Contacts of the helix formed by residues 222 - 254 (chain N) in PDB entry 2QJK
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 LYS 222 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84M MET 4.2 11.9 - - - +
85M ARG 3.8 16.4 + - - +
91M PHE* 3.1 46.2 - - + -
52N GLU* 2.9 37.6 + - - +
53N PRO* 5.6 3.9 + - - +
220N GLU* 3.2 8.1 - - - +
221N PRO* 1.3 91.3 - - + +
223N LEU* 1.3 62.7 + - - +
224N MET 3.6 0.9 - - - -
225N ALA* 3.5 11.0 - - + +
226N ARG* 3.0 23.8 + - - +
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Residues in contact with LEU 223 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13N PHE* 4.4 17.3 - - + +
18N GLY 5.1 2.7 - - - +
20N PHE* 3.7 29.6 - - + -
216N MET* 4.4 21.8 - - + -
220N GLU* 3.0 19.1 + - + +
221N PRO 3.1 2.8 + - - -
222N LYS* 1.3 73.0 - - - +
224N MET* 1.3 64.8 + - + +
226N ARG* 2.7 52.0 + - - +
227N LYS* 2.9 48.8 + - + +
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Residues in contact with MET 224 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18N GLY 4.7 2.2 - - - +
19N THR* 3.4 42.0 - - + -
20N PHE* 3.6 32.5 - - + +
54N GLY* 3.8 33.7 - - - +
221N PRO 4.7 1.8 + - - +
223N LEU* 1.3 82.7 - - + +
225N ALA* 1.3 66.1 + - - +
227N LYS* 3.1 5.8 + - - +
228N GLN* 2.9 46.2 + - - +
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Residues in contact with ALA 225 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91M PHE* 3.9 20.4 - - + -
221N PRO 5.6 0.2 + - - -
222N LYS* 3.5 18.5 + - + +
223N LEU 3.1 0.4 - - - -
224N MET* 1.3 78.3 - - - +
226N ARG* 1.3 54.7 + - - +
228N GLN* 3.1 13.4 + - - +
229N ALA* 2.8 34.8 + - - +
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Residues in contact with ARG 226 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91M PHE* 3.6 14.3 - - + -
92M MET* 3.4 23.8 - - + +
95M TYR* 3.5 27.0 - - - -
267M VAL 4.1 3.6 - - - +
268M GLY* 3.1 26.1 + - - +
269M PHE 4.1 8.3 + - - -
271M PRO* 3.9 19.6 - - - +
272M ASN* 5.2 1.0 - - - +
431M BGL 5.7 0.2 + - - -
220N GLU* 2.2 41.1 + - - +
222N LYS 3.0 11.3 + - - +
223N LEU* 2.7 45.4 + - - +
225N ALA* 1.3 75.2 - - - +
227N LYS* 1.3 60.6 + - - +
229N ALA* 3.1 6.6 - - - +
230N GLY* 3.0 21.3 + - - -
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Residues in contact with LYS 227 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268M GLY 4.4 8.5 - - - +
269M PHE* 4.0 18.5 - - + -
431M BGL 3.3 21.7 + - - -
13N PHE 2.5 26.7 + - - -
14N GLU* 3.9 0.6 - - - +
15N GLY 2.4 31.9 + - - +
16N PRO 3.7 17.9 - - - +
18N GLY 3.7 14.6 + - - +
223N LEU* 2.9 33.3 + - + +
224N MET* 3.1 6.9 + - - +
226N ARG* 1.3 78.9 - - - +
228N GLN* 1.3 60.4 + - + +
230N GLY* 2.6 25.5 + - - +
231N PHE* 3.1 15.5 + - + -
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Residues in contact with GLN 228 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19N THR* 5.8 1.3 - - + +
224N MET* 2.9 45.5 + - - +
225N ALA* 3.5 10.8 - - - +
227N LYS* 1.3 76.1 - - + +
229N ALA* 1.3 64.0 + - - +
230N GLY 3.0 0.9 + - - -
231N PHE* 3.4 18.8 + - + +
232N THR* 3.1 25.3 + - - -
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Residues in contact with ALA 229 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91M PHE* 5.3 3.4 - - + -
92M MET* 4.3 19.3 - - + -
225N ALA 2.8 13.0 + - - +
226N ARG* 3.1 14.8 - - - +
