Contacts of the helix formed by residues 247 - 272 (chain C) in PDB entry 1UU1
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 247 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36C ASP* 5.7 0.9 - - - -
37C LEU* 3.6 30.4 - - + +
40C GLU* 2.9 39.9 + - - -
243C VAL 2.8 15.7 + - - +
244C ALA 3.4 4.3 - - - -
245C LEU 3.2 0.2 - - - -
246C ASP* 1.3 93.5 - - + +
248C ARG* 1.3 62.7 + - - +
249C GLU* 3.2 15.5 + - - -
250C ILE* 3.3 30.0 + - + +
251C PHE* 3.1 15.2 - - - -
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Residues in contact with ARG 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64C LYS* 3.8 14.1 + - - +
67C SER* 3.8 24.7 + - - -
68C TYR* 3.7 41.0 + - + +
204C PHE* 4.9 8.5 - - + -
244C ALA 3.4 7.7 + - - +
245C LEU* 2.9 41.1 + - + +
246C ASP 3.6 1.5 + - - +
247C HIS* 1.3 75.0 - - - +
249C GLU* 1.3 71.0 + - + +
250C ILE 3.2 0.2 - - - -
251C PHE* 3.2 10.2 + - - +
252C GLU* 2.9 41.0 + - + +
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Residues in contact with GLU 249 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C ASP 4.1 4.4 - - - +
247C HIS* 3.4 23.6 - - - +
248C ARG* 1.3 80.0 - - + +
250C ILE* 1.3 100.1 + - - +
252C GLU* 3.1 17.4 + - - +
253C GLU* 2.9 38.6 + - + +
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Residues in contact with ILE 250 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PRO* 4.1 25.8 - - + -
36C ASP* 5.8 3.1 - - - +
37C LEU* 5.1 4.9 - - + -
247C HIS* 3.5 32.8 - - + +
248C ARG 3.2 0.2 - - - -
249C GLU* 1.3 101.5 + - - +
251C PHE* 1.3 67.5 + - + +
253C GLU* 3.2 15.8 + - - +
254C ARG* 3.2 33.2 + - + +
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Residues in contact with PHE 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33C PHE* 3.7 16.8 - + - -
34C PRO* 3.9 16.4 - - + -
37C LEU* 3.6 26.2 - - + -
203C ALA* 3.5 14.4 - - + +
204C PHE* 3.5 52.9 - + + -
244C ALA* 3.2 32.3 - - + -
247C HIS 3.1 24.7 - - - -
248C ARG* 3.2 7.4 + - - +
250C ILE* 1.3 74.9 - - + +
252C GLU* 1.3 61.8 + - + +
254C ARG* 3.6 20.5 - - - +
255C THR* 2.8 33.4 + - - +
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Residues in contact with GLU 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C TYR* 5.8 3.2 - - + -
248C ARG* 2.9 38.1 + - + +
249C GLU* 3.2 18.5 - - - +
251C PHE* 1.3 76.6 - - + +
253C GLU* 1.3 66.6 + - + +
255C THR* 3.2 8.4 + - - -
256C LYS* 2.9 23.5 + - - +
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Residues in contact with GLU 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249C GLU* 2.9 22.6 + - + +
250C ILE* 3.2 16.1 + - - +
252C GLU* 1.3 77.4 - - + +
254C ARG* 1.3 62.0 + - + +
256C LYS* 3.1 14.4 + - + +
257C PHE* 3.0 21.7 + - - +
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Residues in contact with ARG 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ASN* 4.7 6.3 - - - +
31C PHE* 3.1 45.5 - - + +
32C PRO* 2.7 34.1 + - - +
34C PRO* 3.9 27.1 - - - +
203C ALA 5.7 0.9 - - - +
205C SER* 3.4 17.0 + - - -
250C ILE* 3.2 22.4 + - + +
251C PHE* 3.6 20.5 - - - +
252C GLU 3.2 0.2 - - - -
253C GLU* 1.3 78.5 - - + +
255C THR* 1.3 62.3 + - - +
257C PHE* 3.1 8.5 + - - +
258C ILE* 2.9 32.1 + - + +
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Residues in contact with THR 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29C ASN* 5.8 0.5 + - - +
178C GLU* 3.2 30.4 - - + +
179C PHE* 3.5 24.7 - - + -
203C ALA* 4.2 14.0 + - - +
251C PHE 2.8 21.8 + - - -
252C GLU* 3.5 7.9 - - - -
254C ARG* 1.3 75.8 - - - +
256C LYS* 1.3 53.5 + - - +
258C ILE* 3.2 11.0 + - - +
259C VAL* 2.7 46.5 + - + +
