Contacts of the helix formed by residues 295 - 323 (chain H) in PDB entry 4HHM
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 ASP 295 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367F ALA 4.2 11.3 - - - +
369F GLY* 3.3 32.3 + - - +
371F ALA* 5.6 1.4 - - - +
31H ARG* 3.9 9.2 - - - +
294H GLU* 1.3 76.4 - - - +
296H ILE* 1.3 69.9 + - + +
297H ASP* 3.1 19.3 + - - +
298H GLY* 2.9 26.4 + - - +
299H VAL* 2.9 12.8 + - - +
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Residues in contact with ILE 296 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H VAL 5.8 0.2 - - - +
31H ARG* 4.3 5.0 - - - +
32H PRO* 6.5 0.7 - - + -
34H LEU* 4.5 16.2 - - + -
295H ASP* 1.3 80.9 - - + +
297H ASP* 1.3 85.3 + - - +
299H VAL* 3.1 29.0 + - + +
300H TRP* 3.2 43.1 - - + +
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Residues in contact with ASP 297 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374F ARG* 4.3 16.2 + - - +
295H ASP* 3.1 14.2 + - - +
296H ILE* 1.3 86.8 - - - +
298H GLY* 1.3 65.4 + - - +
300H TRP* 3.4 11.6 + - - +
301H ALA* 3.1 22.7 + - - +
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Residues in contact with GLY 298 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371F ALA* 5.8 2.2 - - - -
373F GLU* 4.3 5.0 - - - +
374F ARG* 6.0 0.9 - - - -
290H PRO* 5.1 0.2 - - - -
294H GLU* 3.9 28.5 - - - -
295H ASP* 2.9 17.0 + - - -
297H ASP* 1.3 79.1 - - - +
299H VAL* 1.3 55.6 + - - +
301H ALA* 3.7 6.2 - - - +
302H SER* 2.9 31.2 + - - -
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Residues in contact with VAL 299 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H VAL* 3.5 44.4 - - + +
31H ARG* 3.4 41.5 - - - +
290H PRO* 4.0 15.2 - - + +
294H GLU* 4.5 0.2 - - - +
295H ASP 2.9 15.4 + - - +
296H ILE* 3.1 17.0 + - + +
298H GLY* 1.3 76.9 - - - +
300H TRP* 1.3 69.0 + - + +
302H SER* 3.3 3.3 + - - -
303H ALA* 3.0 25.5 + - - +
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Residues in contact with TRP 300 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H VAL* 3.6 41.5 - - + -
34H LEU* 4.3 16.6 - - + -
38H GLU* 4.7 1.5 + - + -
39H ALA* 4.2 12.3 - - - -
42H ARG* 3.5 52.4 - - + +
43H LEU* 4.1 10.5 - - + -
46H LEU* 3.6 28.8 - - + +
296H ILE* 3.2 49.1 + - + +
297H ASP* 3.4 10.1 + - - +
298H GLY 3.3 0.2 - - - -
299H VAL* 1.3 79.8 - - + +
301H ALA* 1.3 60.7 + - - +
303H ALA* 4.2 1.6 - - + -
304H ALA* 3.0 28.8 + - - +
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Residues in contact with ALA 301 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373F GLU* 5.1 2.0 - - - -
374F ARG* 3.8 49.8 - - + +
377F GLN* 5.8 2.6 - - - +
259H ARG* 5.1 0.2 - - - -
297H ASP 3.1 17.9 + - - +
298H GLY* 3.7 7.9 - - - +
300H TRP* 1.3 75.8 - - - +
302H SER* 1.3 59.4 + - - +
304H ALA* 3.3 6.9 + - - +
305H GLY* 3.0 24.3 + - - -
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Residues in contact with SER 302 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373F GLU* 2.8 35.3 + - - +
259H ARG* 3.6 17.9 + - - +
288H PHE* 3.5 18.6 - - - -
290H PRO* 4.1 11.5 - - - +
291H PRO* 4.5 0.3 - - - +
298H GLY 2.9 17.4 + - - -
299H VAL 3.7 4.0 - - - -
301H ALA* 1.3 77.7 - - - +
303H ALA* 1.3 61.1 + - - +
305H GLY* 3.1 10.4 + - - -
306H CYS* 3.2 14.0 + - - -
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Residues in contact with ALA 303 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H PHE* 3.4 29.6 - - + -
18H VAL* 3.8 14.8 - - + -
43H LEU* 4.6 2.7 - - + -
46H LEU* 4.1 13.9 - - + -
288H PHE* 3.4 22.6 - - + -
299H VAL 3.0 17.0 + - - +
300H TRP* 3.8 7.6 - - + +
302H SER* 1.3 75.6 - - - +
304H ALA* 1.3 62.3 + - - +
306H CYS* 3.4 9.2 - - - +
307H MET* 3.8 2.8 + - - +
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Residues in contact with ALA 304 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5H PRO* 5.8 1.0 - - - +
