Contacts of the helix formed by residues 186 - 211 (chain A) in PDB entry 3PWH
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 VAL 186 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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88A ALA* 6.3 1.8 - - + -
89A GLN* 4.3 7.2 - - - +
92A ILE* 4.4 18.8 - - + +
181A ASN* 3.8 22.0 - - - +
182A PHE* 3.0 24.0 + - + +
184A ALA 3.3 1.0 - - - -
185A CYS* 1.3 86.7 - - + +
187A LEU* 1.3 68.0 + - - +
189A PRO* 3.2 6.4 - - - +
190A LEU* 3.1 45.7 + - + +
242A PHE* 4.8 6.7 - - + -
246A TRP* 5.8 2.0 - - + -
247A LEU* 5.8 0.9 - - + -
250A HIS* 4.4 15.7 - - + +
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Residues in contact with LEU 187 (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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182A PHE* 2.7 37.8 + - + +
183A PHE* 3.2 46.4 - - + +
186A VAL* 1.3 75.0 - - - +
188A VAL* 1.3 64.6 + - + +
190A LEU* 3.3 6.7 + - + +
191A LEU* 3.0 45.7 + - + +
247A LEU* 5.0 9.2 - - + -
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Residues in contact with VAL 188 (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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183A PHE 3.1 17.2 + - - +
184A ALA* 3.3 15.9 - - + +
187A LEU* 1.3 78.0 - - + +
189A PRO* 1.3 70.6 - - + +
191A LEU* 3.0 10.8 + - + +
192A LEU* 2.9 37.2 + - + +
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Residues in contact with PRO 189 (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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89A GLN* 5.8 0.2 - - - +
92A ILE* 3.5 25.8 - - + -
96A LEU* 4.3 11.0 - - + -
184A ALA 3.1 16.8 - - - +
185A CYS* 3.5 22.2 - - - +
186A VAL 3.2 13.2 - - - +
188A VAL* 1.3 91.5 - - + +
190A LEU* 1.3 50.4 + - - +
192A LEU* 2.8 17.8 + - + +
193A MET* 2.7 44.5 + - + +
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Residues in contact with LEU 190 (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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92A ILE* 5.2 1.1 - - + -
95A LEU* 6.2 0.2 - - + -
186A VAL* 3.1 37.9 + - + +
187A LEU* 3.6 9.2 - - + +
189A PRO* 1.3 79.2 - - - +
191A LEU* 1.3 61.7 + - + +
193A MET* 3.5 24.2 - - + +
194A LEU* 2.9 30.9 + - - +
239A ALA* 4.6 7.6 - - + +
242A PHE* 4.4 14.6 - - + -
243A ALA* 3.7 36.8 - - + +
246A TRP* 6.5 0.4 - - + -
247A LEU* 4.5 15.0 - - + -
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Residues in contact with LEU 191 (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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187A LEU* 3.0 49.6 + - + +
188A VAL* 3.0 11.9 + - + +
190A LEU* 1.3 80.7 - - + +
192A LEU* 1.3 60.9 + - + +
194A LEU* 3.9 17.6 - - + +
195A GLY* 3.0 21.8 + - - -
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Residues in contact with LEU 192 (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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96A LEU* 4.5 20.9 - - + -
188A VAL* 2.9 32.3 + - + +
189A PRO* 2.8 14.8 + - + +
191A LEU* 1.3 75.5 - - + +
193A MET* 1.3 59.3 + - - +
195A GLY* 3.0 3.8 + - - -
196A VAL* 2.8 35.6 + - + +
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Residues in contact with MET 193 (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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92A ILE* 4.4 14.1 - - + +
95A LEU* 3.7 22.7 - - + +
96A LEU* 3.6 43.0 - - + +
99A ALA* 4.4 7.4 - - + -
189A PRO* 2.7 22.8 + - + +
190A LEU* 3.5 48.7 - - + +
192A LEU* 1.3 71.3 - - - +
194A LEU* 1.3 63.2 + - - +
196A VAL* 3.1 9.7 + - - +
197A TYR* 3.0 35.2 + - + -
239A ALA* 4.5 11.9 - - + -
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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
