Contacts of the helix formed by residues 222 - 243 (chain P) 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 P).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69P LYS* 4.5 10.0 + - - +
219P ASP* 3.2 12.7 + - - +
221P GLY* 1.3 79.8 - - - +
223P GLY* 1.3 66.0 + - - +
225P PRO* 3.5 7.8 - - - +
226P PHE* 3.8 19.1 - - - -
262P HIS* 3.8 13.7 - - + -
311P ILE 5.6 1.1 - - - +
313P MET* 3.6 37.7 - - + +
314P LYS 3.8 5.4 - - - +
315P MET* 3.6 38.1 - - + +
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Residues in contact with GLY 223 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219P ASP* 2.8 18.2 + - - +
222P LEU* 1.3 74.1 - - - +
224P VAL* 1.3 65.5 + - - -
226P PHE* 2.8 19.9 + - - +
227P ASN* 3.0 19.4 + - - +
700P UMP 3.8 20.6 - - - -
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Residues in contact with VAL 224 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P TYR* 4.0 15.0 - - + -
215P GLN* 4.5 5.4 - - - +
218P CYS* 3.8 20.9 - - + -
219P ASP 3.0 4.8 + - - +
220P LEU* 3.5 35.9 - - + +
223P GLY* 1.3 71.1 - - - -
225P PRO* 1.3 70.8 - - + +
227P ASN* 3.7 8.4 + - - -
228P ILE* 2.9 47.6 + - + +
251P LEU* 4.5 3.1 - - + -
253P MET* 4.2 19.1 - - + -
700P UMP 4.4 0.2 + - - -
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Residues in contact with PRO 225 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P TYR* 3.6 19.1 - - + +
64P PRO 5.4 0.5 - - - +
65P LEU* 5.4 0.3 - - - +
66P LEU* 3.8 31.7 + - + +
69P LYS* 4.0 18.4 - - - +
71P VAL* 4.6 13.8 - - + +
220P LEU 3.3 14.4 - - - +
221P GLY 3.6 10.1 - - - +
222P LEU 3.5 10.8 - - - +
223P GLY 3.3 4.7 - - - -
224P VAL* 1.3 92.4 - - + +
226P PHE* 1.3 64.5 + - + +
228P ILE* 4.0 3.0 - - + +
229P ALA* 3.4 20.6 + - - +
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Residues in contact with PHE 226 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69P LYS* 6.5 0.9 - - - -
71P VAL* 4.3 15.9 - - + -
72P PHE* 3.9 29.4 - + + -
75P GLY 3.9 5.6 - - - -
76P VAL* 3.5 40.9 - - + +
79P GLU* 4.2 16.6 - - - +
100P ILE* 4.1 30.3 - - + -
222P LEU 3.8 15.0 - - - +
223P GLY* 2.8 10.8 + - - +
225P PRO* 1.3 80.4 - - + +
227P ASN* 1.3 57.0 + - - +
229P ALA* 3.3 1.9 + - - +
230P SER* 2.7 38.7 + - - -
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Residues in contact with ASN 227 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188P HIS* 3.4 20.4 + - - +
213P MET* 4.0 8.5 - - + +
215P GLN* 2.9 30.4 + - - +
223P GLY 3.0 18.4 + - - +
224P VAL* 3.7 6.9 + - - +
226P PHE* 1.3 76.9 - - - +
228P ILE* 1.3 63.4 + - - +
230P SER* 4.2 5.2 - - - -
231P TYR* 3.1 31.4 + - - +
249P PHE* 4.5 0.7 - - - -
251P LEU* 5.0 2.9 - - + -
700P UMP 2.7 45.1 + - - -
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Residues in contact with ILE 228 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P TYR* 4.7 8.5 - - + -
54P PHE* 4.3 8.7 - - + -
56P PHE* 3.7 40.4 - - + -
64P PRO* 3.6 28.5 - - + +
66P LEU* 4.7 10.8 - - + -
224P VAL* 2.9 36.7 + - + +
225P PRO* 4.0 4.5 - - + +
227P ASN* 1.3 75.6 - - - +
229P ALA* 1.3 62.9 - - - +
232P ALA* 3.1 22.9 + - - +
249P PHE* 3.8 12.5 - - + -
251P LEU* 3.7 19.7 - - + -
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Residues in contact with ALA 229 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63P LEU* 4.2 6.7 - - + +
64P PRO 4.4 9.8 + - - +
