Contacts of the helix formed by residues 200 - 225 (chain A) in PDB entry 3JCK
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 GLU 200 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198A SER* 4.1 3.8 + - - +
199A GLU* 1.3 79.2 - - - +
201A ILE* 1.3 71.7 + - - +
202A ASN* 3.1 36.7 + - + +
203A SER* 2.1 44.4 + - - +
204A ASP* 3.6 1.4 + - - -
92H ASN* 4.7 6.4 + - - +
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Residues in contact with ILE 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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200A GLU* 1.3 82.4 - - - +
202A ASN* 1.3 66.4 + - - +
203A SER 3.1 0.7 - - - -
204A ASP* 2.8 36.5 + - + +
205A ASN* 2.9 16.8 + - + +
47H GLN* 4.6 16.1 - - + +
91H SER* 4.7 11.4 - - - -
92H ASN* 3.2 43.4 + - - +
93H ASN* 4.7 9.6 - - - +
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Residues in contact with ASN 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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160A ARG* 5.4 1.7 + - - +
200A GLU* 3.1 27.0 + - + +
201A ILE* 1.3 82.8 - - - +
203A SER* 1.3 55.5 - - - +
205A ASN* 4.3 5.3 - - - +
206A GLN* 2.9 35.1 + - - +
47H GLN* 4.5 14.5 + - - +
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Residues in contact with SER 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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191A HIS* 4.1 11.8 + - - -
194A LEU* 6.1 4.5 - - - -
195A ALA* 5.9 10.7 - - - +
198A SER 5.5 2.9 + - - -
199A GLU* 5.4 0.3 - - - -
200A GLU* 2.1 36.1 + - - +
202A ASN* 1.3 76.1 - - - +
204A ASP* 1.3 65.1 + - - +
206A GLN* 3.6 10.1 - - - +
207A ASN* 2.7 36.1 + - - +
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Residues in contact with ASP 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A GLU 4.4 1.1 - - - +
201A ILE* 2.8 28.4 + - + +
203A SER* 1.3 83.3 + - - +
205A ASN* 1.3 55.6 + - - +
207A ASN* 2.6 47.0 + - - +
208A ILE* 2.9 15.6 + - + +
90H PHE 5.6 0.7 - - - +
91H SER* 5.3 2.3 - - - -
92H ASN* 3.1 31.4 + - - +
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Residues in contact with ASN 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 ILE* 2.9 12.1 + - + +
202A ASN* 4.3 3.8 - - - +
204A ASP* 1.3 73.3 - - - +
206A GLN* 1.3 64.4 + - - +
208A ILE* 3.2 14.2 + - - +
209A ILE* 2.9 36.6 + - - +
45H SER* 3.8 16.7 + - - +
47H GLN* 2.9 48.1 + - - +
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Residues in contact with GLN 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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156A VAL* 5.1 11.1 - - - +
160A ARG* 2.8 45.3 + - - +
191A HIS* 3.5 32.5 + - + +
194A LEU* 5.0 8.2 - - - +
202A ASN* 2.9 22.2 + - - +
203A SER* 3.6 7.2 - - - +
205A ASN* 1.3 77.1 - - - +
207A ASN* 1.3 58.8 + - - +
209A ILE* 3.1 16.3 + - - +
210A LEU* 2.9 24.6 + - + +
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Residues in contact with ASN 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A HIS* 3.4 21.7 + - + +
203A SER* 2.7 23.8 + - - +
204A ASP* 2.6 42.5 + - - +
206A GLN* 1.3 70.9 - - - +
208A ILE* 1.3 75.8 + - - +
210A LEU* 3.2 11.7 - - + +
211A ARG* 2.9 32.2 + - - +
240A ASP* 5.1 13.3 + - - +
244A ASN* 5.7 4.9 - - - +
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Residues in contact with ILE 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 ASP* 2.9 39.5 + - + +
205A ASN* 3.4 14.4 - - - +
207A ASN* 1.3 85.9 + - - +
209A ILE* 1.3 68.6 + - + +
211A ARG* 3.9 4.3 - - - +
212A SER* 2.9 29.2 + - - -
45H SER* 6.0 1.8 - - - +
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Residues in contact with ILE 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 ASN* 2.9 32.7 + - - +