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Residues in contact with LYS 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252C GLU 2.9 12.9 + - - +
253C GLU* 3.1 17.9 + - + +
255C THR* 1.3 75.1 - - - +
257C PHE* 1.3 59.8 + - - +
259C VAL* 3.9 4.9 - - - +
260C GLU* 2.6 71.3 + - + +
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Residues in contact with PHE 257 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31C PHE* 3.7 35.2 - + + -
253C GLU 3.0 11.8 + - - +
254C ARG* 3.1 9.4 + - - +
256C LYS* 1.3 76.8 - - - +
258C ILE* 1.3 65.3 + - + +
260C GLU* 4.1 7.3 - - - +
261C GLU* 2.9 48.6 + - + +
319C GLY 3.8 18.4 - - - -
321C ARG* 3.7 50.9 - - + -
324C ASN* 4.5 3.1 - - - -
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Residues in contact with ILE 258 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29C ASN* 3.6 28.5 - - - +
30C PRO* 3.7 22.7 - - + -
31C PHE* 4.6 2.5 - - + -
179C PHE* 4.1 16.2 - - + -
254C ARG* 2.9 24.3 + - + +
255C THR* 3.5 6.5 - - - +
257C PHE* 1.3 87.1 - - + +
259C VAL* 1.3 61.0 + - - +
261C GLU* 3.4 4.5 + - - +
262C ARG* 2.8 27.4 + - - +
281C GLY 5.5 0.7 - - - +
282C ASN* 3.9 24.5 - - + +
318C ILE* 3.7 27.2 - - + +
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Residues in contact with VAL 259 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C GLU 5.0 0.2 - - - +
179C PHE* 3.9 25.1 - - + +
255C THR* 2.7 43.2 + - + +
256C LYS* 3.9 7.0 - - - +
258C ILE* 1.3 70.3 - - - +
260C GLU* 1.3 71.9 + - + +
262C ARG* 2.8 42.7 + - - +
263C GLU* 2.9 18.0 + - + +
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Residues in contact with GLU 260 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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256C LYS* 2.6 55.9 + - + +
257C PHE* 4.1 5.9 - - - +
259C VAL* 1.3 80.2 - - + +
261C GLU* 1.3 58.5 + - - +
263C GLU* 3.2 7.6 + - - +
264C ARG* 2.8 31.5 + - - +
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Residues in contact with GLU 261 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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257C PHE* 2.9 38.7 + - + +
258C ILE* 3.6 4.7 - - - +
259C VAL 3.1 0.2 - - - -
260C GLU* 1.3 79.3 - - - +
262C ARG* 1.3 56.8 + - - +
264C ARG* 3.1 35.6 + - - +
265C MET* 2.9 33.5 + - - +
318C ILE* 4.0 7.9 - - + -
321C ARG* 3.7 21.8 - - - +
324C ASN* 2.7 41.9 + - + +
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Residues in contact with ARG 262 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179C PHE* 3.2 24.5 + - - +
258C ILE* 2.8 18.9 + - + +
259C VAL* 2.8 26.8 + - - +
261C GLU* 1.3 78.1 - - - +
263C GLU* 1.3 87.2 + - - +
265C MET* 3.6 1.8 + - - +
266C LYS* 3.0 36.3 + - + +
279C SER* 3.1 22.8 + - - -
280C ARG* 3.3 18.0 - - - +
281C GLY 2.7 38.1 + - - +
283C PHE 3.6 20.4 - - - +
284C VAL* 3.9 9.4 - - + +
318C ILE* 3.7 21.0 - - + +
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Residues in contact with GLU 263 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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259C VAL* 2.9 20.5 + - + +
260C GLU* 3.7 9.9 - - - +
262C ARG* 1.3 109.5 + - - +
264C ARG* 1.3 63.9 + - - +
266C LYS* 3.2 27.4 + - - +
267C SER* 2.8 30.3 + - - -
270C ARG* 5.5 0.3 + - - -
279C SER 3.9 0.2 - - - +
280C ARG* 4.8 3.5 + - - -
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Residues in contact with ARG 264 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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260C GLU 2.8 17.8 + - - +
261C GLU* 3.3 35.0 + - - +
263C GLU* 1.3 75.8 - - - +
265C MET* 1.3 66.3 + - - +
267C SER* 3.2 7.8 + - - -
268C ALA* 3.1 21.3 + - + +
321C ARG* 6.0 1.8 - - - -