228N GLN* 1.3 76.1 - - - +
230N GLY* 1.3 66.9 + - - +
232N THR* 3.2 8.2 - - - +
233N ALA* 3.0 20.9 + - - +
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Residues in contact with GLY 230 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264M PHE 5.4 1.8 - - - -
268M GLY* 4.5 12.1 - - - -
269M PHE* 4.2 11.7 - - - -
226N ARG 3.0 10.7 + - - -
227N LYS 2.6 17.2 + - - -
229N ALA* 1.3 67.5 - - - +
231N PHE* 1.3 68.9 + - - +
233N ALA* 2.8 19.0 + - - +
234N VAL* 2.9 17.3 + - - +
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Residues in contact with PHE 231 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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269M PHE* 3.8 15.0 - + - -
16N PRO* 2.7 32.8 - - + -
17N PHE* 3.2 44.4 - + - -
227N LYS* 3.1 24.2 + - + -
228N GLN* 3.4 20.6 + - + +
230N GLY* 1.3 69.1 - - - +
232N THR* 1.3 65.8 + - - +
234N VAL* 2.9 9.3 + - - +
235N MET* 2.7 35.0 + - + +
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Residues in contact with THR 232 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228N GLN 3.1 12.2 + - - -
229N ALA* 3.2 13.0 - - - -
230N GLY 2.9 0.2 + - - -
231N PHE* 1.3 76.7 - - - +
233N ALA* 1.3 66.0 + - - +
235N MET* 2.8 20.6 + - - +
236N PHE* 3.0 40.0 + - + -
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Residues in contact with ALA 233 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264M PHE* 3.8 39.3 - - + -
229N ALA 3.0 8.8 + - - +
230N GLY* 2.8 14.1 + - - +
232N THR* 1.3 77.7 - - - +
234N VAL* 1.3 62.4 + - - +
236N PHE* 3.6 10.0 + - - +
237N LEU* 2.9 33.0 + - + +
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Residues in contact with VAL 234 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261M LEU* 3.5 21.5 - - + +
264M PHE* 5.4 0.7 - - + -
265M ALA* 4.6 17.5 - - + +
269M PHE* 4.1 18.4 - - + -
431M BGL 4.7 16.6 - - + -
230N GLY* 3.3 18.4 - - - +
231N PHE* 2.9 8.9 + - - +
233N ALA* 1.3 78.8 - - + +
235N MET* 1.3 62.0 + - + +
237N LEU* 3.4 1.3 - - - +
238N THR* 2.5 52.7 + - - +
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Residues in contact with MET 235 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231N PHE* 2.7 29.0 + - + +
232N THR* 2.8 10.8 + - - +
234N VAL* 1.3 89.3 - - + +
236N PHE* 1.3 71.7 + - + +
238N THR* 3.7 12.8 - - + +
239N VAL* 2.9 28.1 + - + +
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Residues in contact with PHE 236 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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232N THR* 3.0 35.6 + - + -
233N ALA* 3.8 11.7 - - - +
235N MET* 1.3 79.4 - - + +
237N LEU* 1.3 58.4 + - + +
239N VAL* 3.3 4.6 - - - +
240N LEU* 2.6 40.5 + - + +
22O ALA* 5.6 2.6 - - + +
25O VAL* 3.8 31.2 - - + -
26O ALA* 4.4 20.4 - - + -
29O ALA* 3.7 28.0 - - + -
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Residues in contact with LEU 237 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257M ALA* 4.0 22.7 - - + +
260M LEU* 4.2 11.9 - - + +
261M LEU* 4.1 26.7 - - + -
264M PHE* 3.7 32.5 - - + -
233N ALA* 2.9 24.4 + - + +
234N VAL 3.6 2.2 - - - +
235N MET 3.1 0.4 - - - -
236N PHE* 1.3 82.4 - - + +
238N THR* 1.3 55.0 + - - +
240N LEU* 4.0 20.6 - - + -
241N SER* 2.5 43.6 + - - +
26O ALA* 6.2 2.0 - - + -
