Contacts of the helix formed by residues 167 - 198 (chain A) in PDB entry 5IJ7
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 ASN 167 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A ILE* 1.3 74.3 - - - +
168A ASP* 1.3 59.7 + - - +
169A GLU* 3.0 37.1 + - - +
170A ILE* 3.3 28.1 + - - +
171A PHE* 2.9 30.0 + - - +
234A LYS* 3.9 6.5 - - - +
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Residues in contact with ASP 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A ASN* 1.3 73.6 - - - +
169A GLU* 1.4 64.3 + - - +
171A PHE* 4.0 11.6 - - + +
172A VAL* 3.4 27.6 + - + +
234A LYS* 3.6 20.2 + - - +
243A LYS* 4.9 10.9 - - - +
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Residues in contact with GLU 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A LYS* 2.8 27.2 + - - +
33A ARG* 4.9 7.3 + - - -
167A ASN* 3.0 12.0 + - - +
168A ASP* 1.4 76.2 - - - +
170A ILE* 1.4 64.9 + - + +
172A VAL* 3.5 3.9 + - - +
173A GLU* 3.4 33.1 + - - +
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Residues in contact with ILE 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A TYR* 5.0 20.2 - - + +
26A LEU* 4.3 21.1 - - + -
27A ARG* 5.1 14.1 - - + +
30A LYS* 3.8 31.2 - - + -
166A ILE* 4.6 7.9 - - + -
167A ASN* 3.3 34.2 + - - +
169A GLU* 1.4 72.0 - - + +
171A PHE* 1.4 56.4 + - - +
173A GLU* 3.1 17.5 + - - +
174A LEU* 2.8 35.9 + - + +
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Residues in contact with PHE 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A ILE* 4.0 19.1 - - + +
167A ASN 2.9 21.2 + - - +
168A ASP* 4.0 10.5 - - + +
169A GLU 3.4 0.2 - - - -
170A ILE* 1.4 74.6 - - - +
172A VAL* 1.3 69.1 + - + +
174A LEU* 3.4 2.2 + - - +
175A VAL* 3.1 50.8 + - + +
224A PHE* 4.6 1.1 - + - -
227A ILE* 4.1 28.7 - - + -
234A LYS* 4.8 14.1 - - + -
240A LEU* 3.5 43.3 - - + -
243A LYS* 4.2 10.5 - - + -
244A TYR* 3.7 30.7 - + + -
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Residues in contact with VAL 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A ASP 3.4 18.8 + - - +
169A GLU* 3.9 4.0 - - - +
170A ILE 3.3 0.4 - - - -
171A PHE* 1.3 80.6 - - + +
173A GLU* 1.4 66.9 + - + +
175A VAL* 3.3 3.1 + - - +
176A ASN* 3.0 41.0 + - - +
243A LYS 5.8 1.1 - - - +
244A TYR* 4.2 29.2 - - + +
246A GLU 5.1 6.7 - - - +
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Residues in contact with GLU 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 3.9 21.2 - - + +
30A LYS* 3.1 38.9 + - - +
169A GLU* 3.4 25.1 + - - +
170A ILE* 3.1 12.5 + - - +
172A VAL* 1.4 76.4 - - + +
174A LEU* 1.3 56.7 + - - +
176A ASN* 3.4 7.6 + - - +
177A ALA* 2.9 29.1 + - - +
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A VAL* 3.7 20.4 - - + +
22A GLU* 4.0 8.5 - - + -
23A TYR* 3.6 34.5 - - + +
26A LEU* 3.7 11.4 - - + +
166A ILE* 3.8 25.6 - - + -
170A ILE* 2.8 22.0 + - + +
171A PHE 3.6 4.3 - - - +
172A VAL 3.3 0.2 - - - -
173A GLU* 1.3 68.5 - - - +
175A VAL* 1.3 53.2 + - - +
177A ALA* 3.1 3.5 + - - +
178A LEU* 2.8 55.1 + - + +
227A ILE* 4.0 26.2 - - + -
231A PHE* 4.4 3.8 - - + -
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Residues in contact with VAL 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A PHE* 3.1 33.8 + - + +
