Contacts of the helix formed by residues 222 - 254 (chain E) 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 E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84D MET 4.0 12.3 - - - +
85D ARG* 3.1 27.4 + - - +
86D ASN 5.8 1.3 - - - -
87D VAL 5.8 2.9 - - - -
91D PHE* 3.2 45.8 - - + -
52E GLU* 3.4 24.4 + - - +
220E GLU* 3.1 8.0 + - - +
221E PRO* 1.3 92.1 - - + +
223E LEU* 1.3 67.3 + - - +
224E MET 3.5 1.1 - - - -
225E ALA* 3.3 10.6 + - + -
226E ARG* 3.0 20.6 + - - +
42F ALA* 5.5 2.8 - - - +
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Residues in contact with LEU 223 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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431D BGL 5.6 2.5 - - - +
13E PHE* 4.4 19.3 - - + +
18E GLY 5.1 1.8 - - - +
19E THR* 6.4 0.2 - - - -
20E PHE* 3.7 30.7 - - + -
216E MET* 4.4 20.0 - - + -
220E GLU* 2.9 21.0 + - + +
221E PRO 3.2 2.6 + - - -
222E LYS* 1.3 74.7 - - - +
224E MET* 1.3 70.0 + - + +
226E ARG* 2.9 47.0 + - - +
227E LYS* 3.0 42.6 + - + +
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Residues in contact with MET 224 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18E GLY 4.8 2.2 - - - +
19E THR* 3.5 40.4 - - + -
20E PHE* 3.9 27.3 - - + +
54E GLY* 3.8 35.0 - - - +
221E PRO 4.9 1.7 + - - +
222E LYS 3.5 0.2 - - - -
223E LEU* 1.3 83.4 - - + +
225E ALA* 1.3 64.4 + - - +
227E LYS* 3.1 6.9 + - - +
228E GLN* 2.9 46.7 + - + +
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Residues in contact with ALA 225 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91D PHE* 3.8 22.2 - - + -
222E LYS* 3.3 18.5 + - + +
223E LEU 3.2 0.4 - - - -
224E MET* 1.3 76.6 - - - +
226E ARG* 1.3 59.3 + - - +
228E GLN* 3.2 12.0 + - - +
229E ALA* 2.8 31.2 + - - +
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Residues in contact with ARG 226 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91D PHE* 3.6 16.5 - - + -
92D MET* 3.5 22.2 - - + +
95D TYR* 3.5 26.6 - - - -
267D VAL 3.8 5.2 - - - +
268D GLY* 2.8 28.7 + - - +
269D PHE 3.8 15.0 + - - -
271D PRO* 3.7 14.3 - - - +
272D ASN* 5.1 0.8 - - - +
431D BGL 5.3 3.2 + - - -
220E GLU* 2.4 38.4 + - - +
222E LYS 3.0 9.7 + - - +
223E LEU* 2.9 40.7 + - - +
225E ALA* 1.3 78.5 - - - +
227E LYS* 1.3 61.5 + - - +
229E ALA* 3.1 6.5 - - - +
230E GLY* 2.9 21.8 + - - -
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Residues in contact with LYS 227 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268D GLY 4.2 10.3 - - - +
269D PHE* 3.9 18.2 - - + -
431D BGL 3.6 29.6 + - - -
13E PHE 2.9 22.4 + - - -
15E GLY 2.5 27.8 + - - -
16E PRO* 3.6 18.6 - - - +
18E GLY 4.0 12.4 + - - +
223E LEU* 3.0 32.9 + - + +
224E MET* 3.7 8.1 - - - +
226E ARG* 1.3 80.3 - - - +
228E GLN* 1.3 60.5 + - + +
230E GLY* 2.8 23.8 + - - +
231E PHE* 3.1 16.7 + - + -
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Residues in contact with GLN 228 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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224E MET* 2.9 47.4 + - + +
225E ALA* 3.6 7.9 - - - +
227E LYS* 1.3 73.1 - - + +
229E ALA* 1.3 67.1 + - - +
230E GLY 3.0 0.7 + - - -
231E PHE* 3.3 16.8 + - + +
232E THR* 3.0 24.3 + - - -
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Residues in contact with ALA 229 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91D PHE* 5.2 3.1 - - + -
92D MET* 4.2 21.5 - - + -
