Contacts of the helix formed by residues 222 - 243 (chain M) 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 M).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69M LYS* 4.5 9.9 + - - +
219M ASP* 3.2 13.4 + - - +
221M GLY* 1.3 81.5 - - - +
223M GLY* 1.3 64.9 + - - +
225M PRO* 3.6 8.4 - - - +
226M PHE* 3.8 18.5 - - - -
262M HIS* 3.8 13.5 - - + -
311M ILE 5.6 1.1 - - - +
313M MET* 3.6 34.5 - - + +
314M LYS 3.8 5.4 - - - +
315M MET* 3.6 42.4 - - + +
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Residues in contact with GLY 223 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219M ASP* 2.8 20.2 + - - +
222M LEU* 1.3 73.7 - - - +
224M VAL* 1.3 64.5 + - - -
226M PHE* 2.8 19.5 + - - +
227M ASN* 2.9 22.2 + - - +
550M UMP 4.1 14.4 - - - -
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Residues in contact with VAL 224 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23M TYR* 3.9 15.5 - - + -
54M PHE* 4.7 0.2 - - + -
215M GLN* 4.5 4.9 - - - +
218M CYS* 3.8 23.1 - - + -
219M ASP 3.0 5.0 + - - +
220M LEU* 3.5 33.9 - - + +
223M GLY* 1.3 69.9 - - - -
225M PRO* 1.3 70.0 - - + +
227M ASN* 3.6 8.6 + - - -
228M ILE* 2.9 48.2 + - + +
251M LEU* 4.5 3.4 - - + -
253M MET* 4.2 18.4 - - + -
550M UMP 4.6 0.4 + - - -
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Residues in contact with PRO 225 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23M TYR* 3.6 19.1 - - + +
64M PRO 5.4 0.7 - - - +
65M LEU* 5.4 0.7 - - - +
66M LEU* 3.7 33.1 + - + +
69M LYS* 4.0 17.9 - - - +
71M VAL* 4.6 13.7 - - + +
220M LEU 3.3 14.8 - - - +
221M GLY 3.6 10.5 - - - +
222M LEU 3.6 10.1 - - - +
223M GLY 3.3 5.2 - - - -
224M VAL* 1.3 89.9 - - + +
226M PHE* 1.3 64.9 + - + +
228M ILE* 4.1 3.3 - - + +
229M ALA* 3.5 20.1 + - - +
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Residues in contact with PHE 226 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69M LYS* 6.6 0.4 - - - -
71M VAL* 4.3 16.4 - - + -
72M PHE* 3.8 29.6 - + + -
75M GLY 3.9 5.8 - - - -
76M VAL* 3.5 39.6 - - + +
79M GLU* 4.2 17.0 - - - +
100M ILE* 4.1 29.6 - - + -
222M LEU 3.8 15.0 - - - +
223M GLY* 2.8 11.1 + - - +
225M PRO* 1.3 81.1 - - + +
227M ASN* 1.3 57.4 + - - +
229M ALA* 3.3 2.3 + - - +
230M SER* 2.7 38.0 + - - -
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Residues in contact with ASN 227 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79M GLU* 6.0 0.2 + - - -
188M HIS* 3.4 20.0 + - - -
213M MET* 4.1 8.3 - - + -
215M GLN* 2.9 40.6 + - - +
223M GLY 2.9 19.6 + - - +
224M VAL* 3.6 7.6 + - - +
226M PHE* 1.3 78.6 - - - +
228M ILE* 1.3 62.1 + - - +
230M SER* 4.3 5.4 - - - -
231M TYR* 3.1 30.9 + - - +
249M PHE* 4.5 0.9 - - - -
251M LEU* 5.0 2.5 - - + -
550M UMP 2.9 31.9 + - - -
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Residues in contact with ILE 228 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23M TYR* 4.7 7.6 - - + -
54M PHE* 4.3 9.4 - - + -
56M PHE* 3.7 43.7 - - + -
64M PRO* 3.6 25.1 - - + +
66M LEU* 4.7 11.7 - - + -
224M VAL* 2.9 37.1 + - + +
225M PRO* 4.1 4.0 - - + +
227M ASN* 1.3 76.6 - - - +
229M ALA* 1.3 63.7 + - - +
232M ALA* 3.2 22.7 + - - +
249M PHE* 3.8 11.7 - - + -
251M LEU* 3.7 19.1 - - + -
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Residues in contact with ALA 229 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63M LEU* 4.7 7.2 - - + -