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Residues in contact with THR 238 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261M LEU* 3.7 16.3 - - + +
431M BGL 5.4 1.7 - - - +
234N VAL* 2.5 44.6 + - - +
235N MET* 3.7 14.0 - - + +
237N LEU* 1.3 73.3 - - - +
239N VAL* 1.3 65.5 + - + +
241N SER* 3.3 6.1 - - - -
242N VAL* 3.1 30.7 + - + +
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Residues in contact with VAL 239 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235N MET* 2.9 18.5 + - + +
236N PHE* 3.3 7.6 - - - +
238N THR* 1.3 74.3 - - + +
240N LEU* 1.3 59.2 + - - +
241N SER 2.7 5.4 + - - -
242N VAL* 2.7 32.2 + - + +
243N LEU* 2.9 30.2 + - + +
22O ALA* 5.2 5.8 - - + -
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Residues in contact with LEU 240 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257M ALA* 4.8 4.3 - - + -
236N PHE* 2.6 23.0 + - + +
237N LEU* 3.7 22.7 - - + +
239N VAL* 1.3 76.7 - - - +
241N SER* 1.3 55.6 + - - +
243N LEU* 3.9 8.1 - - + -
244N LEU* 2.8 60.2 + - + +
19O THR* 4.4 8.7 - - + +
22O ALA* 3.9 25.1 - - + +
23O GLY* 4.2 15.3 - - - +
26O ALA* 4.7 18.6 - - + -
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Residues in contact with SER 241 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254M PHE* 3.8 6.2 - - - -
257M ALA* 4.0 19.9 - - - +
258M VAL* 4.1 16.8 + - - -
261M LEU* 4.1 11.3 - - - +
237N LEU 2.5 29.8 + - - -
238N THR* 3.3 8.7 - - - -
239N VAL 2.7 2.8 + - - -
240N LEU* 1.3 68.4 - - - +
242N VAL* 1.3 56.5 + - - -
244N LEU* 3.2 5.8 + - - +
245N TYR* 2.6 38.1 + - - +
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Residues in contact with VAL 242 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238N THR* 3.1 23.6 - - + +
239N VAL* 2.7 12.8 + - + +
241N SER* 1.3 72.1 - - - +
243N LEU* 1.3 65.8 + - + +
245N TYR* 3.2 9.5 + - + +
246N LEU* 2.9 45.5 + - + +
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Residues in contact with LEU 243 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239N VAL* 2.9 31.7 + - + +
240N LEU* 3.8 9.0 - - + +
242N VAL* 1.3 77.9 - - + +
244N LEU* 1.3 55.6 + - - +
246N LEU* 3.0 12.9 + - + +
247N THR* 2.7 36.2 + - - -
15O LEU* 3.9 21.6 - - + +
18O ALA* 3.7 34.1 - - + +
19O THR* 3.3 18.4 - - - +
22O ALA* 4.3 10.5 - - + -
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Residues in contact with LEU 244 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250M ILE* 4.7 11.0 - - + +
253M VAL* 3.7 34.8 - - + +
254M PHE* 4.1 20.3 - - + +
257M ALA* 4.0 15.3 - - + -
240N LEU* 2.8 55.4 + - + +
241N SER 3.6 3.1 - - - +
243N LEU* 1.3 72.8 - - - +
245N TYR* 1.3 57.6 + - - +
247N THR* 3.4 10.8 - - + -
248N ASN* 2.8 30.5 + - - +
19O THR* 4.0 15.0 + - + -
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Residues in contact with TYR 245 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254M PHE* 3.9 32.5 - + + -
241N SER 2.6 17.6 + - - +
242N VAL* 3.2 13.9 - - + +
243N LEU 3.1 0.2 - - - -
244N LEU* 1.3 69.4 - - - +
246N LEU* 1.3 80.3 + - + +
248N ASN* 3.0 8.4 + - + +
249N LYS* 2.8 68.5 + - + +
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Residues in contact with LEU 246 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242N VAL* 2.9 33.7 - - + +
243N LEU* 3.0 7.6 + - + +
245N TYR* 1.3 93.5 - - + +
247N THR* 1.3 65.3 + - - +
248N ASN 3.0 0.3 + - - -
249N LYS* 3.1 7.2 + - + +