206A GLN* 3.2 13.5 - - - +
208A ILE* 1.3 77.0 - - + +
210A LEU* 1.3 65.4 + - - +
212A SER* 3.1 7.3 + - - -
213A THR* 2.9 40.7 + - + +
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Residues in contact with LEU 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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184A TRP* 5.1 4.5 - - + -
187A ILE* 4.8 19.3 - - + -
188A TYR* 4.0 26.5 - - + -
191A HIS* 3.4 35.0 - - + +
206A GLN* 2.9 9.6 + - + +
207A ASN* 3.2 18.4 - - + +
208A ILE 3.2 0.2 - - - -
209A ILE* 1.3 75.6 - - - +
211A ARG* 1.3 66.1 + - + +
213A THR* 2.2 31.2 + - - +
214A MET* 2.9 30.5 + - + +
240A ASP* 5.6 2.7 - - - +
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Residues in contact with ARG 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 ASN 2.9 17.1 + - - +
208A ILE* 4.0 4.5 - - - +
210A LEU* 1.3 74.1 - - + +
212A SER* 1.3 63.3 + - - +
214A MET* 3.2 11.9 + - - +
215A MET* 2.9 52.7 + - + +
237A ILE* 4.5 10.3 - - + -
240A ASP* 2.4 28.9 + - - +
241A PHE* 3.2 41.1 - - + -
244A ASN* 2.4 33.7 + - - -
246A GLU* 3.5 14.3 + - - -
249A SER* 5.0 0.6 + - - -
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Residues in contact with SER 212 (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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208A ILE* 2.9 22.4 + - - -
209A ILE* 3.2 9.2 - - - -
210A LEU 3.1 0.2 - - - -
211A ARG* 1.3 78.5 - - - +
213A THR* 1.3 63.7 + - - +
215A MET* 3.2 16.7 + - - +
216A LYS* 2.9 21.2 + - - +
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Residues in contact with THR 213 (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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184A TRP* 5.3 3.5 - - - -
209A ILE* 2.9 32.2 + - + +
210A LEU* 2.2 33.1 + - - +
212A SER* 1.3 71.8 + - - +
214A MET* 1.3 61.8 + - - +
216A LYS* 2.6 34.0 + - + +
217A PHE* 2.9 31.5 + - - -
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Residues in contact with MET 214 (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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184A TRP* 4.8 8.5 - - + -
188A TYR* 4.6 10.3 - - + -
210A LEU* 2.9 45.0 + - + +
211A ARG* 3.6 4.9 - - - +
213A THR* 1.3 84.0 + - - +
215A MET* 1.3 50.9 + - - +
217A PHE* 3.6 14.4 - - + -
218A LEU* 2.6 36.3 + - - +
233A LEU* 3.1 26.5 - - + +
236A LEU* 3.4 39.0 - - + -
237A ILE* 3.5 30.3 - - + +
240A ASP* 6.2 0.7 - - - -
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Residues in contact with MET 215 (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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211A ARG* 2.9 50.0 + - + +
212A SER* 3.6 15.9 - - - +
214A MET* 1.3 77.5 - - - +
216A LYS* 1.3 67.8 + - - +
218A LEU* 3.2 7.7 - - + +
219A LYS* 2.9 40.0 + - - +
237A ILE* 5.0 7.4 - - + -
241A PHE* 5.3 5.4 - - + -
253A PHE* 4.9 21.3 - - + -
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Residues in contact with LYS 216 (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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212A SER 2.9 12.8 + - - +
213A THR* 2.6 23.4 + - + +
215A MET* 1.3 69.6 - - - +
217A PHE* 1.3 62.9 + - + +
219A LYS* 2.8 23.6 + - - +
220A ILE* 3.0 30.9 + - + +
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Residues in contact with PHE 217 (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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170A TYR* 4.9 5.8 - + - -
171A TYR* 5.0 20.2 - + + -
184A TRP* 3.2 53.8 - + - -
213A THR* 2.9 46.0 + - - -
214A MET* 3.5 12.6 - - - -
216A LYS* 1.3 80.5 - - + +
