Contacts of the helix formed by residues 184 - 216 (chain A) in PDB entry 1RKC
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 HIS 184 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 3.6 2.6 - - - +
183A THR* 1.3 87.7 + - - +
185A GLN* 1.3 66.6 + - - +
186A GLU* 3.3 5.6 + - + +
187A HIS* 3.7 39.2 + + + +
188A ARG* 3.6 23.8 + - - +
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Residues in contact with GLN 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A THR 3.7 3.2 + - - -
184A HIS* 1.3 75.9 + - - +
186A GLU* 1.3 88.3 + - + +
188A ARG* 3.2 31.9 - - - +
189A VAL* 3.0 44.3 + - + +
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Residues in contact with GLU 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A HIS* 3.2 4.0 - - + +
185A GLN* 1.3 99.0 - - + +
187A HIS* 1.3 74.8 + - + +
189A VAL* 3.7 15.5 - - - +
190A MET* 3.2 29.5 + - - +
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Residues in contact with HIS 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 4.5 21.0 - - + +
184A HIS* 3.7 37.0 + + + +
185A GLN 3.5 0.2 - - - -
186A GLU* 1.3 77.9 - - + +
188A ARG* 1.3 68.6 + - - +
190A MET* 2.8 30.1 + - - +
191A LEU* 3.0 18.0 + - - +
247A VAL* 4.9 9.6 - - + -
250A LEU* 4.6 20.6 - - + +
251A THR* 4.1 22.8 + - + +
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Residues in contact with ARG 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A ARG* 4.2 10.8 - - - +
179A GLN* 3.4 44.1 + - - +
182A LEU* 3.8 27.8 + - + +
183A THR 5.7 0.2 + - - -
184A HIS 3.6 8.8 + - - +
185A GLN* 3.2 42.7 - - - +
187A HIS* 1.3 77.7 - - - +
189A VAL* 1.3 65.0 + - - +
191A LEU* 4.6 3.6 - - - -
192A VAL* 3.0 33.2 + - + +
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Residues in contact with VAL 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A GLN* 3.0 40.3 + - + +
186A GLU* 3.7 16.8 - - - +
187A HIS 3.2 0.4 - - - -
188A ARG* 1.3 81.6 - - + +
190A MET* 1.3 59.6 + - + +
192A VAL* 4.7 2.5 - - - -
193A ASN* 2.9 51.0 + - - +
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Residues in contact with MET 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A GLU* 3.2 23.3 + - - +
187A HIS* 2.8 20.5 + - - +
189A VAL* 1.3 79.9 - - + +
191A LEU* 1.3 64.8 + - - +
193A ASN* 4.1 3.0 - - - +
194A SER* 3.0 31.5 + - - -
243A GLU* 3.9 31.0 - - - +
247A VAL* 4.2 21.1 - - + -
250A LEU* 6.5 1.3 - - + -
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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
----------------------------------------------------------
175A ILE* 3.9 17.1 - - + +
178A ARG* 4.7 9.2 - - + -
179A GLN* 4.2 17.0 - - + +
182A LEU* 3.3 30.7 - - + -
187A HIS 3.0 11.0 + - - +
188A ARG 3.9 5.2 - - - +
190A MET* 1.3 75.2 - - - +
192A VAL* 1.3 58.6 + - - +
194A SER* 4.0 0.9 - - - -
195A MET* 2.9 33.6 + - - +
244A ILE* 4.1 31.7 - - + +
247A VAL* 2.9 35.7 - - + -
248A LEU* 4.5 11.9 - - + -
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Residues in contact with VAL 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ILE* 5.3 1.3 - - + -
179A GLN* 3.6 37.9 - - + +
188A ARG* 3.0 20.4 + - + +
189A VAL* 4.1 3.4 - - - +
191A LEU* 1.3 80.3 - - - +
193A ASN* 1.3 65.8 + - - +
195A MET* 3.9 4.8 - - - +
196A ASN* 2.8 35.4 + - + +
