Contacts of the helix formed by residues 222 - 243 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69G LYS* 4.5 4.1 + - - +
219G ASP* 3.1 13.8 + - - +
221G GLY* 1.3 79.8 - - - +
223G GLY* 1.3 64.5 + - - +
225G PRO* 3.6 8.2 - - - +
226G PHE* 3.8 18.7 - - - -
262G HIS* 3.7 13.2 - - + -
313G MET* 3.7 24.9 - - + +
314G LYS 3.7 5.6 - - - +
315G MET* 3.6 44.9 - - + +
2651G CB3 3.5 61.8 - - + +
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Residues in contact with GLY 223 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219G ASP 2.9 14.0 + - - -
222G LEU* 1.3 68.5 - - - +
224G VAL* 1.3 57.9 + - - -
225G PRO 3.2 2.5 - - - -
226G PHE* 2.8 23.9 + - - +
227G ASN* 2.9 18.9 + - - +
650G UMP 3.9 4.3 - - - -
2651G CB3 3.1 36.9 + - - +
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Residues in contact with VAL 224 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G TYR* 3.9 15.3 - - + -
54G PHE* 4.6 0.2 - - + -
215G GLN* 4.4 6.3 - - - +
218G CYS* 3.8 26.2 - - + -
219G ASP 3.0 13.1 + - - +
220G LEU* 3.7 21.5 - - + +
223G GLY* 1.3 70.3 - - - -
225G PRO* 1.3 70.4 - - + +
227G ASN* 3.7 7.8 + - - -
228G ILE* 2.9 48.0 + - + +
251G LEU* 4.6 2.9 - - + -
253G MET* 4.2 18.4 - - + -
650G UMP 4.6 0.4 + - - -
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Residues in contact with PRO 225 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G TYR* 3.6 19.1 - - + +
64G PRO 5.4 0.7 - - - +
65G LEU* 5.4 0.7 - - - +
66G LEU* 3.7 32.9 + - + +
69G LYS* 4.0 17.5 - - - +
71G VAL* 4.5 14.1 - - + +
220G LEU 3.3 14.8 - - - +
221G GLY 3.6 10.3 - - - +
222G LEU 3.6 10.3 - - - +
223G GLY 3.3 5.2 - - - -
224G VAL* 1.3 90.3 - - + +
226G PHE* 1.3 65.1 + - + +
228G ILE* 4.1 3.5 - - + +
229G ALA* 3.4 19.9 + - - +
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Residues in contact with PHE 226 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69G LYS* 6.5 0.2 - - - -
71G VAL* 4.3 16.6 - - + -
72G PHE* 3.8 27.1 - + + -
75G GLY 3.9 6.1 - - - -
76G VAL* 3.4 41.3 - - + +
79G GLU* 4.3 7.4 - - - +
100G ILE* 4.2 15.7 - - + -
222G LEU 3.8 6.5 - - - -
223G GLY 2.8 9.5 + - - +
225G PRO* 1.3 80.5 - - + +
227G ASN* 1.3 59.8 + - - +
229G ALA* 3.3 1.9 + - - +
230G SER* 2.8 33.9 + - - -
2651G CB3 3.6 73.4 - + + -
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Residues in contact with ASN 227 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188G HIS* 3.4 23.0 + - - +
213G MET* 4.0 9.9 - - + -
215G GLN* 2.9 41.0 + - - +
223G GLY 2.9 19.3 + - - +
224G VAL* 3.7 6.2 + - - +
226G PHE* 1.3 75.1 - - - +
228G ILE* 1.3 62.6 + - - +
230G SER* 4.2 5.5 - - - -
231G TYR* 3.1 31.7 + - - +
249G PHE* 4.6 0.9 - - - -
251G LEU* 4.9 2.5 - - + -
650G UMP 3.1 30.2 + - - -
2651G CB3 3.7 5.1 - - - +
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Residues in contact with ILE 228 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G TYR* 4.6 7.6 - - + -
54G PHE* 4.2 9.4 - - + -
56G PHE* 3.7 40.4 - - + -
64G PRO* 3.6 28.5 - - + +
66G LEU* 4.7 12.3 - - + -
224G VAL* 2.9 37.5 + - + +
225G PRO* 4.1 4.3 - - + +
227G ASN* 1.3 76.6 - - - +
229G ALA* 1.3 64.8 + - - +
232G ALA* 3.1 22.0 + - - +
249G PHE* 3.9 11.9 - - + -
251G LEU* 3.7 20.0 - - + -
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Residues in contact with ALA 229 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G LEU* 4.6 7.0 - - + -
