Contacts of the helix formed by residues 183 - 204 (chain A) in PDB entry 2AXZ
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 GLY 183 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A SER* 3.7 4.4 + - - -
182A PHE* 1.3 76.0 - - - +
184A LYS* 1.3 59.7 + - - -
185A ASP* 3.3 3.6 - - - -
186A TYR* 3.2 3.6 + - - +
187A ASP* 2.7 34.5 + - - +
59B PHE* 5.8 0.7 - - - -
60B GLU* 5.8 0.4 - - - -
63B ASN* 2.9 23.8 - - - +
300B GLU* 5.7 1.1 - - - -
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Residues in contact with LYS 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A GLY* 1.3 69.4 - - - -
185A ASP* 1.3 61.2 + - - +
187A ASP* 3.2 10.3 + - - +
188A LEU* 2.9 28.6 + - - +
227A SER* 4.4 15.2 + - - +
184B LYS* 3.4 52.5 + - + +
185B ASP* 3.1 31.1 + - - +
188B LEU* 4.4 16.0 - - - +
298B TYR* 5.9 2.4 - - - -
299B TYR 5.3 2.6 + - - -
300B GLU* 3.7 29.6 - - - +
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Residues in contact with ASP 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A THR* 5.7 0.9 + - - -
183A GLY* 3.3 0.8 - - - -
184A LYS* 1.3 77.7 - - - +
186A TYR* 1.3 61.7 + - - +
188A LEU* 3.5 9.2 + - - +
189A THR* 3.3 29.1 + - - +
299A TYR 5.7 1.0 - - - +
300A GLU* 5.4 1.9 - - - +
57B ASN* 4.1 14.8 + - + +
59B PHE* 5.1 11.3 - - - +
184B LYS* 3.3 24.4 + - - +
7E VAL* 3.4 34.7 - - + +
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Residues in contact with TYR 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A PHE 4.3 3.8 + - - -
150A GLY* 3.6 29.4 - - - -
153A TYR* 4.1 15.0 + + - -
178A ILE* 3.5 20.5 - - + +
180A ASP 3.5 22.2 + - - -
181A SER* 4.4 0.2 - - - -
182A PHE* 3.5 43.1 - + + +
183A GLY 3.2 9.3 + - - +
184A LYS 3.1 0.4 - - - -
185A ASP* 1.3 77.6 - - - +
187A ASP* 1.3 70.4 + - - +
189A THR* 3.1 20.0 + - - -
190A ILE* 3.1 39.7 + - + +
60B GLU* 4.0 14.1 + - + +
64B ARG* 3.8 18.4 - - - -
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Residues in contact with ASP 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A SER* 2.7 29.5 + - - -
183A GLY 2.7 21.6 + - - +
184A LYS* 3.2 11.1 + - - +
186A TYR* 1.3 84.7 - - - +
188A LEU* 1.3 62.9 + - - +
190A ILE* 3.2 14.3 - - + +
191A GLN* 3.2 29.7 + - - +
225A ASN 3.8 1.7 - - - +
226A ILE* 2.6 38.0 - - + +
227A SER* 3.9 9.8 - - - +
300B GLU* 4.7 1.0 - - - +
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Residues in contact with LEU 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LYS 2.9 15.6 + - - +
185A ASP* 3.6 11.0 - - - +
186A TYR 3.1 0.4 - - - -
187A ASP* 1.3 78.6 - - - +
189A THR* 1.3 58.3 + - - +
191A GLN* 3.3 7.0 + - - +
192A THR* 2.8 30.8 + - - +
229A ASN* 4.2 15.9 - - + +
232A TYR* 3.7 25.4 - - + +
298A TYR* 3.9 25.8 - - + -
299A TYR 4.6 8.3 - - - +
184B LYS* 5.4 8.5 - - - +
5E VAL* 3.6 27.8 - - + -
7E VAL* 4.8 10.8 - - + -
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Residues in contact with THR 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A GLY* 3.3 31.2 + - - +
153A TYR* 3.6 10.3 - - - +
154A GLU* 4.0 16.6 - - + +
185A ASP 3.3 15.8 + - - +
186A TYR 3.1 10.2 + - - -
188A LEU* 1.3 73.0 - - + +
190A ILE* 1.3 67.8 + - - +
191A GLN 3.1 2.2 - - - -
192A THR* 3.1 18.6 + - - -
193A VAL* 3.2 18.4 + - - +
5E VAL* 4.3 10.3 - - + -
7E VAL* 3.7 22.0 - - + -