172A VAL 3.6 5.8 - - - +
174A LEU* 1.3 72.3 - - - +
176A ASN* 1.4 51.1 - - - +
178A LEU* 3.0 7.7 + - - +
179A GLY* 2.8 31.5 + - - -
219A PRO* 6.1 2.9 - - + -
223A ILE* 4.5 11.8 - - + +
224A PHE* 4.2 18.4 - - + -
227A ILE* 3.7 24.5 - - + -
244A TYR* 3.7 36.3 - - + +
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Residues in contact with ASN 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A VAL* 3.0 32.7 + - - +
173A GLU* 3.7 7.2 - - - +
175A VAL* 1.4 74.2 - - - +
177A ALA* 1.4 57.1 + - - +
179A GLY* 3.3 3.3 + - - +
180A GLN* 3.0 27.8 + - - +
195A ARG* 4.9 2.4 + - - -
244A TYR* 3.1 29.8 + - - -
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Residues in contact with ALA 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLU* 4.0 15.0 - - + +
25A ARG* 4.4 8.1 - - - +
26A LEU* 4.3 15.5 - - + -
173A GLU 2.9 18.2 + - - +
174A LEU* 3.5 5.4 - - - +
176A ASN* 1.4 74.5 - - - +
178A LEU* 1.4 60.8 + - - +
180A GLN* 3.0 44.8 + - - +
193A LEU* 3.2 11.4 + - - +
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Residues in contact with LEU 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A TRP* 3.5 24.9 - - + -
18A ARG* 3.9 12.6 - - + +
19A VAL* 3.7 47.1 - - + +
22A GLU* 4.4 8.1 - - + -
174A LEU* 2.8 38.5 + - + +
175A VAL 3.5 5.8 - - - +
177A ALA* 1.4 74.8 - - - +
179A GLY* 1.3 57.4 + - - +
193A LEU* 3.3 5.0 + - + +
194A ASP* 2.9 27.7 + - - +
223A ILE* 3.6 30.3 - - + -
227A ILE* 3.8 7.6 - - + -
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Residues in contact with GLY 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A VAL 2.8 13.2 + - - -
176A ASN* 3.3 5.8 + - - -
178A LEU* 1.3 74.9 - - - +
180A GLN* 1.4 57.7 + - - +
194A ASP* 3.5 5.2 - - - +
195A ARG* 3.0 40.4 + - - +
219A PRO 6.1 3.1 - - - -
223A ILE* 3.8 11.4 - - - +
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Residues in contact with GLN 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLU* 3.3 19.4 - - - +
25A ARG* 4.7 7.1 + - - +
176A ASN 3.0 10.0 + - - +
177A ALA* 3.0 32.1 + - - +
179A GLY* 1.4 75.7 - - - +
193A LEU* 1.4 62.3 - - + +
195A ARG* 3.6 26.0 + - - +
196A ARG* 3.1 36.8 + - - +
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Residues in contact with LEU 193 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A TRP* 4.6 2.2 - - + -
18A ARG* 3.7 49.4 + - + +
22A GLU* 3.4 28.5 - - + +
177A ALA 3.2 24.5 + - - +
178A LEU* 3.3 11.0 + - + +
180A GLN* 1.4 91.6 - - + +
194A ASP* 1.4 59.7 + - - +
196A ARG* 3.5 17.4 + - - +
197A ASP* 3.0 32.6 + - - +
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Residues in contact with ASP 194 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A TRP* 3.7 13.9 - - + -
178A LEU 2.9 17.7 + - - +
179A GLY* 3.5 7.8 - - - +
180A GLN 3.4 0.2 - - - -
193A LEU* 1.4 75.7 - - - +
195A ARG* 1.4 55.7 + - - +
197A ASP* 3.2 18.0 - - - +
198A GLU* 3.0 21.3 - - - +
219A PRO 5.6 0.9 - - - -
220A SER* 3.3 25.1 + - - -
222A LYS* 3.4 30.2 + - - -
223A ILE* 3.9 8.6 - - + +
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Residues in contact with ARG 195 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ASN 4.9 2.4 + - - -
179A GLY* 3.0 28.0 + - - +
180A GLN* 3.6 32.2 + - - +