218A LEU* 1.3 60.3 + - - +
220A ILE* 3.5 27.6 - - + -
221A ALA* 2.9 31.9 + - + +
233A LEU* 3.6 22.8 - - + +
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Residues in contact with LEU 218 (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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214A MET 2.6 25.6 + - - +
215A MET* 3.2 13.2 - - + +
216A LYS 3.1 0.2 - - - -
217A PHE* 1.3 77.3 - - - +
219A LYS* 1.3 67.0 + - + +
221A ALA* 4.3 1.2 - - - +
222A SER* 2.9 32.0 + - - -
230A LYS* 4.3 13.0 - - + +
233A LEU* 3.5 17.9 - - + +
234A ILE* 3.6 31.4 - - + -
237A ILE* 5.0 7.6 - - + -
253A PHE* 3.7 33.2 - - + -
257A LEU* 4.9 4.9 - - + -
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Residues in contact with LYS 219 (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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215A MET* 2.9 37.0 + - + +
216A LYS* 2.8 10.9 + - - +
218A LEU* 1.3 86.4 - - + +
220A ILE* 1.3 65.0 + - + +
222A SER* 2.2 30.9 + - - +
223A LEU* 2.9 16.0 + - + +
253A PHE* 4.6 4.0 - - - -
256A LYS* 3.3 27.4 - - - +
257A LEU* 6.1 0.4 - - - +
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Residues in contact with ILE 220 (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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171A TYR* 6.0 11.4 - - + -
216A LYS* 3.0 35.5 + - + +
217A PHE* 3.5 27.6 - - + -
218A LEU 3.3 0.2 - - - -
219A LYS* 1.3 75.3 - - + +
221A ALA* 1.3 63.8 + - - +
223A LEU* 3.0 13.9 + - - +
224A LYS* 2.9 35.5 + - + +
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Residues in contact with ALA 221 (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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177A ASN* 4.7 13.0 - - - +
217A PHE* 2.9 25.8 + - + +
218A LEU* 4.3 2.0 - - - +
220A ILE* 1.3 75.3 - - - +
222A SER* 1.3 58.6 + - - +
224A LYS* 2.8 26.4 + - + +
225A HIS* 2.8 11.4 + - - -
226A ASP* 3.8 7.7 + - + +
229A THR* 4.6 13.2 - - - +
230A LYS* 3.9 16.2 - - + +
233A LEU* 5.6 2.2 - - + -
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Residues in contact with SER 222 (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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218A LEU* 2.9 20.5 + - - -
219A LYS* 2.2 34.7 + - - +
221A ALA* 1.3 77.4 - - - +
223A LEU* 1.3 66.0 + - - +
225A HIS* 3.5 21.1 + - - -
230A LYS* 3.5 22.5 + - - +
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Residues in contact with LEU 223 (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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219A LYS* 2.9 16.2 + - + +
220A ILE* 3.4 9.2 - - - +
222A SER* 1.3 85.3 + - - +
224A LYS* 1.3 63.2 + - + +
225A HIS* 3.0 27.0 + - + +
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Residues in contact with LYS 224 (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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171A TYR 5.3 9.2 - - - +
172A ASN 5.9 1.8 - - - -
174A ARG* 2.6 68.4 + - - +
177A ASN* 5.3 7.9 - - - +
220A ILE* 3.1 29.4 - - + +
221A ALA* 2.8 13.0 + - - +
223A LEU* 1.3 79.9 - - + +
225A HIS* 1.3 71.9 + - - +
226A ASP* 3.3 3.8 + - + +
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Residues in contact with HIS 225 (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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174A ARG* 5.8 0.4 - - - -
221A ALA 2.8 6.6 + - - -
222A SER 3.5 18.6 + - - -
223A LEU* 3.0 27.9 + - + +
224A LYS* 1.3 80.0 - - - +
226A ASP* 1.3 60.2 + - - +
227A ASN* 3.8 9.9 + - - +
230A LYS* 4.5 10.3 + - - +
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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