues in contact with PHE 226 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69L LYS* 6.5 0.7 - - - -
71L VAL* 4.3 16.6 - - + -
72L PHE* 3.9 29.8 - + + -
75L GLY 3.9 5.6 - - - -
76L VAL* 3.5 40.6 - - + +
79L GLU* 4.2 16.4 - - - +
100L ILE* 4.0 30.7 - - + -
222L LEU 3.8 15.0 - - - +
223L GLY* 2.8 11.3 + - - +
225L PRO* 1.3 81.6 - - + +
227L ASN* 1.3 57.3 + - - +
229L ALA* 3.3 2.4 + - - +
230L SER* 2.7 38.1 + - - -
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Residues in contact with ASN 227 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188L HIS* 3.4 20.6 + - - +
213L MET* 4.1 9.6 - - + -
215L GLN* 2.9 29.8 + - - +
223L GLY 3.0 19.1 + - - +
224L VAL* 3.7 6.7 - - - +
226L PHE* 1.3 76.7 - - - +
228L ILE* 1.3 62.0 + - - +
230L SER* 4.2 5.0 - - - -
231L TYR* 3.1 31.5 + - - +
249L PHE* 4.5 0.7 - - - -
251L LEU* 5.0 2.5 - - + -
500L UMP 2.8 43.6 + - - -
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Residues in contact with ILE 228 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23L TYR* 4.7 7.2 - - + -
54L PHE* 4.3 9.9 - - + -
56L PHE* 3.8 39.7 - - + -
64L PRO* 3.6 28.7 - - + +
66L LEU* 4.7 12.6 - - + -
224L VAL* 2.9 38.2 + - + +
225L PRO* 4.1 4.0 - - + +
227L ASN* 1.3 76.3 - - - +
229L ALA* 1.3 63.1 + - - +
231L TYR 3.7 0.2 + - - -
232L ALA* 3.1 22.3 + - - +
249L PHE* 3.8 13.6 - - + -
251L LEU* 3.7 18.6 - - + -
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Residues in contact with ALA 229 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63L LEU* 4.7 6.7 - - + -
64L PRO 4.4 9.6 + - - +
65L LEU* 3.9 27.8 - - + -
73L LEU* 5.8 0.4 - - + -
76L VAL* 4.0 15.7 - - + -
225L PRO 3.5 14.2 + - - +
226L PHE 3.3 3.2 + - - +
228L ILE* 1.3 77.4 - - - +
230L SER* 1.3 61.6 + - - +
232L ALA* 3.3 6.7 + - - +
233L LEU* 2.9 37.6 + - + +
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Residues in contact with SER 230 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76L VAL* 3.6 15.2 + - - +
79L GLU* 4.7 7.7 + - - -
80L LEU* 3.6 26.3 - - - +
83L PHE* 4.4 13.5 - - - -
131L TRP* 6.0 0.3 - - - -
226L PHE 2.7 24.7 + - - -
227L ASN* 3.6 7.9 - - - -
229L ALA* 1.3 72.9 - - - +
231L TYR* 1.3 65.3 + - - +
233L LEU* 3.1 6.9 + - - +
234L LEU* 2.9 25.0 + - - +
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Residues in contact with TYR 231 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83L PHE* 6.1 0.2 - + - -
131L TRP* 3.4 19.3 + + - -
171L LEU 5.6 0.3 + - - -
188L HIS* 2.6 54.6 + + + +
190L PHE* 5.1 4.2 + - - -
191L CYS* 3.7 29.6 - - + +
211L CYS* 4.2 6.1 - - - -
213L MET* 3.7 31.7 - - + +
227L ASN* 3.1 17.9 + - - +
230L SER* 1.3 84.5 - - - +
232L ALA* 1.3 64.3 + - - +
234L LEU* 3.7 22.9 - - + +
235L THR* 2.8 29.8 + - - -
249L PHE* 3.5 26.5 - - + -
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Residues in contact with ALA 232 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58L LEU* 3.9 16.7 - - + +
63L LEU* 4.0 6.5 - - + -
64L PRO* 3.6 33.4 - - + -
228L ILE 3.1 19.3 + - - +
229L ALA 3.6 4.7 - - - +
230L SER 3.2 0.2 - - - -
231L TYR* 1.3 76.4 - - - +
233L LEU* 1.3 62.1 + - - +
235L THR* 3.3 4.9 + - - -
236L HIS* 3.0 29.6 + - - -
249L PHE* 4.8 6.8 - - + -
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Residues in contact with LEU 233 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63L LEU* 3.7 29.6 - - + -
73L LEU* 4.7 8.1 - - + -
76L VAL* 3.9 22.9 - - + -
77L ILE* 4.0 22.9 - - + +
80L LEU* 3.6 17.0 - - + -
229L ALA* 2.9 26.0 + - + +
230L SER 3.4 4.0 - - - +
232L ALA* 1.3 74.9 - - - +
234L LEU* 1.3 59.4 + - - +
236L HIS* 3.1 6.4 + - - +
237L MET* 2.8 32.4 + - - +
280L LEU* 4.0 14.8 - - + -
300L PHE* 4.0 23.1 - - + -
302L VAL* 5.6 0.4 - - + -
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Residues in contact with LEU 234 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80L LEU* 3.6 21.5 - - + +
84L VAL* 4.6 15.0 - - + -
131L TRP* 4.0 17.5 - - + -
153L LEU* 4.7 8.3 - - + -
171L LEU* 3.9 25.4 - - + -
193L PHE* 4.3 8.5 - - + -
230L SER 2.9 16.4 + - - +
231L TYR* 3.7 25.4 - - + +
232L ALA 3.3 0.2 - - - -
233L LEU* 1.3 75.6 - - - +
235L THR* 1.3 57.6 + - - +
237L MET* 3.2 10.9 + - + +