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Residues in contact with ASN 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A VAL* 2.9 47.9 + - - +
190A MET* 4.1 3.3 - - - +
192A VAL* 1.3 83.6 - - - +
194A SER* 1.3 52.0 + - - +
196A ASN* 3.4 6.3 + - - +
197A THR* 2.5 35.9 + - - +
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Residues in contact with SER 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A MET 3.0 17.6 + - - -
193A ASN* 1.3 73.3 - - - +
195A MET* 1.3 66.6 + - - +
197A THR* 3.0 12.9 + - - -
198A VAL* 3.1 18.2 + - - +
240A GLU* 3.1 25.7 + - - -
243A GLU* 3.1 23.7 + - - +
244A ILE* 3.6 25.4 - - - -
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Residues in contact with MET 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A MET* 5.0 7.6 - - + +
171A MET* 3.4 28.7 - - + -
172A ALA* 3.9 31.6 - - + +
175A ILE* 3.7 26.5 - - + -
191A LEU 2.9 19.7 + - - +
192A VAL* 3.9 4.3 - - - +
194A SER* 1.3 74.6 - - - +
196A ASN* 1.3 62.7 + - - +
198A VAL* 3.8 23.3 - - + -
199A LYS* 3.1 34.4 + - + +
244A ILE* 3.7 5.4 - - + +
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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
----------------------------------------------------------
192A VAL* 2.8 25.0 + - + +
193A ASN* 3.6 8.1 - - - +
194A SER 3.1 0.2 - - - -
195A MET* 1.3 78.5 - - - +
197A THR* 1.3 60.2 + - - +
199A LYS* 3.4 22.2 + - - +
200A GLU* 2.7 52.3 + - - -
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Residues in contact with THR 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A ASN* 2.5 23.7 + - - +
194A SER* 3.0 6.7 + - - -
196A ASN* 1.3 76.5 - - - +
198A VAL* 1.3 57.6 + - - +
200A GLU* 3.5 11.5 + - + +
201A LEU* 3.1 41.1 + - + +
240A GLU* 3.9 24.3 + - - +
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Residues in contact with VAL 198 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A MET* 3.7 26.2 - - + -
171A MET* 4.7 2.2 - - + -
194A SER 3.1 11.8 + - - +
195A MET* 3.8 20.0 - - + +
197A THR* 1.3 74.3 - - - +
199A LYS* 1.3 64.9 + - - +
200A GLU 3.1 1.3 - - - -
201A LEU* 4.4 4.9 - - - +
202A LEU* 3.2 22.5 + - - +
237A MET* 3.8 21.0 - - + +
240A GLU* 3.1 35.9 - - + -
241A ILE* 4.1 16.2 - - + +
244A ILE* 4.8 3.8 - - + -
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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
----------------------------------------------------------
168A MET* 6.0 2.9 - - + -
172A ALA* 4.4 17.2 - - + +
195A MET* 3.1 37.4 + - + +
196A ASN* 3.6 26.2 + - - +
198A VAL* 1.3 78.4 - - - +
200A GLU* 1.3 59.8 + - + +
202A LEU* 3.8 6.2 - - + +
203A PRO* 3.3 23.9 - - - +
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Residues in contact with GLU 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A ASN* 2.7 40.9 + - - +
197A THR* 3.5 13.5 + - + +
198A VAL 3.1 0.4 - - - -
199A LYS* 1.3 82.8 - - + +
201A LEU* 1.3 61.5 + - + +
202A LEU 3.4 0.2 - - - -
203A PRO* 4.2 5.4 - - - +
204A VAL* 3.1 19.2 - - - +
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Residues in contact with LEU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A THR* 3.1 32.7 + - + +
198A VAL 3.5 0.4 + - - +
199A LYS 3.4 0.2 - - - -
200A GLU* 1.3 81.6 - - + +
202A LEU* 1.3 59.6 + - - +