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Residues in contact with ILE 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A TYR* 3.6 37.0 - - + -
176A TYR* 2.8 26.1 + - + +
178A ILE* 4.2 21.1 - - + -
186A TYR* 3.1 38.1 - - + +
187A ASP* 3.2 32.1 - - + +
189A THR* 1.3 81.2 + - - +
191A GLN* 1.3 66.4 + - + +
194A LEU* 3.6 13.2 + - - +
220A LEU* 4.6 6.1 - - + -
226A ILE* 4.3 19.1 - - + -
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Residues in contact with GLN 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A ASP* 3.2 25.0 + - - +
188A LEU* 3.3 3.5 + - - +
189A THR 3.1 0.4 - - - -
190A ILE* 1.3 81.7 - - + +
192A THR* 1.3 59.4 + - - +
194A LEU* 3.3 7.1 + - - +
195A LYS* 3.0 28.1 + - - +
217A PHE* 3.7 19.8 - - + -
220A LEU* 3.9 24.2 - - + -
226A ILE* 4.4 2.6 - - - +
227A SER 3.3 9.5 + - - -
228A ILE* 3.1 32.0 - - - +
229A ASN* 2.9 31.0 + - - +
232A TYR* 3.6 18.6 - - + +
236A ILE* 4.6 2.4 - - - +
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Residues in contact with THR 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A SER* 2.8 23.8 - - - +
188A LEU* 2.8 21.9 + - - +
189A THR 3.1 7.7 + - - -
191A GLN* 1.3 74.8 - - - +
193A VAL* 1.3 60.0 + - - +
195A LYS* 3.6 2.8 - - - +
196A ASN* 2.8 43.4 + - - +
232A TYR* 2.9 29.3 + - - +
3E THR* 3.7 9.2 - - - +
5E VAL* 3.1 27.6 - - + +
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Residues in contact with VAL 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A TYR* 3.0 41.1 - - + +
156A VAL* 4.1 20.0 - - + -
157A SER* 3.4 13.0 + - - +
160A LEU* 4.0 9.0 - - + +
172A ILE* 4.2 11.7 - - + -
175A MSE 5.8 0.4 - - - -
176A TYR* 3.0 35.7 - - + +
189A THR 3.2 10.3 + - - +
191A GLN 3.3 0.2 - - - -
192A THR* 1.3 74.9 - - - +
194A LEU* 1.3 54.9 + - + +
196A ASN* 3.9 1.4 - - - +
197A ALA* 2.9 33.3 + - + +
213A TYR* 5.7 0.2 - - + -
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Residues in contact with LEU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A TYR* 3.5 25.4 - - + -
190A ILE 3.6 13.2 + - - +
191A GLN* 3.3 6.2 + - - +
192A THR 3.3 0.4 - - - -
193A VAL* 1.3 73.5 - - - +
195A LYS* 1.3 61.0 + - - +
197A ALA* 3.9 3.5 - - - +
198A LEU* 2.8 34.2 + - - +
213A TYR* 3.7 28.7 - - + +
216A GLN* 3.4 26.0 - - + -
217A PHE* 3.6 27.1 - - + +
220A LEU* 3.5 31.9 - - + -
236A ILE* 5.1 2.7 - - + -
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Residues in contact with LYS 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191A GLN 3.0 17.4 + - - +
192A THR* 3.6 3.4 - - - +
194A LEU* 1.3 77.1 - - - +
196A ASN* 1.3 65.4 + - - +
198A LEU* 3.9 4.3 - - - +
199A THR* 2.7 33.8 + - - +
232A TYR* 3.2 51.4 - - + -
235A GLU* 3.2 26.3 + - + +
236A ILE* 4.1 23.9 - - + +
239A LEU* 4.0 3.1 - - + +
302A TYR* 3.2 9.5 + - - -
1E LEU 2.9 27.7 + - - -
3E THR* 3.1 22.5 + - - -
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Residues in contact with ASN 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A SER* 3.2 22.2 + - - +
160A LEU* 3.8 18.2 - - + -
192A THR* 2.8 18.3 + - - +
195A LYS* 1.3 80.6 - - - +
197A ALA* 1.3 66.7 + - - +
199A THR* 3.3 4.0 + - - -
200A ILE* 3.1 27.9 + - - +
1E LEU 3.2 9.4 + - - -
2E VAL* 3.1 18.4 - - + +
3E THR* 2.7 48.4 + - - +
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Residues in contact with ALA 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160A LEU* 4.1 12.1 - - + +
165A TYR* 4.6 9.0 - - + -