238L ILE* 2.9 53.4 + - + +
292L ILE* 5.0 2.2 - - + -
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Residues in contact with THR 235 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58L LEU* 3.7 23.8 - - + +
193L PHE* 4.0 8.9 - - + -
209L LEU* 3.7 33.1 - - + +
210L SER 4.9 0.4 - - - -
211L CYS* 3.3 31.3 - - + +
231L TYR 2.8 18.7 + - - -
232L ALA 3.5 5.2 - - - -
233L LEU 3.2 0.2 - - - -
234L LEU* 1.3 75.1 - - - +
236L HIS* 1.3 59.0 + - - +
238L ILE* 3.5 1.1 + - - -
239L ALA* 2.9 27.9 + - - +
246L PRO* 4.5 5.2 - - + -
249L PHE* 5.1 0.7 - - - -
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Residues in contact with HIS 236 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58L LEU* 3.8 19.5 - - + +
61L ASN* 4.2 15.6 + - - -
62L THR 3.0 28.2 + - - -
63L LEU* 4.6 6.9 - - + -
232L ALA 3.0 31.3 + - - -
233L LEU* 3.1 8.0 + - - +
235L THR* 1.3 75.0 - - - +
237L MET* 1.3 63.3 + - - +
239L ALA* 3.3 6.5 + - - +
240L LEU* 3.1 18.5 + - - +
246L PRO* 3.6 28.6 - - + +
280L LEU* 3.5 33.8 - - + +
282L TRP* 3.8 13.2 + - + -
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Residues in contact with MET 237 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80L LEU* 3.5 32.8 - - - -
81L LEU* 3.7 17.9 - - + -
84L VAL* 4.3 13.2 - - + -
233L LEU 2.8 13.8 + - - +
234L LEU* 3.4 11.0 - - + +
236L HIS* 1.3 75.7 - - - +
238L ILE* 1.3 63.8 + - - +
240L LEU* 3.1 13.7 + - - +
241L ILE* 3.2 16.5 + - - +
282L TRP* 3.8 18.8 - - + -
292L ILE* 4.1 20.6 - - + +
295L PHE* 3.6 42.2 - - + -
300L PHE* 3.8 11.7 - - + -
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Residues in contact with ILE 238 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153L LEU* 4.3 11.9 - - + -
156L VAL* 4.6 4.3 - - + -
157L ILE* 3.6 28.0 - - + -
160L ILE* 3.6 27.4 - - + -
193L PHE* 3.4 38.8 - - + -
209L LEU* 3.9 9.0 - - + -
234L LEU* 2.9 36.0 + - + +
235L THR 3.9 3.4 - - - +
237L MET* 1.3 75.7 - - - +
239L ALA* 1.3 55.4 + - - +
241L ILE* 3.3 1.9 + - - +
242L THR* 2.7 35.3 + - + +
292L ILE* 4.2 7.6 - - + -
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Residues in contact with ALA 239 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209L LEU* 4.0 5.2 - - + -
235L THR 2.9 18.4 + - - +
236L HIS 3.4 6.5 - - - +
237L MET 3.2 0.2 - - - -
238L ILE* 1.3 77.8 - - - +
240L LEU* 1.3 56.5 + - - +
242L THR 3.4 0.2 + - - -
243L ASP* 3.0 10.4 + - - -
244L THR* 2.9 55.4 + - - +
246L PRO* 3.7 24.2 - - + -
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Residues in contact with LEU 240 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236L HIS 3.1 12.0 + - - +
237L MET 3.1 8.7 + - - +
239L ALA* 1.3 78.8 - - - +
241L ILE* 1.3 63.3 + - + +
242L THR 3.5 0.2 + - - -
243L ASP* 3.6 6.3 + - - +
282L TRP* 3.6 39.9 - - + +
284L ARG 5.8 0.4 - - - +
285L SER* 5.1 0.4 - - - -
286L LYS* 3.5 45.5 - - + +
289L ILE* 3.6 31.4 - - + -
295L PHE* 3.9 9.4 - - + -
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Residues in contact with ILE 241 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157L ILE* 4.0 26.9 - - + -
161L LYS* 4.0 13.6 + - + +
237L MET 3.2 15.0 + - - +
238L ILE 3.9 6.1 - - - +
240L LEU* 1.3 80.5 - - + +
242L THR* 1.3 58.7 + - - +
243L ASP 3.4 0.2 - - - -
286L LYS* 3.6 23.9 + - + +
289L ILE* 4.3 6.1 - - + -
290L GLY 4.0 10.8 - - - +
291L ASP* 3.6 38.1 - - + +
292L ILE* 3.9 13.0 - - + +
295L PHE* 3.7 22.4 - - + -
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Residues in contact with THR 242 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157L ILE* 3.8 35.9 - - + +
160L ILE* 3.7 23.3 - - + +
161L LYS* 3.8 20.8 - - + +
238L ILE* 2.7 33.0 + - + +
241L ILE* 1.3 78.5 - - - +
243L ASP* 1.3 71.0 + - - +
244L THR* 2.8 30.8 + - - +
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Residues in contact with ASP 243 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206L LYS* 3.9 29.9 + - + +
207L PRO* 3.9 6.8 - - - +
239L ALA 3.0 6.5 + - - -
240L LEU 3.6 2.7 + - - +
241L ILE 3.4 0.8 - - - -
242L THR* 1.3 80.2 - - - +
244L THR* 1.3 61.2 + - - +
286L LYS* 2.7 43.9 + - - +
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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