65P LEU* 3.9 26.9 - - + -
73P LEU* 5.8 0.7 - - + -
76P VAL* 4.0 15.3 - - + -
225P PRO 3.4 13.9 + - - +
226P PHE 3.3 3.4 + - - +
228P ILE* 1.3 77.2 - - - +
230P SER* 1.3 60.6 + - - +
232P ALA* 3.3 6.1 + - - +
233P LEU* 2.9 37.1 + - + +
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Residues in contact with SER 230 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76P VAL* 3.6 16.0 + - - +
79P GLU* 4.7 7.4 + - - -
80P LEU* 3.6 26.4 - - - +
83P PHE* 4.4 13.2 - - - -
131P TRP* 6.1 0.2 - - - -
188P HIS* 5.8 0.4 - - - -
226P PHE 2.7 23.5 + - - -
227P ASN* 3.6 7.6 - - - -
229P ALA* 1.3 72.5 - - - +
231P TYR* 1.3 66.2 + - - +
233P LEU* 3.2 8.1 + - - +
234P LEU* 2.9 24.5 + - - +
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Residues in contact with TYR 231 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131P TRP* 3.4 19.9 + + - -
171P LEU 5.7 0.3 + - - -
188P HIS* 2.5 54.4 + + + +
190P PHE* 5.1 3.8 + - - -
191P CYS* 3.8 27.3 - - + +
211P CYS* 4.2 7.6 - - - -
213P MET* 3.7 31.8 - - + +
227P ASN* 3.1 16.2 + - - +
230P SER* 1.3 84.6 - - - +
232P ALA* 1.3 63.3 + - - +
234P LEU* 3.7 23.9 - - + +
235P THR* 2.9 30.2 + - - -
249P PHE* 3.5 27.1 - - + -
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Residues in contact with ALA 232 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58P LEU* 3.9 14.3 - - + +
63P LEU* 4.0 5.8 - - + -
64P PRO* 3.6 33.0 - - + -
228P ILE 3.1 20.2 + - - +
229P ALA 3.6 4.5 - - - +
231P TYR* 1.3 76.3 - - - +
233P LEU* 1.3 63.4 + - - +
235P THR* 3.3 6.7 + - - -
236P HIS* 3.0 29.6 + - - -
249P PHE* 4.8 6.2 - - + -
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Residues in contact with LEU 233 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63P LEU* 3.7 31.2 - - + -
73P LEU* 4.7 6.7 - - + -
76P VAL* 3.9 22.9 - - + -
77P ILE* 4.0 23.3 - - + +
80P LEU* 3.6 16.8 - - + -
229P ALA* 2.9 24.5 + - + +
230P SER 3.4 4.5 - - - +
232P ALA* 1.3 75.1 - - - +
234P LEU* 1.3 59.7 + - - +
236P HIS* 3.1 6.3 + - - +
237P MET* 2.9 31.5 + - - +
280P LEU* 4.0 15.0 - - + -
300P PHE* 4.0 23.5 - - + -
302P VAL* 5.6 0.7 - - + -
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Residues in contact with LEU 234 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80P LEU* 3.7 21.5 - - + +
84P VAL* 4.6 13.7 - - + -
131P TRP* 4.0 26.7 - - + -
153P LEU* 4.7 8.7 - - + -
171P LEU* 4.0 17.3 - - + -
193P PHE* 4.3 9.4 - - + -
230P SER 2.9 15.2 + - - +
231P TYR* 3.7 24.7 - - + +
233P LEU* 1.3 75.8 - - - +
235P THR* 1.3 59.3 + - - +
237P MET* 3.2 9.2 + - - +
238P ILE* 2.9 53.4 + - + +
292P ILE* 4.9 3.1 - - + -
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Residues in contact with THR 235 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58P LEU* 3.7 24.0 - - + +
193P PHE* 4.1 9.2 - - + -
209P LEU* 3.7 33.5 - - + +
210P SER 4.9 0.4 - - - -
211P CYS* 3.3 30.3 - - + +
231P TYR 2.9 18.7 + - - -
232P ALA* 3.6 5.3 - - - -
234P LEU* 1.3 74.5 - - - +
236P HIS* 1.3 60.3 + - - +
238P ILE* 3.5 1.9 + - - +
239P ALA* 2.9 27.9 + - - +
246P PRO* 4.5 5.4 - - + -
249P PHE* 5.0 0.7 - - - -
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Residues in contact with HIS 236 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58P LEU* 3.7 17.7 - - + +
61P ASN* 4.2 15.8 + - - -
62P THR 3.0 28.1 + - - -
63P LEU* 4.6 7.1 - - + -
232P ALA 3.0 31.3 + - - -
