Contacts of the helix formed by residues 244 - 270 (chain G) 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 PHE 244 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G THR 4.6 4.3 - - - -
33G ILE* 3.4 33.2 - - + +
34G MET 3.6 2.0 + - - -
35G ILE* 3.0 31.3 + - + +
37G THR* 3.9 7.9 - - - -
242G VAL 3.5 0.6 + - - -
243G PRO* 1.3 70.0 - - - +
245G TRP* 1.3 57.5 + - - +
247G TYR 3.2 0.7 + - - -
248G PHE* 2.7 70.0 + + + -
249G ILE* 3.4 28.4 + - + -
252G ASP* 3.7 11.7 - - - -
505G ANJ 3.5 61.5 - + + -
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Residues in contact with TRP 245 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G ILE* 3.2 26.9 + - + +
34G MET* 3.6 24.0 - - + +
243G PRO* 3.3 22.6 - - - +
244G PHE* 1.3 78.2 - - - +
246G PRO* 1.3 87.1 - - + +
247G TYR 3.4 0.7 - - - -
249G ILE* 3.7 40.2 - - + -
250G ILE* 5.7 3.6 - - + -
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Residues in contact with PRO 246 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243G PRO* 4.8 0.7 - - + -
244G PHE 3.4 1.3 - - - -
245G TRP* 1.3 122.0 - - + +
247G TYR* 1.3 82.1 + - + +
248G PHE 3.4 2.5 - - - -
249G ILE* 4.1 0.7 - - + -
250G ILE* 3.0 33.8 + - + +
251H LEU* 3.6 25.8 - - + -
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Residues in contact with TYR 247 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242G VAL* 3.7 20.9 - - + -
243G PRO* 3.2 51.6 - - + +
244G PHE 3.2 1.0 + - - -
246G PRO* 1.3 87.5 - - + +
248G PHE* 1.3 61.3 + - - +
250G ILE* 3.9 3.1 - - - +
251G LYS 3.5 9.4 + - - -
248H ASN* 4.2 0.2 - - - +
251H LEU* 3.2 48.6 + - + +
252H TRP* 3.2 41.8 + + + +
254H GLY 5.2 1.6 + - - -
255H VAL* 3.8 21.0 - - + +
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Residues in contact with PHE 248 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G THR* 3.2 34.1 - - + -
38G PRO 3.2 22.2 - - - -
39G ARG 4.6 1.1 - - - -
41G LEU* 3.8 18.4 - - + -
242G VAL* 4.1 10.3 - - + -
244G PHE* 2.7 52.4 + + + -
247G TYR* 1.3 71.6 - - - +
249G ILE* 1.3 65.4 + - - +
250G ILE 2.6 6.3 + - - -
251G LYS* 2.7 40.1 + - + +
252G ASP* 2.7 25.9 + - - +
505G ANJ 3.5 17.0 - - - -
252H TRP* 3.6 21.1 - + - -
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Residues in contact with ILE 249 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G ILE* 3.3 30.3 - - + -
244G PHE* 3.4 24.4 + - + -
245G TRP* 3.7 43.1 - - + -
246G PRO 3.8 7.4 - - - +
248G PHE* 1.3 76.4 - - - +
250G ILE* 1.3 60.9 + - + +
252G ASP* 3.5 8.2 - - + +
253G VAL* 3.0 33.9 + - + +
505G ANJ 4.4 9.9 - - + -
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Residues in contact with ILE 250 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245G TRP* 5.7 3.1 - - + -
246G PRO* 3.0 24.8 + - + +
247G TYR 3.9 3.1 - - - +
248G PHE 2.6 5.1 + - - -
249G ILE* 1.3 76.9 - - + +
251G LYS* 1.3 54.8 + - - +
252G ASP 3.0 1.1 - - - -
253G VAL* 2.9 7.9 + - + +
254G PHE 2.5 33.4 + - - -
244H LEU* 4.6 13.0 - - + +
247H THR* 4.2 21.8 - - + -
248H ASN* 3.4 34.1 - - + +
251H LEU* 3.7 23.1 - - + -
16I TYR* 6.0 4.7 - - + +
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Residues in contact with LYS 251 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41G LEU 3.2 25.1 + - - -
42G ASN* 4.1 14.4 + - - +
43G TRP* 4.2 29.1 - - + +
46G ILE* 4.9 3.8 - - + -
247G TYR 3.5 3.3 + - - +
248G PHE* 2.7 54.5 + - + +
250G ILE* 1.3 75.7 - - - +
252G ASP* 1.3 54.2 + - - +
254G PHE* 3.3 7.8 - - - +
255G ALA* 2.6 38.2 + - - +
505G ANJ 4.1 12.9 + - - +
248H ASN* 3.6 22.4 - - - +
252H TRP* 4.2 12.4 - - + +
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Residues in contact with ASP 252 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46G ILE* 4.6 6.5 - - - +
49G VAL* 3.3 28.1 - - + +
244G PHE* 3.7 11.1 - - - -
248G PHE 2.7 15.5 + - - +
249G ILE* 3.5 8.4 - - - +