194A ASP* 1.4 72.0 - - - +
196A ARG* 1.4 63.2 + - - +
197A ASP 3.2 2.3 + - - -
198A GLU* 3.3 28.0 + - - +
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Residues in contact with ARG 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A GLN* 3.1 25.2 + - - +
193A LEU* 3.5 17.5 + - - +
195A ARG* 1.4 74.5 - - - +
197A ASP* 1.4 61.1 + - - +
198A GLU 3.3 1.3 + - - +
199A LYS 3.5 15.1 - - - +
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Residues in contact with ASP 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A GLU 5.9 4.3 - - - +
10A LYS* 3.4 28.6 + - - +
15A TRP* 3.8 11.1 - - - -
18A ARG* 2.8 45.8 + - - -
193A LEU 3.0 11.1 + - - +
194A ASP* 3.2 17.2 - - - +
195A ARG 3.2 0.2 - - - -
196A ARG* 1.4 73.7 - - - +
198A GLU* 1.4 58.9 + - + +
199A LYS* 3.0 13.0 + - - +
222A LYS* 4.2 6.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 198 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A ASP* 3.0 27.6 - - - +
195A ARG* 3.3 21.7 + - - +
196A ARG 4.0 2.8 - - - +
197A ASP* 1.4 73.1 - - + +
199A LYS* 1.4 70.4 + - - +
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Residues in contact with LYS 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A ARG 3.5 13.2 - - - +
197A ASP 3.0 9.6 + - - -
198A GLU* 1.4 78.9 - - - +
----------------------------------------------------------
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Residues in contact with PRO 219 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A VAL* 6.1 2.9 - - + -
179A GLY* 6.1 3.0 - - - -
194A ASP* 5.6 0.8 - - - -
220A SER* 1.4 67.2 + - - +
221A ASP* 3.7 3.1 + - - +
223A ILE* 5.8 1.8 - - - -
224A PHE* 3.2 26.0 - - + -
241A LYS* 5.1 5.9 - - - -
244A TYR* 5.4 11.8 - - + -
----------------------------------------------------------
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Residues in contact with SER 220 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A ASP* 3.3 25.6 + - - -
219A PRO* 1.4 74.7 - - - +
221A ASP* 1.4 64.7 + - - +
222A LYS* 3.3 26.0 + - - +
223A ILE* 3.2 27.4 + - - +
224A PHE* 3.2 15.6 - - - -
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Residues in contact with ASP 221 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A PRO 3.7 2.0 + - - +
220A SER* 1.4 67.9 + - - +
222A LYS* 1.3 56.3 + - - +
223A ILE 3.0 10.5 + - - -
224A PHE* 3.2 11.3 + - - +
225A GLU* 3.1 33.5 + - - +
237A ALA* 5.5 0.7 - - - +
241A LYS* 2.8 36.8 + - + +
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Residues in contact with LYS 222 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A GLU* 3.5 18.4 - - + +
10A LYS 3.3 32.3 - - - +
15A TRP* 3.5 55.3 - - + +
194A ASP* 3.4 25.8 + - - -
197A ASP* 4.2 5.5 + - - +
220A SER* 3.3 19.5 + - - +
221A ASP* 1.3 75.6 - - - +
223A ILE* 1.3 57.0 + - + +
225A GLU* 3.6 26.3 + - - +
226A ALA* 3.8 1.7 - - - +
----------------------------------------------------------
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Residues in contact with ILE 223 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A TRP* 3.7 21.3 - - + -
175A VAL* 4.5 15.0 - - + +
178A LEU* 3.6 56.8 - - + +
179A GLY* 3.8 6.3 - - - +
194A ASP* 3.9 22.4 - - + +
219A PRO 5.8 1.6 - - - -