225E ALA 2.8 13.8 + - - +
226E ARG* 3.1 15.3 - - - +
228E GLN* 1.3 76.6 - - - +
230E GLY* 1.3 66.7 + - - +
232E THR* 3.3 7.6 - - - -
233E ALA* 3.0 21.7 + - - +
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Residues in contact with GLY 230 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264D PHE 5.2 2.9 - - - -
268D GLY* 4.4 14.1 - - - -
269D PHE* 4.2 9.6 - - - -
226E ARG 2.9 10.1 + - - -
227E LYS 2.8 10.8 + - - -
229E ALA* 1.3 72.7 - - - +
231E PHE* 1.3 69.6 + - - +
233E ALA* 2.9 18.3 + - - +
234E VAL* 3.0 18.7 + - - +
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Residues in contact with PHE 231 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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269D PHE* 3.9 14.4 - + - -
16E PRO* 3.3 20.9 - - + -
17E PHE* 2.9 51.1 - + - -
227E LYS* 3.1 32.6 + - + -
228E GLN* 3.8 16.2 - - + +
230E GLY* 1.3 71.2 - - - +
232E THR* 1.3 67.5 + - - +
234E VAL* 2.9 9.1 + - - +
235E MET* 2.7 37.8 + - + +
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Residues in contact with THR 232 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228E GLN 3.0 12.5 + - - -
229E ALA* 3.3 12.6 - - - +
230E GLY 2.9 0.2 + - - -
231E PHE* 1.3 77.0 - - - +
233E ALA* 1.3 66.9 + - - +
235E MET* 2.8 21.2 + - - +
236E PHE* 3.0 41.2 + - + -
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Residues in contact with ALA 233 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264D PHE* 3.7 41.7 - - + -
229E ALA 3.0 8.1 + - - +
230E GLY* 2.9 12.3 + - - +
232E THR* 1.3 76.7 - - - +
234E VAL* 1.3 64.1 + - - +
236E PHE* 3.6 8.5 + - - +
237E LEU* 3.0 33.0 + - + +
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Residues in contact with VAL 234 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261D LEU* 3.3 30.7 - - + +
264D PHE* 5.3 0.4 - - + -
265D ALA* 4.6 19.3 - - + +
269D PHE* 4.3 17.3 - - + -
230E GLY 3.0 17.7 + - - +
231E PHE* 2.9 8.4 + - - +
233E ALA* 1.3 76.6 - - + +
235E MET* 1.3 66.2 + - + +
237E LEU* 3.4 1.5 - - - +
238E THR* 2.5 47.5 + - - +
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Residues in contact with MET 235 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231E PHE* 2.7 34.9 + - + +
232E THR* 2.8 11.0 + - - +
234E VAL* 1.3 91.7 - - + +
236E PHE* 1.3 72.2 + - + +
238E THR* 3.7 9.5 - - + +
239E VAL* 2.9 30.6 + - + +
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Residues in contact with PHE 236 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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232E THR* 3.0 45.6 + - + -
233E ALA* 3.7 9.9 - - - +
235E MET* 1.3 79.2 - - + +
237E LEU* 1.3 56.5 - - + +
239E VAL* 3.2 4.6 + - - +
240E LEU* 2.7 40.1 + - + +
22F ALA* 4.9 6.4 - - + +
25F VAL* 3.1 37.2 - - + -
26F ALA* 4.0 24.2 - - + -
29F ALA* 4.3 21.3 - - + -
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Residues in contact with LEU 237 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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257D ALA* 3.9 24.9 - - + +
260D LEU* 4.0 22.2 - - + +
261D LEU* 4.1 17.5 - - + +
264D PHE* 3.7 33.7 - - + -
233E ALA* 3.0 23.7 + - - +
234E VAL 3.6 2.0 - - - +
235E MET 3.1 0.4 - - - -
236E PHE* 1.3 81.4 - - + +
238E THR* 1.3 55.0 + - - +
240E LEU* 4.0 18.2 - - + -
241E SER* 2.4 42.8 + - - -
26F ALA* 6.2 2.0 - - + -