251G LYS* 1.3 79.3 - - - +
253G VAL* 1.3 53.9 + - + +
255G ALA* 3.5 4.5 - - - +
256G LEU* 2.6 39.7 + - - +
505G ANJ 2.5 59.6 + - + +
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Residues in contact with VAL 253 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249G ILE* 3.0 24.0 - - + +
250G ILE* 2.9 9.7 + - + +
252G ASP* 1.3 80.2 - - + +
254G PHE* 1.3 65.5 + - - +
256G LEU* 3.3 14.3 + - + +
257G ALA* 3.0 22.1 + - + +
240H LEU* 6.5 0.2 - - + -
244H LEU* 3.7 26.9 - - + -
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Residues in contact with PHE 254 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43G TRP* 3.6 36.6 - + - -
250G ILE 2.5 18.1 + - - +
251G LYS* 3.3 9.4 - - - +
253G VAL* 1.3 76.5 - - - +
255G ALA* 1.3 64.5 + - - +
257G ALA* 3.0 14.2 + - - +
258G VAL* 3.3 29.2 + - + +
241H SER* 3.7 22.4 - - - -
244H LEU* 4.0 25.3 - - + +
245H TYR* 3.9 39.9 - + + -
248H ASN* 4.5 12.6 - - + -
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Residues in contact with ALA 255 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43G TRP* 4.4 9.2 - - + -
46G ILE* 3.7 40.6 - - + -
50G VAL* 5.9 0.7 - - + -
251G LYS 2.6 19.3 + - - +
252G ASP 3.5 2.9 - - - +
254G PHE* 1.3 75.6 - - - +
256G LEU* 1.3 67.3 + - - +
258G VAL* 2.7 24.9 + - - +
259G VAL* 2.9 15.7 + - + +
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Residues in contact with LEU 256 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49G VAL* 3.3 31.4 - - + -
50G VAL* 4.0 22.6 - - + +
53G PHE* 4.1 34.1 - - + -
252G ASP 2.6 19.5 + - - +
253G VAL* 3.3 18.2 - - + +
255G ALA* 1.3 71.7 - - - +
257G ALA* 1.3 60.7 + - - +
259G VAL* 3.5 7.1 - - + +
260G LEU* 3.0 38.6 + - + +
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Residues in contact with ALA 257 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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253G VAL* 3.0 12.1 + - + +
254G PHE 3.1 11.4 - - - +
255G ALA 2.8 4.0 + - - -
256G LEU* 1.3 71.5 - - - +
258G VAL* 1.3 59.9 + - - +
260G LEU* 3.1 5.4 + - - +
261G LEU* 2.8 29.8 + - - +
237H LEU* 3.9 19.9 - - + +
240H LEU* 4.8 3.8 - - + -
241H SER* 4.0 17.9 - - - +
244H LEU* 4.0 19.3 - - + -
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Residues in contact with VAL 258 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254G PHE* 3.4 44.0 - - + +
255G ALA* 2.7 15.1 + - - +
257G ALA* 1.3 71.7 - - - +
259G VAL* 1.3 64.1 + - + +
261G LEU* 3.1 28.1 - - + +
262G VAL* 3.2 15.0 + - + +
241H SER* 4.1 11.0 + - - +
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Residues in contact with VAL 259 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46G ILE* 4.7 9.9 - - + -
47G TRP* 5.1 8.3 - - + -
50G VAL* 3.9 36.3 - - + -
103G LEU* 4.1 22.7 - - + -
255G ALA* 2.9 20.1 + - - +
256G LEU* 3.5 10.3 - - + +
258G VAL* 1.3 78.3 - - + +
260G LEU* 1.3 56.3 + - + +
262G VAL* 2.9 11.6 + - - +
263G PHE* 2.8 30.5 + - - +
504G LOP 4.6 13.4 - - + +
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Residues in contact with LEU 260 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53G PHE* 3.3 54.7 - - + -
103G LEU* 4.9 5.2 - - + -
256G LEU* 3.0 27.7 + - + +
257G ALA* 3.6 6.1 - - - +
259G VAL* 1.3 77.8 - - + +
261G LEU* 1.3 59.4 + - - +
263G PHE* 3.7 21.3 - - + -
264G PHE* 2.7 54.3 + - + -
237H LEU* 4.1 13.2 - - + -
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Residues in contact with LEU 261 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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257G ALA 2.8 12.7 + - - +
258G VAL* 3.1 20.0 - - + +
259G VAL 3.1 0.2 - - - -
260G LEU* 1.3 78.7 - - - +
262G VAL* 1.3 66.1 + - + +
264G PHE* 3.9 2.4 - - - +
265G ALA* 3.0 21.8 + - + +
234H VAL* 3.4 44.7 - - + +
237H LEU* 4.0 14.1 - - + +
238H THR* 3.6 27.8 - - + +
241H SER* 4.2 9.6 - - - +