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190A LEU 2.9 19.8 + - - +
191A LEU* 3.9 19.3 - - + +
193A MET* 1.3 76.0 - - - +
195A GLY* 1.3 63.2 + - - +
197A TYR* 3.4 9.1 + - + +
198A LEU* 3.0 44.3 + - + +
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Residues in contact with GLY 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 LEU 3.0 13.6 + - - -
192A LEU* 3.0 8.1 + - - -
194A LEU* 1.3 77.2 - - - +
196A VAL* 1.3 61.5 + - - +
198A LEU* 3.2 28.8 - - - +
199A ARG* 3.4 19.0 + - - +
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Residues in contact with VAL 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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96A LEU* 5.3 3.6 - - + -
99A ALA* 3.3 36.3 - - + +
100A ILE* 4.2 17.0 - - + +
103A TYR* 3.9 13.7 - - + -
192A LEU* 2.8 20.4 + - + +
193A MET* 3.1 9.8 + - - +
195A GLY* 1.3 72.9 - - - +
197A TYR* 1.3 59.5 + - - +
198A LEU 2.9 4.0 - - - -
199A ARG* 2.9 25.4 + - - +
200A ILE* 2.9 20.9 + - + +
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Residues in contact with TYR 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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95A LEU 4.7 1.7 + - - -
98A ILE* 4.6 1.4 - - - +
99A ALA* 3.6 34.8 + - + +
102A ARG* 5.6 1.1 - - + -
193A MET* 3.0 29.4 + - + +
194A LEU* 3.9 9.6 - - + +
196A VAL* 1.3 78.9 - - - +
198A LEU* 1.3 62.8 + - - +
200A ILE* 3.8 18.4 - - + -
201A PHE* 3.1 44.8 + + + +
232A ALA* 3.3 22.9 - - - -
235A ALA* 3.2 28.5 + - + +
236A ALA* 3.4 27.1 - - + -
239A ALA* 4.5 15.0 - - + +
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194A LEU* 3.0 38.9 + - + +
195A GLY* 3.2 25.6 - - - +
196A VAL 2.9 0.6 + - - -
197A TYR* 1.3 78.6 - - - +
199A ARG* 1.3 75.8 + - - +
201A PHE* 4.1 1.0 - - - +
202A ALA* 3.0 27.0 + - - +
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Residues in contact with ARG 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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103A TYR* 3.6 27.6 - - + +
195A GLY* 3.4 23.5 + - - +
196A VAL* 2.9 5.6 + - - +
198A LEU* 1.3 98.1 - - - +
200A ILE* 1.3 61.0 + - - +
202A ALA* 3.4 6.6 - - - +
203A ALA* 2.8 34.7 + - + +
206A ARG* 6.1 2.0 - - - +
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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
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99A ALA 3.4 25.8 - - - +
102A ARG* 4.1 7.2 - - + -
103A TYR* 3.4 37.2 - - + +
106A ILE* 3.8 32.3 - - + +
196A VAL* 2.9 20.7 + - + +
197A TYR* 3.8 22.4 - - + +
199A ARG* 1.3 76.2 - - - +
201A PHE* 1.3 73.4 + - + +
203A ALA* 4.0 2.1 - - - +
204A ALA* 2.9 31.1 + - + +
229A VAL* 6.4 0.2 - - + -
232A ALA* 4.1 4.9 - - + -
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Residues in contact with PHE 201 (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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197A TYR* 3.1 52.2 + + + +
198A LEU 4.7 0.9 - - - +
200A ILE* 1.3 90.4 - - + +
202A ALA* 1.3 60.2 + - - +
204A ALA* 4.0 7.2 - - + -
205A ARG* 3.1 61.6 + - - +
229A VAL* 4.2 16.6 - - + -
232A ALA* 3.9 3.8 - - + -
233A LYS* 3.3 49.1 - - + -
236A ALA* 4.5 5.6 - - + -
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Residues in contact with ALA 202 (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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198A LEU 3.0 21.0 + - - +
199A ARG* 3.1 12.2 + - - +
201A PHE* 1.3 80.6 - - - +
203A ALA* 1.3 60.1 + - + +
205A ARG* 3.8 3.6 + - - +
206A ARG* 3.0 44.2 + - - +
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Residues in contact with ALA 203 (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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103A TYR* 6.1 2.9 - - + -
106A ILE* 5.3 4.0 - - + -
107A ALA* 5.9 8.1 - - + -