203A PRO 3.4 1.1 - - - -
204A VAL* 2.9 15.7 + - + +
205A LEU* 2.8 29.6 + - - +
233A THR* 3.6 10.1 - - + +
236A LYS* 3.7 47.8 - - + +
237A MET* 3.5 35.9 - - + +
240A GLU* 5.0 1.6 - - + -
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Residues in contact with LEU 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A LEU* 3.6 30.7 - - + -
165A GLY* 4.9 9.6 - - - +
168A MET* 3.6 38.8 - - + -
198A VAL 3.2 16.7 + - - +
199A LYS* 3.8 7.0 - - + +
201A LEU* 1.3 76.2 - - - +
203A PRO* 1.3 72.7 - - + +
205A LEU* 3.2 15.0 + - + +
206A ILE* 3.1 35.6 + - + +
237A MET* 4.1 6.0 - - - -
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Residues in contact with PRO 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A LYS 3.3 15.0 - - - +
200A GLU* 4.2 4.3 - - - +
201A LEU 3.8 0.7 - - - -
202A LEU* 1.3 100.3 - - + +
204A VAL* 1.3 63.4 + - + +
205A LEU 3.2 0.2 - - - -
206A ILE* 4.0 8.1 - - + +
207A SER* 3.2 25.5 + - - -
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Residues in contact with VAL 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A GLU 3.1 25.4 - - - +
201A LEU* 2.9 21.3 + - + +
203A PRO* 1.3 78.5 - - + +
205A LEU* 1.3 60.8 + - - +
207A SER* 2.7 21.9 + - - +
208A ALA* 3.5 10.4 + - - +
233A THR* 4.3 15.8 + - + +
236A LYS* 5.9 1.6 - - - +
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Residues in contact with LEU 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A LEU* 4.0 26.5 - - + -
148A ALA* 4.7 2.5 - - + -
160A TYR* 4.3 8.7 - - + +
164A LEU* 4.4 7.9 - - + -
201A LEU 2.8 10.7 + - - +
202A LEU* 3.2 13.5 - - + +
204A VAL* 1.3 77.6 - - - +
206A ILE* 1.3 62.8 + - + +
207A SER 3.4 0.2 + - - -
208A ALA* 3.4 6.2 + - - +
209A MET* 3.2 55.6 + - + +
230A ARG* 4.1 13.2 - - + +
233A THR* 3.7 15.0 - - + +
234A VAL* 3.7 28.5 - - + -
237A MET* 4.2 6.3 - - - -
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Residues in contact with ILE 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 4.1 11.3 - - + +
160A TYR* 4.5 8.7 - - + -
161A THR* 3.9 38.4 - - + +
164A LEU* 4.8 2.7 - - + -
202A LEU* 3.1 35.0 + - + +
203A PRO* 4.2 7.0 - - + +
205A LEU* 1.3 75.2 - - + +
207A SER* 1.3 65.1 + - - +
209A MET* 3.4 24.1 + - + +
210A LYS* 3.0 22.7 + - + +
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Residues in contact with SER 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A PRO 3.2 17.5 + - - -
204A VAL* 2.7 21.1 + - - +
206A ILE* 1.3 76.3 - - - +
208A ALA* 1.3 64.4 + - - +
210A LYS* 2.9 26.8 + - - +
211A ILE* 3.0 20.2 + - - +
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Residues in contact with ALA 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A VAL 3.7 9.2 - - - +
205A LEU* 3.4 9.3 + - - +
207A SER* 1.3 77.0 + - - +
209A MET* 1.3 60.8 + - - +
211A ILE* 3.7 12.1 + - - -
212A PHE* 3.1 24.9 + - - +
226A ALA* 3.8 26.0 - - - +
229A ASN* 4.4 11.7 - - + +
230A ARG* 4.2 16.1 - - - +
233A THR* 5.6 0.7 - - - +
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Residues in contact with MET 209 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ALA* 3.8 22.2 - - - +
151A VAL* 4.8 9.9 - - + +
157A LEU* 3.9 16.6 - - + -
160A TYR* 3.1 42.6 - - + -
205A LEU* 3.2 42.3 + - + +
206A ILE* 3.7 21.8 - - + +
207A SER 3.1 0.8 - - - -