220A SER* 3.2 21.7 + - - +
221A ASP 3.0 0.6 - - - -
222A LYS* 1.3 76.9 - - - +
224A PHE* 1.3 62.0 + - + +
225A GLU 3.3 0.9 - - - -
226A ALA* 3.2 7.4 + - - +
227A ILE* 3.0 36.5 + - + +
----------------------------------------------------------
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Residues in contact with PHE 224 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A PHE* 4.6 5.4 - + - -
175A VAL* 4.2 17.3 - - + -
219A PRO* 3.2 31.2 - - + -
220A SER 3.2 22.2 - - - -
221A ASP* 3.2 7.7 + - - +
223A ILE* 1.3 79.8 - - + +
225A GLU* 1.4 55.5 + - - +
227A ILE* 3.3 7.1 + - + -
228A SER* 3.0 30.3 + - - -
237A ALA* 3.6 20.6 - - + +
240A LEU* 3.4 45.4 - - + +
241A LYS* 3.6 23.6 - - + -
244A TYR* 3.7 32.5 - + + -
----------------------------------------------------------
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Residues in contact with GLU 225 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A PRO* 4.4 22.4 - - + +
221A ASP* 3.1 25.1 + - - +
222A LYS* 3.6 25.0 - - - +
224A PHE* 1.4 74.6 - - - +
226A ALA* 1.3 56.3 + - + +
228A SER* 3.9 2.5 - - - -
229A SER* 2.8 36.4 + - - -
237A ALA* 4.0 18.5 - - + +
----------------------------------------------------------
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Residues in contact with ALA 226 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A PRO 5.3 0.4 - - - +
15A TRP* 3.7 31.0 - - + -
16A ARG* 4.1 5.6 - - + +
19A VAL* 3.5 23.3 - - + -
222A LYS 3.8 4.7 - - - +
223A ILE* 3.2 9.7 + - - +
225A GLU* 1.3 79.5 - - + +
227A ILE* 1.4 63.1 + - - +
229A SER* 3.3 6.1 + - - -
230A MET* 3.2 28.8 + - - +
----------------------------------------------------------
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Residues in contact with ILE 227 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A VAL* 4.2 6.5 - - + -
166A ILE* 4.9 1.8 - - + -
171A PHE* 4.1 17.0 - - + -
174A LEU* 4.0 17.5 - - + -
175A VAL* 3.7 30.7 - - + -
178A LEU* 3.8 26.9 - - + -
223A ILE* 3.0 28.9 + - + +
224A PHE* 3.3 5.1 + - + +
226A ALA* 1.4 75.6 - - - +
228A SER* 1.4 57.6 + - - +
230A MET 3.2 1.6 + - - -
231A PHE* 2.8 47.7 + - + +
234A LYS* 6.0 1.1 - - + -
240A LEU* 3.8 16.8 - - + -
----------------------------------------------------------
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Residues in contact with SER 228 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A PHE 3.0 17.5 + - - -
225A GLU 4.0 4.3 - - - -
227A ILE* 1.4 74.1 - - - +
229A SER* 1.3 57.8 + - - +
231A PHE 4.2 2.5 - - - -
232A PRO* 3.1 28.2 - - - +
235A GLY 2.7 26.2 + - - -
236A THR* 3.4 9.7 + - - -
237A ALA* 3.6 16.7 + - - -
240A LEU* 3.4 10.4 - - - +
----------------------------------------------------------
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Residues in contact with SER 229 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A ARG* 3.6 31.4 + - - +
225A GLU 2.8 22.6 + - - -
226A ALA* 3.5 6.5 - - - -
227A ILE 3.2 0.6 - - - -
228A SER* 1.3 75.9 - - - +
230A MET* 1.3 67.8 + - - +
232A PRO* 3.8 9.1 - - - +
----------------------------------------------------------
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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