324C ASN* 4.4 5.7 - - - +
325C ASP* 3.2 33.8 + - - -
328C LEU* 4.2 22.8 - - + +
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Residues in contact with MET 265 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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261C GLU 2.9 16.0 + - - +
262C ARG 4.0 3.4 - - - +
264C ARG* 1.3 80.1 - - - +
266C LYS* 1.3 64.7 + - - +
268C ALA* 2.9 2.4 + - - +
269C LEU* 2.8 33.4 + - + +
284C VAL* 4.4 18.8 - - + -
316C ILE* 4.7 6.5 - - + -
317C THR 5.7 0.9 - - - +
318C ILE* 3.3 31.0 - - + -
324C ASN* 3.7 30.3 - - + +
327C ILE* 3.8 35.2 - - + -
328C LEU* 4.0 28.9 - - + -
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Residues in contact with LYS 266 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262C ARG* 3.0 24.0 + - + +
263C GLU* 3.2 36.8 + - - +
264C ARG 3.3 0.2 - - - -
265C MET* 1.3 76.8 - - - +
267C SER* 1.3 61.2 + - - +
269C LEU* 3.7 2.6 + - - -
270C ARG* 3.2 42.3 + - - +
276C ILE* 3.4 28.5 - - + +
277C THR 3.7 9.0 - - - +
278C ASP* 3.0 26.9 + - - +
279C SER* 2.9 38.4 + - - +
280C ARG* 4.7 0.2 - - - +
284C VAL* 3.6 15.7 - - + -
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Residues in contact with SER 267 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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263C GLU* 2.8 19.5 + - - -
264C ARG* 3.5 9.2 - - - -
265C MET 3.1 0.6 - - - -
266C LYS* 1.3 73.4 - - - +
268C ALA* 1.3 66.7 + - - +
270C ARG* 3.3 9.5 + - - +
271C GLU* 2.8 38.2 + - - +
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Residues in contact with ALA 268 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264C ARG* 3.1 7.6 + - + +
265C MET 2.9 7.5 + - - +
267C SER* 1.3 79.0 - - - +
269C LEU* 1.3 62.9 + - - +
271C GLU* 3.1 17.4 + - - +
272C MET* 3.1 32.5 + - + +
328C LEU* 3.7 29.8 - - + -
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Residues in contact with LEU 269 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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265C MET* 2.8 33.7 + - + +
266C LYS* 4.0 6.1 - - - +
268C ALA* 1.3 68.5 - - - +
270C ARG* 1.3 65.4 + - - +
272C MET* 3.1 10.9 + - - -
273C GLY 3.2 0.3 + - - -
274C TYR* 3.0 42.4 + - + -
276C ILE* 4.2 15.5 - - + -
284C VAL* 4.3 24.5 - - + -
286C VAL* 4.6 11.0 - - + -
316C ILE* 5.8 0.2 - - + -
328C LEU* 3.6 20.4 - - + -
331C LEU* 3.3 36.8 - - + -
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Residues in contact with ARG 270 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C GLU* 5.5 0.6 + - - -
266C LYS* 3.2 41.1 + - - +
267C SER* 3.6 8.0 - - - +
269C LEU* 1.3 76.8 - - - +
271C GLU* 1.3 55.2 + - + +
273C GLY* 2.7 26.7 + - - -
274C TYR 4.0 12.7 - - - +
276C ILE* 3.3 41.7 + - + +
277C THR 3.6 20.4 + - - -
278C ASP* 3.9 16.8 + - - +
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Residues in contact with GLU 271 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267C SER* 2.8 36.4 + - - +
268C ALA* 3.1 12.6 + - - +
270C ARG* 1.3 76.2 - - + +
272C MET* 1.3 59.4 + - + +
273C GLY* 3.0 1.0 + - - -
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Residues in contact with MET 272 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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268C ALA* 3.1 27.4 + - + +
269C LEU* 3.1 13.6 + - - +
270C ARG 3.1 1.2 - - - -
271C GLU* 1.3 75.9 - - + +
273C GLY* 1.3 59.4 + - - +
274C TYR* 3.6 16.1 + - + -
328C LEU* 3.4 39.0 - - + +
331C LEU 3.8 4.9 - - - -
332C GLU* 3.4 45.5 - - + +
335C LYS* 3.2 26.8 - - - +
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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