64G PRO 4.3 9.6 - - - +
65G LEU* 3.9 28.5 - - + -
73G LEU* 5.8 0.4 - - + -
76G VAL* 4.0 15.7 - - + -
225G PRO 3.4 13.5 + - - +
226G PHE 3.3 3.0 + - - +
228G ILE* 1.3 79.7 - - - +
230G SER* 1.3 57.9 + - - +
232G ALA* 3.3 6.3 + - - +
233G LEU* 2.8 37.5 + - + +
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Residues in contact with SER 230 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76G VAL* 3.7 15.3 - - - +
79G GLU* 4.7 7.7 + - - -
80G LEU* 3.7 25.9 - - - +
83G PHE* 4.5 13.0 - - - -
131G TRP* 6.1 0.2 - - - -
226G PHE 2.8 24.4 + - - -
227G ASN* 3.7 7.4 - - - -
229G ALA* 1.3 72.2 - - - +
231G TYR* 1.3 66.1 + - - +
233G LEU* 3.1 6.7 + - - +
234G LEU* 2.8 27.4 + - - +
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Residues in contact with TYR 231 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131G TRP* 3.3 21.0 + + - -
171G LEU 5.8 0.2 + - - -
188G HIS* 2.5 53.5 + + + +
190G PHE* 5.3 3.6 + - - -
191G CYS* 3.8 19.9 - - - +
211G CYS* 4.2 14.1 - - - -
213G MET* 3.7 34.0 - - + +
227G ASN* 3.1 17.7 + - - +
230G SER* 1.3 83.2 - - - +
232G ALA* 1.3 66.6 + - - +
234G LEU* 3.7 21.9 - - + +
235G THR* 2.9 27.9 + - - -
249G PHE* 3.5 26.7 - - + -
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Residues in contact with ALA 232 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G LEU* 3.8 16.3 - - + +
63G LEU* 4.0 5.4 - - + -
64G PRO* 3.5 34.3 - - + -
228G ILE 3.1 20.5 + - - +
229G ALA 3.6 4.0 - - - +
231G TYR* 1.3 79.1 - - - +
233G LEU* 1.3 62.8 + - - +
235G THR* 3.3 2.9 + - - -
236G HIS* 3.1 30.1 + - + -
249G PHE* 4.7 6.8 - - + -
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Residues in contact with LEU 233 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G LEU* 3.7 31.0 - - + -
73G LEU* 4.6 8.3 - - + -
76G VAL* 3.9 22.7 - - + -
77G ILE* 4.1 21.3 - - + +
80G LEU* 3.7 15.7 - - + -
229G ALA* 2.8 24.9 + - + +
230G SER* 3.1 4.7 + - - +
232G ALA* 1.3 75.2 - - - +
234G LEU* 1.3 58.8 + - - +
236G HIS* 3.1 5.2 + - - +
237G MET* 2.8 33.1 + - - +
280G LEU* 4.0 16.4 - - + -
300G PHE* 3.9 24.0 - - + -
302G VAL* 5.5 0.7 - - + -
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Residues in contact with LEU 234 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G LEU* 3.7 21.9 - - + +
84G VAL* 4.6 11.2 - - + -
131G TRP* 4.0 17.3 - - + -
153G LEU* 4.7 8.1 - - + -
171G LEU* 3.9 26.7 - - + -
193G PHE* 4.3 9.0 - - + -
230G SER 2.8 15.8 + - - +
231G TYR* 3.7 23.8 - - + +
233G LEU* 1.3 74.9 - - - +
235G THR* 1.3 58.1 + - - +
237G MET* 3.2 12.6 + - - +
238G ILE* 2.8 53.8 + - + +
292G ILE* 4.9 3.8 - - + -
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Residues in contact with THR 235 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G LEU* 3.7 24.5 - - + +
193G PHE* 4.0 9.5 - - + -
209G LEU* 3.7 32.6 - - + +
210G SER 4.9 0.4 - - - -
211G CYS* 3.3 30.3 - - + +
231G TYR 2.9 17.8 + - - -
232G ALA* 3.5 5.6 - - - -
234G LEU* 1.3 74.5 - - - +
236G HIS* 1.3 58.8 + - - +
238G ILE* 4.6 1.1 - - - -
239G ALA* 2.8 29.5 + - - +
246G PRO* 4.5 4.7 - - + -
249G PHE* 5.1 0.5 - - - -
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Residues in contact with HIS 236 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G LEU* 3.7 28.4 - - + +
61G ASN* 4.1 16.5 + - - -
62G THR 2.9 28.9 + - - -