172A ILE* 4.9 3.4 - - + -
193A VAL 2.9 19.7 + - - +
194A LEU 3.9 1.8 - - - +
196A ASN* 1.3 75.1 - - - +
198A LEU* 1.3 60.4 + - - +
200A ILE* 3.2 6.6 + - - +
201A SER* 2.8 34.9 + - - -
213A TYR* 3.5 37.2 - - + +
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A LEU 2.8 19.9 + - - +
195A LYS 3.9 3.4 - - - +
197A ALA* 1.3 77.2 - - - +
199A THR* 1.3 57.4 + - - +
201A SER* 4.2 3.6 - - - -
202A ILE* 3.0 47.2 + - + +
210A ALA* 3.5 28.5 - - + +
213A TYR* 4.0 11.3 - - + +
214A ILE* 3.7 20.9 - - + -
236A ILE* 3.9 28.7 - - + +
239A LEU* 3.7 29.6 - - + -
240A LYS 4.7 0.2 - - - +
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Residues in contact with THR 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195A LYS 2.7 20.1 + - - -
196A ASN 3.4 8.1 - - - -
197A ALA 3.1 0.4 - - - -
198A LEU* 1.3 75.6 - - - +
200A ILE* 1.3 60.9 + - - +
202A ILE* 3.3 1.4 + - - +
203A MSE 2.9 63.7 + - + +
239A LEU* 3.4 16.1 - - + +
279A GLU* 3.3 9.6 - - - +
1E LEU* 2.9 41.2 + - - +
2E VAL* 4.4 2.5 - - + -
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Residues in contact with ILE 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A LEU* 3.5 45.5 - - + +
165A TYR* 3.9 29.6 - - + +
196A ASN 3.1 14.1 + - - +
197A ALA* 3.8 6.3 - - - +
199A THR* 1.3 77.9 - - - +
201A SER* 1.3 59.3 + - - +
204A ASN* 2.9 48.6 + - - +
206A ASN* 5.5 0.2 - - - +
289A PHE* 3.5 38.8 - - + -
2E VAL* 3.8 9.0 - - + -
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Residues in contact with SER 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A TYR* 4.5 7.3 - - - -
197A ALA 2.8 23.7 + - - -
198A LEU* 3.6 5.4 - - - -
199A THR 3.2 0.2 - - - -
200A ILE* 1.3 78.8 - - - +
202A ILE* 1.3 61.0 + - - +
204A ASN 3.7 0.3 - - - -
205A ARG 3.1 4.0 + - - -
206A ASN* 2.7 40.1 + - - +
209A GLU* 3.6 18.0 - - - +
210A ALA* 3.6 26.9 - - - -
213A TYR* 3.6 11.1 - - - -
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Residues in contact with ILE 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A LEU* 3.0 33.3 + - + +
199A THR* 3.9 3.1 - - - +
201A SER* 1.3 76.3 - - - +
203A MSE 1.3 60.7 + - - +
205A ARG* 2.9 31.6 + - - +
206A ASN 5.0 0.2 - - - +
207A LEU* 5.2 4.9 - - + -
210A ALA* 3.9 11.9 - - + -
239A LEU* 2.9 50.9 - - + +
242A ILE* 3.7 24.2 - - + -
243A TYR* 4.0 13.7 - - + +
246A LEU* 4.4 5.6 - - + +
283A ILE* 3.8 17.5 - - + -
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Residues in contact with MSE 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A THR* 2.9 44.4 + - + +
200A ILE 3.8 3.6 - - - +
201A SER 3.2 0.2 - - - -
202A ILE* 1.3 74.2 - - - +
204A ASN* 1.3 58.8 + - - +
205A ARG* 3.0 20.2 + - - +
279A GLU* 3.5 22.9 - - + +
282A LYS* 4.7 20.4 - - + -
283A ILE* 4.0 19.3 - - + -
286A LYS* 4.9 2.6 - - - +
287A GLU 3.3 25.3 - - - +
288A LYS* 3.9 3.9 - - - +
289A PHE* 3.2 54.5 - - + +
292A PRO* 6.4 0.2 - - + -
2E VAL* 5.0 0.4 - - + -
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Residues in contact with ASN 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A TYR* 4.9 2.2 - - - +
166A GLU* 4.8 11.1 + - - -
200A ILE* 2.9 31.6 + - - +
203A MSE 1.3 73.1 - - - +
205A ARG* 1.3 70.8 + - - +
206A ASN* 3.3 28.0 + - - +
288A LYS* 3.5 23.3 - - + +
289A PHE* 2.7 34.8 + - - +
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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