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Residues in contact with THR 238 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261D LEU* 3.6 16.1 - - + +
234E VAL* 2.5 44.7 + - - +
235E MET* 3.7 11.8 - - + +
237E LEU* 1.3 72.2 - - - +
239E VAL* 1.3 62.6 + - + +
241E SER* 3.4 6.4 - - - -
242E VAL* 3.0 34.1 + - + +
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Residues in contact with VAL 239 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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235E MET* 2.9 19.6 + - + +
236E PHE* 3.3 7.6 - - - +
238E THR* 1.3 74.9 - - + +
240E LEU* 1.3 60.0 + - - +
241E SER 2.8 3.6 - - - -
242E VAL* 2.7 31.4 + - + +
243E LEU* 2.8 31.1 + - + -
22F ALA* 5.2 5.6 - - + -
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Residues in contact with LEU 240 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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253D VAL* 6.3 0.2 - - + -
257D ALA* 4.8 4.5 - - + -
236E PHE* 2.7 23.2 + - + +
237E LEU* 3.7 22.9 - - + +
239E VAL* 1.3 76.3 - - - +
241E SER* 1.3 56.4 + - - +
243E LEU* 3.9 7.2 - - + -
244E LEU* 2.9 60.0 + - + +
19F THR* 4.4 9.0 - - + +
22F ALA* 3.9 24.7 - - + +
23F GLY* 4.1 15.3 - - - +
26F ALA* 4.6 20.4 - - + -
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Residues in contact with SER 241 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254D PHE* 3.8 13.6 - - - -
257D ALA* 3.8 24.4 - - - +
258D VAL* 4.0 13.0 + - - -
261D LEU* 4.3 6.8 - - - +
237E LEU 2.4 31.4 + - - -
238E THR* 3.4 8.8 - - - -
239E VAL 2.8 0.4 + - - -
240E LEU* 1.3 70.5 - - - +
242E VAL* 1.3 56.0 + - - -
244E LEU* 3.2 3.4 + - - +
245E TYR* 2.7 37.6 + - - +
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Residues in contact with VAL 242 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238E THR* 3.0 23.6 - - + +
239E VAL* 2.7 13.6 + - - +
241E SER* 1.3 73.6 - - - +
243E LEU* 1.3 66.4 + - + +
245E TYR* 3.1 15.8 + - + +
246E LEU* 3.0 38.9 + - + +
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Residues in contact with LEU 243 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239E VAL* 2.8 32.4 + - + +
240E LEU* 3.8 7.4 - - + +
242E VAL* 1.3 78.6 - - + +
244E LEU* 1.3 59.7 + - + +
245E TYR 3.0 0.9 + - - -
246E LEU* 3.0 13.8 + - + +
247E THR* 2.7 30.9 + - - -
14F PHE* 5.8 2.7 - - + -
15F LEU* 4.1 20.9 - - + +
18F ALA* 3.6 34.5 - - + +
19F THR* 3.3 17.7 - - - +
22F ALA* 4.2 11.7 - - + -
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Residues in contact with LEU 244 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250D ILE* 4.5 12.6 - - + +
253D VAL* 3.6 39.0 - - + +
254D PHE* 4.0 18.0 - - + +
257D ALA* 4.1 14.1 - - + -
240E LEU* 2.9 52.6 + - + +
241E SER 3.6 3.6 - - - +
243E LEU* 1.3 73.7 - - - +
245E TYR* 1.3 56.5 + - - +
247E THR* 3.4 9.6 - - + +
248E ASN* 2.8 30.7 + - - +
19F THR* 4.6 16.2 - - + -
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Residues in contact with TYR 245 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254D PHE* 3.9 34.5 - + + -
241E SER 2.7 17.9 + - - +
242E VAL* 3.2 14.1 - - + +
244E LEU* 1.3 69.6 - - - +
246E LEU* 1.3 73.8 + - + +
248E ASN* 3.1 7.7 + - + +
249E LYS* 2.7 72.4 + - + +
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Residues in contact with LEU 246 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242E VAL* 3.0 30.3 - - + +
243E LEU* 3.0 9.6 + - + +
245E TYR* 1.3 93.0 - - + +
247E THR* 1.3 69.9 + - - +