233P LEU* 3.1 8.3 + - - +
235P THR* 1.3 76.4 - - - +
237P MET* 1.3 63.5 + - - +
239P ALA* 3.3 7.6 + - - +
240P LEU* 3.1 22.3 + - - +
246P PRO* 3.6 29.9 - - + +
280P LEU* 3.6 33.2 - - + +
282P TRP* 3.8 9.9 + - + +
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Residues in contact with MET 237 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80P LEU* 3.6 32.3 - - - -
81P LEU* 3.8 16.2 - - + -
84P VAL* 4.3 11.0 - - + -
233P LEU 2.9 14.7 + - - +
234P LEU* 3.4 11.0 - - + +
236P HIS* 1.3 76.3 - - - +
238P ILE* 1.3 61.8 + - - +
240P LEU* 3.1 13.7 + - - +
241P ILE* 3.2 16.1 + - - +
282P TRP* 3.8 19.5 - - + -
292P ILE* 4.0 22.4 - - + +
295P PHE* 3.6 42.9 - - + -
300P PHE* 3.8 11.7 - - + -
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Residues in contact with ILE 238 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153P LEU* 4.3 13.5 - - + -
156P VAL* 4.6 4.3 - - + -
157P ILE* 3.6 29.2 - - + -
160P ILE* 3.6 25.6 - - + -
193P PHE* 3.4 37.9 - - + -
209P LEU* 3.8 9.0 - - + -
234P LEU* 2.9 36.1 + - + +
235P THR 3.9 3.4 - - - +
237P MET* 1.3 74.6 - - - +
239P ALA* 1.3 56.3 + - - +
241P ILE* 3.3 1.5 + - - +
242P THR* 2.7 36.1 + - + +
292P ILE* 4.2 7.9 - - + -
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Residues in contact with ALA 239 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209P LEU* 3.8 4.7 - - + +
235P THR 2.9 19.4 + - - +
236P HIS 3.4 5.8 - - - +
237P MET 3.2 0.2 - - - -
238P ILE* 1.3 77.2 - - - +
240P LEU* 1.3 61.8 + - - +
243P ASP* 3.0 4.7 + - - -
244P THR* 2.9 57.8 + - - +
246P PRO* 3.7 24.7 - - + -
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Residues in contact with LEU 240 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236P HIS 3.1 12.3 + - - +
237P MET 3.1 9.2 + - - +
239P ALA* 1.3 78.2 - - - +
241P ILE* 1.3 62.3 + - + +
242P THR 3.5 0.2 + - - -
243P ASP* 3.6 5.9 + - - +
282P TRP* 3.6 39.0 - - + +
284P ARG 5.1 0.4 - - - +
285P SER* 5.1 0.7 - - - -
286P LYS* 3.5 45.9 - - + +
289P ILE* 3.6 31.4 - - + -
295P PHE* 3.9 9.4 - - + -
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Residues in contact with ILE 241 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157P ILE* 4.0 26.2 - - + -
161P LYS* 4.0 13.2 + - + +
237P MET 3.2 14.8 + - - +
238P ILE 3.3 6.3 + - - +
240P LEU* 1.3 81.1 - - + +
242P THR* 1.3 58.1 + - - +
243P ASP 3.4 0.7 - - - -
286P LYS* 3.6 23.7 + - + +
289P ILE* 4.3 6.5 - - + -
290P GLY 4.0 10.8 - - - +
291P ASP* 3.6 39.9 - - + +
292P ILE* 3.9 13.2 - - + +
295P PHE* 3.7 21.3 - - + -
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Residues in contact with THR 242 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157P ILE* 3.7 36.3 - - + +
160P ILE* 3.7 22.5 - - + +
161P LYS* 3.8 20.7 - - + +
238P ILE* 2.7 34.3 + - + +
239P ALA 3.5 0.2 + - - -
241P ILE* 1.3 79.4 - - - +
243P ASP* 1.3 69.6 + - - +
244P THR* 2.8 31.5 + - - +
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Residues in contact with ASP 243 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206P LYS* 3.9 29.5 + - + +
207P PRO* 3.9 7.3 - - - +
239P ALA 3.0 5.8 + - - -
240P LEU 3.6 3.5 + - - +
241P ILE 3.4 0.8 - - - -
242P THR* 1.3 80.9 - - - +
244P THR* 1.3 61.2 + - - +
286P LYS* 2.7 44.7 + - - +
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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