63G LEU* 4.6 6.7 - - + -
232G ALA 3.1 31.2 + - - -
233G LEU* 3.5 7.0 - - - +
235G THR* 1.3 75.4 - - - +
237G MET* 1.3 62.4 + - - +
239G ALA* 3.3 7.5 + - - +
240G LEU* 3.1 18.5 + - - +
246G PRO* 3.6 19.4 - - + +
280G LEU* 3.5 35.1 - - + +
282G TRP* 3.7 13.2 + - + +
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Residues in contact with MET 237 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G LEU* 3.5 32.5 - - - -
81G LEU* 3.8 16.4 - - + -
84G VAL* 4.3 11.0 - - + -
233G LEU 2.8 14.6 + - - +
234G LEU* 3.2 11.9 + - - +
236G HIS* 1.3 77.1 - - - +
238G ILE* 1.3 64.0 + - - +
240G LEU* 3.1 14.0 + - - +
241G ILE* 3.2 17.0 + - - +
282G TRP* 3.8 19.7 - - + -
292G ILE* 4.1 22.2 - - + +
295G PHE* 3.6 42.0 - - + -
300G PHE* 3.8 12.3 - - + -
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Residues in contact with ILE 238 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153G LEU* 4.3 12.6 - - + -
156G VAL* 4.5 4.5 - - + -
157G ILE* 3.6 26.2 - - + -
160G ILE* 3.6 30.5 - - + -
193G PHE* 3.4 36.8 - - + -
209G LEU* 3.8 9.4 - - + -
234G LEU* 2.8 34.1 + - + +
235G THR 3.9 3.1 - - - +
237G MET* 1.3 72.7 - - - +
239G ALA* 1.3 62.2 + - - +
241G ILE* 3.3 1.9 + - - +
242G THR* 2.7 30.4 + - + +
292G ILE* 4.1 11.7 - - + -
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Residues in contact with ALA 239 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209G LEU* 3.8 4.9 - - + +
235G THR 2.8 19.6 + - - +
236G HIS 3.5 5.6 - - - +
238G ILE* 1.3 78.0 - - - +
240G LEU* 1.3 62.6 + - - +
243G ASP* 3.0 6.1 + - - -
244G THR* 3.0 54.7 + - - +
246G PRO* 3.6 25.8 - - + -
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Residues in contact with LEU 240 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236G HIS 3.1 12.4 + - - +
237G MET 3.1 8.7 + - - +
239G ALA* 1.3 78.7 - - - +
241G ILE* 1.3 64.0 + - + +
243G ASP* 3.6 7.8 + - - +
282G TRP* 3.6 40.8 - - + +
285G SER* 5.3 0.4 - - - -
286G LYS* 3.6 45.4 - - + +
289G ILE* 3.6 30.3 - - + -
295G PHE* 3.9 8.7 - - + -
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Residues in contact with ILE 241 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157G ILE* 3.9 27.1 - - + -
161G LYS* 3.9 13.4 + - + +
237G MET 3.2 13.5 + - - +
238G ILE 3.3 5.1 + - - +
240G LEU* 1.3 81.3 - - + +
242G THR* 1.3 59.9 + - - +
286G LYS* 3.7 24.5 + - + +
289G ILE* 4.3 7.0 - - + -
290G GLY 4.1 9.4 - - - +
291G ASP* 3.6 40.2 - - + +
292G ILE* 3.9 14.4 - - + +
295G PHE* 3.8 22.7 - - + -
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Residues in contact with THR 242 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157G ILE* 3.7 35.9 - - + +
160G ILE* 3.7 21.7 - - + +
161G LYS* 3.7 21.0 - - + +
238G ILE* 2.7 32.7 + - + +
239G ALA 3.5 0.3 + - - -
241G ILE* 1.3 78.8 - - - +
243G ASP* 1.3 70.4 + - - +
244G THR* 2.8 31.0 + - - +
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Residues in contact with ASP 243 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161G LYS* 6.1 0.9 - - - -
206G LYS* 3.9 29.6 + - - +
207G PRO* 3.9 7.1 - - - +
239G ALA 3.0 6.0 + - - -
240G LEU 3.6 2.9 + - - +
241G ILE 3.5 1.4 - - - -
242G THR* 1.3 80.0 - - - +
244G THR* 1.3 61.2 + - - +
286G LYS* 2.7 42.5 + - - +
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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