64M PRO 4.4 9.9 - - - +
65M LEU* 3.9 26.7 - - + -
73M LEU* 5.8 0.4 - - + -
76M VAL* 4.0 14.8 - - + -
225M PRO 3.5 14.0 + - - +
226M PHE 3.3 3.0 + - - +
228M ILE* 1.3 78.0 - - - +
230M SER* 1.3 60.4 + - - +
232M ALA* 3.6 6.1 - - - +
233M LEU* 2.9 39.0 + - + +
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Residues in contact with SER 230 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76M VAL* 3.7 15.2 - - - +
79M GLU* 4.8 7.3 + - - -
80M LEU* 3.6 25.2 - - - +
83M PHE* 4.5 12.9 - - - -
131M TRP* 6.0 0.3 - - - -
226M PHE 2.7 24.4 + - - -
227M ASN* 3.7 7.9 - - - -
229M ALA* 1.3 72.8 - - - +
231M TYR* 1.3 66.7 + - - +
233M LEU* 3.1 7.2 + - - +
234M LEU* 2.8 26.9 + - - +
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Residues in contact with TYR 231 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131M TRP* 3.4 20.6 + + - -
171M LEU 5.6 0.5 + - - -
188M HIS* 2.6 53.0 + + + +
190M PHE* 5.1 4.0 + - - -
191M CYS* 3.7 29.1 - - + +
211M CYS* 4.3 6.5 - - - -
213M MET* 3.7 32.5 - - + +
227M ASN* 3.1 16.6 + - - +
230M SER* 1.3 83.3 - - - +
232M ALA* 1.3 64.9 + - - +
234M LEU* 3.7 22.8 - - + +
235M THR* 2.8 30.0 + - - -
249M PHE* 3.5 26.0 - - + -
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Residues in contact with ALA 232 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58M LEU* 3.9 16.7 - - + +
63M LEU* 4.0 5.2 - - + -
64M PRO* 3.6 33.7 - - + -
228M ILE 3.2 21.0 + - - +
229M ALA 3.6 4.7 - - - +
231M TYR* 1.3 76.1 - - - +
233M LEU* 1.3 61.7 + - - +
235M THR* 3.3 4.5 + - - -
236M HIS* 3.0 30.0 + - - -
249M PHE* 4.8 6.9 - - + -
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Residues in contact with LEU 233 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63M LEU* 3.6 31.4 - - + -
73M LEU* 4.7 8.5 - - + -
76M VAL* 3.9 22.7 - - + -
77M ILE* 4.1 21.3 - - + +
80M LEU* 3.6 16.2 - - + -
229M ALA* 2.9 25.6 + - + +
230M SER 3.1 4.2 + - - +
232M ALA* 1.3 76.6 - - - +
234M LEU* 1.3 58.9 + - - +
236M HIS* 3.1 5.5 + - - +
237M MET* 2.9 32.4 + - - +
280M LEU* 4.0 15.3 - - + -
300M PHE* 4.0 23.0 - - + -
302M VAL* 5.6 0.9 - - + -
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Residues in contact with LEU 234 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80M LEU* 3.7 21.9 - - + +
84M VAL* 4.6 11.0 - - + -
131M TRP* 4.0 17.0 - - + -
153M LEU* 4.6 9.0 - - + -
171M LEU* 4.0 26.0 - - + -
193M PHE* 4.3 8.7 - - + -
211M CYS* 6.1 0.2 - - - -
230M SER 2.8 15.6 + - - +
231M TYR* 3.7 23.8 - - + +
233M LEU* 1.3 75.6 - - - +
235M THR* 1.3 58.0 + - - +
237M MET* 3.2 13.1 + - + +
238M ILE* 2.9 53.0 + - + +
292M ILE* 4.9 2.7 - - + -
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Residues in contact with THR 235 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58M LEU* 3.7 24.7 - - + +
193M PHE* 4.0 8.8 - - + -
209M LEU* 3.7 33.4 - - + +
210M SER 4.9 0.4 - - - -
211M CYS* 3.3 29.6 - - + +
231M TYR 2.8 21.7 + - - -
232M ALA* 3.5 5.6 - - - -
233M LEU 3.2 0.2 - - - -
234M LEU* 1.3 77.8 - - - +
236M HIS* 1.3 56.6 + - - +
238M ILE* 3.5 1.5 + - - -
239M ALA* 2.9 28.4 + - - +
246M PRO* 4.5 5.4 - - + -
249M PHE* 5.0 0.5 - - - -
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Residues in contact with HIS 236 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58M LEU* 3.6 27.4 - - + +
61M ASN* 4.2 16.3 + - - -
62M THR 3.0 28.5 + - - -