199A ARG* 2.8 19.3 + - + +
200A ILE* 4.2 1.8 - - - +
202A ALA* 1.3 72.4 - - - +
204A ALA* 1.3 64.9 + - - +
206A ARG* 2.9 25.4 + - + +
207A GLN* 2.9 35.9 + - - +
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Residues in contact with ALA 204 (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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106A ILE* 4.1 13.6 - - + +
200A ILE* 2.9 20.3 + - + +
201A PHE* 4.1 9.0 - - + -
202A ALA 3.3 0.2 - - - -
203A ALA* 1.3 77.3 - - - +
205A ARG* 1.3 67.2 + - - +
207A GLN* 3.3 24.6 + - - +
208A LEU* 3.3 13.2 + - - +
225A LEU* 4.0 3.3 - - - +
229A VAL* 3.8 29.2 - - + -
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Residues in contact with ARG 205 (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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201A PHE* 3.1 58.2 + - - +
202A ALA 3.8 4.8 + - - +
203A ALA 3.2 0.4 - - - -
204A ALA* 1.3 81.4 - - - +
206A ARG* 1.3 63.8 + - - +
207A GLN 3.3 0.2 - - - -
208A LEU* 3.5 22.4 + - + +
209A LYS* 3.1 21.1 + - - +
229A VAL* 5.0 9.6 - - - +
233A LYS* 6.3 0.8 - - - +
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Residues in contact with ARG 206 (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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199A ARG* 6.1 2.0 - - - +
202A ALA* 3.0 37.1 + - - +
203A ALA* 2.9 24.2 + - - +
205A ARG* 1.3 75.6 - - - +
207A GLN* 1.3 59.4 + - - +
209A LYS* 3.0 12.1 + - + +
210A GLN* 2.9 40.9 + - - +
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Residues in contact with GLN 207 (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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106A ILE* 4.3 15.3 + - + +
107A ALA* 4.8 7.5 + - - +
203A ALA* 2.9 30.8 + - - +
204A ALA* 3.3 12.5 + - - +
206A ARG* 1.3 78.0 - - - +
208A LEU* 1.3 56.8 + - - +
210A GLN* 3.0 21.9 + - - +
211A MET* 2.9 40.3 + - + +
225A LEU* 3.4 26.2 - - + -
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Residues in contact with LEU 208 (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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204A ALA 3.3 14.7 + - - +
205A ARG* 3.7 25.1 - - + +
206A ARG 3.3 0.2 - - - -
207A GLN* 1.3 75.8 - - - +
209A LYS* 1.3 60.1 + - - +
211A MET* 3.6 16.0 + - + -
212A GLU* 3.3 22.7 + - - +
222A ARG* 5.0 8.0 + - + +
225A LEU* 3.6 21.8 - - + -
226A GLN* 4.4 29.6 - - + +
229A VAL* 6.1 4.0 - - + -
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Residues in contact with LYS 209 (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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205A ARG 3.1 13.5 + - - +
206A ARG* 3.0 15.4 + - + +
207A GLN 3.0 0.6 - - - -
208A LEU* 1.3 76.9 - - - +
210A GLN* 1.3 63.7 + - + +
212A GLU* 3.3 27.2 + - - +
213A SER* 3.9 8.8 + - - -
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Residues in contact with GLN 210 (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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206A ARG* 2.9 24.4 + - - +
207A GLN* 3.6 22.8 - - - +
209A LYS* 1.3 73.9 - - + +
211A MET* 1.3 59.9 + - + +
212A GLU 3.1 8.3 + - - -
213A SER* 3.6 16.4 + - - +
214A GLN* 4.2 3.6 + - - +
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Residues in contact with MET 211 (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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207A GLN* 2.9 18.7 + - - +
208A LEU* 3.6 22.2 - - + +
209A LYS 3.3 0.2 - - - -
210A GLN* 1.3 78.1 - - + +
212A GLU* 1.3 57.3 + - - +
213A SER 3.5 0.4 - - - -
214A GLN* 2.9 37.8 + - - +
221A ALA* 3.6 31.2 - - - -
222A ARG* 2.8 43.0 + - + +
225A LEU* 3.5 32.1 - - + -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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