248E ASN 3.0 0.5 + - - -
249E LYS* 3.0 9.4 + - + -
250E ARG* 2.7 42.8 + - - +
15F LEU* 3.8 30.7 - - + -
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Residues in contact with THR 247 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250D ILE* 3.9 23.7 - - + +
243E LEU 2.7 19.4 + - - -
244E LEU* 3.4 12.9 - - + -
246E LEU* 1.3 75.3 - - - +
248E ASN* 1.3 62.9 + - - +
250E ARG* 3.7 2.7 + - - +
251E LEU* 3.1 23.4 + - - +
15F LEU* 3.6 15.0 - - - +
16F TYR* 4.2 28.8 + - + -
19F THR* 3.1 28.0 + - + +
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Residues in contact with ASN 248 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43D TRP* 4.7 7.5 - - - -
250D ILE* 3.2 25.3 - - + +
251D LYS* 3.3 23.3 + - - +
254D PHE* 4.6 13.7 - - + -
244E LEU 2.8 14.7 + - - +
245E TYR* 3.3 13.9 + - - +
246E LEU 3.0 0.2 - - - -
247E THR* 1.3 74.7 - - - +
249E LYS* 1.3 70.7 + - - +
251E LEU* 2.9 15.5 + - - +
252E TRP* 2.9 43.2 + - - +
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Residues in contact with LYS 249 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245E TYR* 2.7 56.5 + - + +
246E LEU* 3.5 9.4 - - + +
248E ASN* 1.3 75.6 - - - +
250E ARG* 1.3 59.5 + - + +
252E TRP* 4.2 3.0 - - - +
253E ALA* 2.8 35.4 + - + +
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Residues in contact with ARG 250 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246E LEU* 2.7 33.6 + - - +
247E THR* 4.0 3.4 - - - +
249E LYS* 1.3 72.4 - - + +
251E LEU* 1.3 65.8 + - - +
253E ALA* 3.3 18.4 + - - +
254E GLY* 3.6 4.2 + - - -
11F ARG 3.9 10.9 + - - -
12F ARG* 2.9 67.8 - - - +
14F PHE* 6.0 0.2 - - - -
15F LEU* 3.6 33.5 - - + +
16F TYR* 5.2 6.7 - - + +
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Residues in contact with LEU 251 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246D PRO* 3.3 42.8 - - + +
247D TYR* 3.2 41.2 + - + +
250D ILE* 3.7 25.1 - - + -
247E THR 3.1 17.5 + - - +
248E ASN* 2.9 10.6 + - - +
250E ARG* 1.3 74.0 - - - +
252E TRP* 1.3 62.0 + - + +
254E GLY* 3.4 10.0 + - - -
16F TYR* 4.4 16.7 + - + +
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Residues in contact with TRP 252 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39D ARG* 4.2 15.7 - - - -
242D VAL* 3.9 28.9 - - + -
247D TYR* 3.0 44.3 + + + -
248D PHE* 3.6 39.9 - + - -
251D LYS* 3.6 13.7 - - + +
428D PHE* 4.6 12.8 - + - -
248E ASN* 2.9 44.1 + - - +
249E LYS* 4.2 3.6 - - - +
251E LEU* 1.3 74.1 - - + +
253E ALA* 1.3 64.3 + - - +
254E GLY 2.8 6.9 + - - -
255E VAL* 2.8 24.8 + - + +
256E LYS* 3.3 15.1 + - + +
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Residues in contact with ALA 253 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249E LYS* 2.8 23.7 + - + +
250E ARG* 3.4 10.5 - - - +
252E TRP* 1.3 77.0 - - - +
254E GLY* 1.3 57.0 + - - +
255E VAL 3.1 5.4 + - - -
256E LYS 3.9 18.0 + - - -
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Residues in contact with GLY 254 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247D TYR* 4.9 3.6 + - - -
250E ARG 3.6 3.9 + - - -
251E LEU 3.4 8.7 + - - -
252E TRP 2.8 2.8 + - - -
253E ALA* 1.3 78.4 - - - +
255E VAL* 1.3 64.7 + - - +
----------------------------------------------------------
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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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