63M LEU* 4.6 7.7 - - + -
232M ALA 3.0 31.3 + - - -
233M LEU* 3.1 8.5 + - - +
235M THR* 1.3 75.2 - - - +
237M MET* 1.3 62.1 + - - +
239M ALA* 3.3 7.6 + - - +
240M LEU* 3.1 18.5 + - - +
246M PRO* 3.6 20.2 - - + +
280M LEU* 3.5 33.3 - - + +
282M TRP* 3.7 13.6 + - + +
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Residues in contact with MET 237 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80M LEU* 3.6 32.1 - - - -
81M LEU* 3.8 17.0 - - + -
84M VAL* 4.3 10.5 - - + -
233M LEU 2.9 14.7 + - - +
234M LEU* 3.2 12.5 + - - +
236M HIS* 1.3 76.6 - - - +
238M ILE* 1.3 63.7 + - - +
240M LEU* 3.1 14.0 + - - +
241M ILE* 3.2 16.8 + - - +
282M TRP* 3.8 19.7 - - + -
292M ILE* 4.1 23.1 - - + +
295M PHE* 3.6 41.3 - - + -
300M PHE* 3.8 11.7 - - + -
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Residues in contact with ILE 238 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153M LEU* 4.3 12.6 - - + -
156M VAL* 4.5 4.9 - - + -
157M ILE* 3.5 28.0 - - + -
160M ILE* 3.6 27.6 - - + -
193M PHE* 3.4 37.5 - - + -
209M LEU* 3.9 8.3 - - + -
234M LEU* 2.9 35.1 + - + +
235M THR 3.9 3.4 - - - +
237M MET* 1.3 75.1 - - - +
239M ALA* 1.3 55.4 - - - +
241M ILE* 3.3 1.9 + - - +
242M THR* 2.7 35.4 + - + +
292M ILE* 4.2 7.6 - - + -
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Residues in contact with ALA 239 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209M LEU* 3.8 5.1 - - + +
235M THR 2.9 19.2 + - - +
236M HIS 3.5 5.8 - - - +
237M MET 3.2 0.2 - - - -
238M ILE* 1.3 78.2 - - - +
240M LEU* 1.3 61.0 + - - +
243M ASP* 3.0 5.5 + - - -
244M THR* 2.9 56.3 + - - +
246M PRO* 3.6 24.7 - - + -
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Residues in contact with LEU 240 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236M HIS 3.1 12.3 + - - +
237M MET 3.5 8.5 - - - +
239M ALA* 1.3 79.4 - - - +
241M ILE* 1.3 63.8 + - + +
243M ASP* 3.6 6.2 + - - +
282M TRP* 3.6 40.6 - - + +
284M ARG 5.8 0.2 - - - +
285M SER* 5.3 0.4 - - - -
286M LYS* 3.5 45.8 - - + +
289M ILE* 3.6 30.5 - - + -
295M PHE* 3.9 9.2 - - + -
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Residues in contact with ILE 241 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157M ILE* 4.0 26.9 - - + -
161M LYS* 4.0 13.4 + - + +
237M MET 3.2 14.9 + - - +
238M ILE 3.3 5.6 + - - +
240M LEU* 1.3 82.4 - - + +
242M THR* 1.3 59.1 + - - +
286M LYS* 3.6 23.8 + - + +
289M ILE* 4.3 5.4 - - + -
290M GLY 4.0 10.8 - - - +
291M ASP* 3.6 37.7 - - + +
292M ILE* 3.9 13.0 - - + +
295M PHE* 3.7 23.8 - - + -
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Residues in contact with THR 242 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157M ILE* 3.7 25.6 - - + +
160M ILE* 3.6 21.8 - - + +
161M LYS* 3.7 31.5 - - + +
238M ILE* 2.7 32.6 + - + +
239M ALA 3.5 0.2 + - - -
241M ILE* 1.3 78.1 - - - +
243M ASP* 1.3 69.2 + - - +
244M THR* 2.8 32.1 + - - +
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Residues in contact with ASP 243 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206M LYS* 3.9 28.5 + - + +
207M PRO* 3.9 7.1 - - - +
239M ALA 3.0 6.0 + - - -
240M LEU 3.6 3.1 + - - +
241M ILE 3.4 1.0 - - - -
242M THR* 1.3 79.9 - - - +
244M THR* 1.3 61.5 + - - +
286M LYS* 2.7 44.5 + - - +
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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