208A ALA* 1.3 75.6 - - - +
210A LYS* 1.3 52.3 + - - +
212A PHE* 2.8 11.5 + - + +
213A VAL* 2.5 38.6 + - - +
230A ARG* 3.6 21.1 - - + -
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Residues in contact with LYS 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A MET* 3.6 26.7 - - + -
157A LEU* 3.5 16.9 - - + +
206A ILE* 3.0 12.7 + - + +
207A SER* 2.9 12.1 + - - +
209A MET* 1.3 74.3 - - - +
211A ILE* 1.3 60.3 + - + +
213A VAL* 3.7 1.5 - - - +
214A THR* 2.3 49.0 + - - +
----------------------------------------------------------
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Residues in contact with ILE 211 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A SER* 3.0 18.7 + - - +
208A ALA* 3.9 11.9 - - - +
209A MET 3.3 0.2 - - - -
210A LYS* 1.3 79.4 - - + +
212A PHE* 1.3 56.7 + - - +
214A THR* 3.9 4.0 - - - -
215A THR* 2.7 51.2 + - + +
222A GLY 5.1 3.1 - - - +
226A ALA* 3.5 21.1 - - + -
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Residues in contact with PHE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A VAL* 3.1 28.9 - - + -
152A GLU* 3.6 29.4 - - - -
208A ALA 3.1 15.3 + - - +
209A MET* 2.8 13.7 + - + +
211A ILE* 1.3 78.3 - - - +
213A VAL* 1.3 60.8 + - + +
214A THR 3.1 6.4 + - - -
215A THR* 4.9 0.7 - - - -
216A LYS* 3.1 52.8 + - + +
223A ILE* 3.8 19.4 - - + +
226A ALA* 4.0 12.8 - - + -
227A LEU* 3.5 39.9 - - + -
230A ARG* 3.9 13.9 - - + +
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Residues in contact with VAL 213 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A VAL* 4.0 16.2 - - + +
152A GLU* 3.4 14.0 - - - +
153A THR* 3.1 39.7 - - - +
154A MET* 3.0 53.2 + - + +
157A LEU* 3.7 8.7 - - + -
209A MET 2.5 19.3 + - - +
210A LYS 4.2 0.4 - - - +
212A PHE* 1.3 72.3 - - + +
214A THR* 1.3 56.3 + - - +
216A LYS* 4.4 2.0 - - - +
217A ASN* 3.1 15.8 - - - +
----------------------------------------------------------
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Residues in contact with THR 214 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A MET* 2.9 38.6 - - + -
210A LYS* 2.3 39.9 + - - +
211A ILE* 3.9 3.3 - - - -
213A VAL* 1.3 75.0 - - - +
215A THR* 1.3 59.3 + - - +
216A LYS 2.9 6.1 - - - -
217A ASN* 3.2 30.8 + - - +
218A SER* 3.9 5.4 + - - -
----------------------------------------------------------
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Residues in contact with THR 215 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A ILE* 2.7 33.2 + - + +
214A THR* 1.3 75.4 + - - +
216A LYS* 1.3 55.0 + - - +
217A ASN 3.1 7.0 + - - -
218A SER* 3.4 5.1 + - - +
221A GLN* 3.0 49.1 - - + +
222A GLY 3.9 6.3 - - - +
223A ILE* 3.6 31.4 - - + +
----------------------------------------------------------
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Residues in contact with LYS 216 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A GLU* 3.1 48.5 + - - +
212A PHE* 3.1 42.7 + - + +
213A VAL 4.4 2.2 - - - +
214A THR 2.9 0.2 - - - -
215A THR* 1.3 76.5 - - - +
217A ASN* 1.3 74.5 + - - +
218A SER 5.5 0.2 - - - -
223A ILE* 3.6 14.4 - - + -
----------------------------------------------------------
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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