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Residues in contact with VAL 262 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258G VAL* 3.3 20.6 - - + +
259G VAL* 2.9 6.2 + - - +
261G LEU* 1.3 77.2 - - + +
263G PHE* 1.3 69.4 + - - +
265G ALA* 3.0 23.5 + - + +
266G ILE* 3.1 21.7 + - + +
504G LOP 4.5 27.1 - - + -
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Residues in contact with PHE 263 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G PHE* 5.2 0.4 - + - -
57G LEU* 3.8 19.3 - - + -
96G LEU* 3.4 47.8 - - + -
99G ASN* 3.7 26.2 - - + -
100G GLY* 4.1 3.6 - - - -
103G LEU* 4.1 13.9 - - + -
259G VAL 2.8 18.0 + - - +
260G LEU* 3.4 28.7 - - + +
262G VAL* 1.3 71.5 - - - +
264G PHE* 1.3 74.7 + + - +
266G ILE* 3.0 13.2 + - - +
267G VAL* 2.9 31.5 + - + +
504G LOP 3.4 29.5 - - + +
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Residues in contact with PHE 264 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53G PHE* 5.6 4.0 - + - -
57G LEU* 6.6 0.2 - - + -
92G MET* 5.5 8.7 - - - -
96G LEU* 4.2 31.9 - - + -
260G LEU* 2.7 49.7 + - + +
261G LEU 3.9 2.7 - - - +
263G PHE* 1.3 82.4 - + - +
265G ALA* 1.3 53.9 + - - +
267G VAL* 3.7 8.5 - - + +
268G GLY* 2.6 35.7 + - - -
230H GLY* 5.3 2.4 - - - -
233H ALA* 3.7 32.8 - - + -
234H VAL* 5.2 2.7 - - + +
237H LEU* 3.8 18.4 - - + -
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Residues in contact with ALA 265 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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261G LEU* 3.0 16.3 + - + +
262G VAL* 3.0 20.6 - - + +
264G PHE* 1.3 75.1 - - - +
266G ILE* 1.3 54.1 + - + +
269G PHE* 2.8 52.1 + - + +
270G MET* 4.7 0.7 - - - +
431G BGL 5.3 13.4 - - + +
234H VAL* 4.5 12.7 - - + +
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Residues in contact with ILE 266 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G ASN* 4.1 16.8 - - - +
262G VAL* 3.1 27.4 - - + +
263G PHE* 3.0 9.8 + - - +
265G ALA* 1.3 75.6 - - + +
267G VAL* 1.3 60.7 + - + +
268G GLY 3.0 1.8 - - - -
270G MET* 2.6 79.5 + - + +
271G PRO 2.9 0.7 - - - -
273G TYR* 5.4 1.1 - - + -
274G LEU* 5.1 9.9 - - + -
504G LOP 4.4 21.1 - - + -
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Residues in contact with VAL 267 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G MET* 4.3 12.7 - - - +
95G TYR* 3.9 26.1 - - + +
96G LEU* 4.0 25.6 - - + +
99G ASN* 4.3 8.1 - - + +
263G PHE* 2.9 52.2 + - + +
264G PHE* 3.7 9.4 - - + +
266G ILE* 1.3 73.6 - - + +
268G GLY* 1.3 61.8 + - - +
271G PRO* 3.7 19.5 - - - +
226H ARG* 3.9 10.7 - - - +
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Residues in contact with GLY 268 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G MET* 5.3 3.6 - - - -
264G PHE 2.6 21.9 + - - -
265G ALA 3.9 0.2 - - - -
267G VAL* 1.3 75.1 - - - +
269G PHE* 1.3 64.3 + - - +
226H ARG* 3.0 47.9 + - - +
227H LYS* 4.4 1.9 - - - +
230H GLY* 4.4 11.4 - - - -
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Residues in contact with PHE 269 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265G ALA* 2.8 35.8 + - + +
268G GLY* 1.3 78.2 - - - +
270G MET* 1.3 57.5 + - + +
271G PRO* 3.6 4.5 - - - +
431G BGL 2.7 67.0 + - + +
16H PRO* 3.5 42.4 - - + -
226H ARG* 3.8 5.9 + - - +
227H LYS* 4.0 20.4 - - + -
230H GLY* 4.1 6.7 - - - -
231H PHE* 3.7 31.2 - + - -
234H VAL* 4.2 22.7 - - + -
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Residues in contact with MET 270 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G ASN* 4.7 0.2 - - - +
265G ALA 4.7 0.7 - - - +
266G ILE* 2.6 54.5 + - + +
269G PHE* 1.3 76.9 - - + +
271G PRO* 1.3 65.5 - - - +
272G ASN 3.3 2.7 - - - +
273G TYR* 3.3 53.0 + - + +
431G BGL 4.2 31.0 - - - +
121H LEU* 3.7 28.9 - - + +
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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