250N ARG* 2.8 28.0 + - - +
15O LEU* 3.8 31.0 - - + -
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Residues in contact with THR 247 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250M ILE* 4.3 21.5 - - + +
243N LEU 2.7 20.0 + - - -
244N LEU* 3.4 14.0 - - + -
246N LEU* 1.3 75.8 - - - +
248N ASN* 1.3 62.0 + - - +
250N ARG* 3.7 4.1 - - - +
251N LEU* 3.1 23.6 + - - +
15O LEU* 3.7 15.5 - - - +
16O TYR* 4.2 29.2 + - + -
19O THR* 3.3 26.1 + - + +
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Residues in contact with ASN 248 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43M TRP* 4.7 6.5 - - - -
250M ILE* 3.3 25.7 - - + +
251M LYS* 3.4 22.2 - - - +
254M PHE* 4.4 14.9 - - + -
244N LEU 2.8 15.2 + - - +
245N TYR* 3.2 13.9 + - - +
246N LEU 3.0 0.2 - - - -
247N THR* 1.3 74.2 - - - +
249N LYS* 1.3 71.6 + - - +
251N LEU* 2.8 14.9 + - - +
252N TRP* 2.9 42.6 + - - +
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Residues in contact with LYS 249 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245N TYR* 2.8 55.3 + - + +
246N LEU* 3.7 8.1 - - + +
248N ASN* 1.3 76.3 - - - +
250N ARG* 1.3 53.0 + - - +
252N TRP* 3.3 4.6 + - - +
253N ALA* 2.7 42.4 + - + +
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Residues in contact with ARG 250 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246N LEU 2.8 21.3 + - - +
247N THR* 3.7 4.9 - - - +
249N LYS* 1.3 75.3 - - - +
251N LEU* 1.3 63.7 + - - +
253N ALA* 3.3 15.9 + - - +
254N GLY* 3.6 4.3 + - - -
9O GLY 5.9 1.0 - - - +
11O ARG* 4.7 12.5 - - - +
12O ARG* 2.8 60.4 - - - +
15O LEU* 4.8 10.4 - - + +
16O TYR* 4.0 21.1 + - - +
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Residues in contact with LEU 251 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246M PRO* 3.7 33.9 - - + +
247M TYR* 3.3 39.7 + - + +
250M ILE* 3.6 31.4 - - + -
247N THR* 3.1 10.9 + - + +
248N ASN* 2.8 13.3 + - - +
250N ARG* 1.3 77.7 - - - +
252N TRP* 1.3 62.3 + - + +
254N GLY* 3.4 11.8 + - - -
255N VAL* 4.1 0.3 - - - +
16O TYR* 4.7 13.4 + - + +
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Residues in contact with TRP 252 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39M ARG 4.2 15.0 - - - -
242M VAL* 4.1 20.0 - - + -
247M TYR* 3.2 45.8 + + + -
248M PHE* 3.7 36.8 - + - -
251M LYS* 3.7 15.9 - - + +
428M PHE* 4.8 12.6 - + - -
248N ASN* 2.9 43.7 + - - +
249N LYS* 4.0 4.7 - - - +
251N LEU* 1.3 76.9 - - + +
253N ALA* 1.3 63.6 + - - +
254N GLY 2.8 5.6 - - - -
255N VAL* 2.8 30.2 + - + +
256N LYS* 3.3 12.2 + - + -
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Residues in contact with ALA 253 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249N LYS* 2.7 27.7 + - + +
250N ARG* 3.3 10.3 + - - +
252N TRP* 1.3 71.9 - - - +
254N GLY* 1.3 56.4 + - - +
255N VAL 3.1 5.6 + - - -
256N LYS* 4.0 15.3 + - - -
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Residues in contact with GLY 254 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247M TYR* 5.2 1.7 + - - -
250N ARG 3.6 4.3 + - - -
251N LEU 3.4 9.6 + - - -
252N TRP 2.8 2.6 + - - -
253N ALA* 1.3 76.9 - - - +
255N VAL* 1.3 64.1 + - - +
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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).
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