46H LEU* 4.2 21.5 - - + +
300H TRP 3.0 18.0 + - - +
301H ALA* 3.6 7.6 - - - +
303H ALA* 1.3 74.6 - - - +
305H GLY* 1.3 66.0 + - - +
306H CYS 3.3 0.2 + - - -
307H MET* 3.4 10.6 + - + +
308H ARG* 3.0 25.5 + - - +
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Residues in contact with GLY 305 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377F GLN* 3.8 23.1 - - - -
259H ARG* 4.1 6.3 - - - -
301H ALA 3.0 15.0 + - - -
302H SER 3.1 4.8 + - - -
304H ALA* 1.3 78.5 - - - +
306H CYS* 1.3 55.6 + - - +
308H ARG* 4.2 5.4 - - - -
309H ASN* 2.9 39.6 + - - -
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Residues in contact with CYS 306 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H PHE* 4.2 0.2 - - + -
259H ARG* 3.7 15.4 - - - +
260H PHE* 3.6 33.7 - - - +
286H PHE* 3.5 39.6 - - + -
288H PHE* 3.9 28.7 - - - -
302H SER 3.2 12.6 + - - -
303H ALA 3.4 9.2 - - - +
304H ALA 3.2 0.6 - - - -
305H GLY* 1.3 77.3 - - - +
307H MET* 1.3 63.4 + - - +
309H ASN* 3.5 0.9 + - - +
310H TYR* 3.3 14.7 + - - +
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Residues in contact with MET 307 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5H PRO* 4.0 18.8 - - + -
11H PHE* 3.6 47.5 - - + -
13H PHE* 3.7 33.7 - - + -
43H LEU* 5.8 0.2 - - + -
46H LEU* 3.7 41.7 - - + +
48H ALA* 4.1 12.3 - - + +
286H PHE* 3.9 7.9 - - + -
303H ALA 3.8 6.9 + - - +
304H ALA* 3.4 10.0 + - + +
305H GLY 3.4 0.2 - - - -
306H CYS* 1.3 76.9 - - - +
308H ARG* 1.3 66.2 - - - +
310H TYR* 3.1 4.9 + - - +
311H LEU* 3.0 27.1 + - - +
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Residues in contact with ARG 308 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377F GLN* 3.7 21.8 - - - +
381F ASP* 2.9 21.5 + - - -
386F ALA* 2.8 28.9 + - - +
387F ARG* 5.0 2.2 - - - +
2H ASN 3.3 27.5 + - - +
3H TYR* 3.8 29.4 + - + +
5H PRO* 5.6 2.4 - - + +
304H ALA 3.0 18.7 + - - +
305H GLY* 3.7 4.5 - - - +
307H MET* 1.3 77.6 - - - +
309H ASN* 1.3 62.6 + - - +
311H LEU* 3.2 8.3 + - - +
312H ILE* 3.0 33.2 + - + +
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Residues in contact with ASN 309 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377F GLN* 2.6 42.5 + - - +
380F MET* 3.5 22.6 - - - +
384F LEU* 4.8 3.2 - - + +
259H ARG* 3.9 4.0 + - - -
260H PHE* 2.9 29.4 - - + +
261H GLY* 3.9 15.2 - - - -
265H LEU* 6.1 0.7 - - + -
305H GLY 2.9 16.3 + - - +
306H CYS 4.0 0.7 - - - +
308H ARG* 1.3 73.9 - - - +
310H TYR* 1.3 60.6 + - - +
312H ILE* 3.9 11.5 - - - +
313H LEU* 3.0 34.1 + - + +
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Residues in contact with TYR 310 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H PHE* 3.9 22.0 - + + -
246H LEU* 4.0 17.9 - - + -
260H PHE* 3.6 27.3 - + + -
272H VAL* 3.8 25.0 - - + +
275H LEU* 4.0 18.0 - - + +
276H GLU* 2.5 31.7 + - - -
284H ARG* 3.1 35.9 + - + -
286H PHE* 4.4 0.7 - - + -
306H CYS 3.3 12.4 + - - +
307H MET 3.1 9.4 + - - +
309H ASN* 1.3 76.0 - - - +
311H LEU* 1.3 61.8 + - + +
313H LEU* 3.5 2.9 + - - +
314H LYS* 2.9 33.4 + - + +
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Residues in contact with LEU 311 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3H TYR* 3.1 43.4 - - + +
4H GLN 4.0 1.8 - - - +
5H PRO* 3.7 29.8 - - + -
9H ASP* 4.1 15.9 - - - +
11H PHE* 4.0 19.3 - - + -
307H MET 3.0 16.6 + - - +
308H ARG 3.6 7.2 - - - +
310H TYR* 1.3 79.7 - - + +
312H ILE* 1.3 59.2 + - - +
314H LYS* 3.6 20.3 + - + +
315H GLU* 3.2 21.7 + - - +
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Residues in contact with ILE 312 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381F ASP* 4.0 13.5 - - - +
384F LEU* 3.6 32.8 - - + -
386F ALA* 3.2 24.5 - - + -
3H TYR* 3.8 26.2 - - + -
308H ARG* 3.0 30.7 + - + +
309H ASN* 3.9 10.5 - - - +
311H LEU* 1.3 75.9 - - - +
313H LEU* 1.3 59.7 + - - +
315H GLU* 3.1 3.6 + - - +
316H ARG* 2.8 61.5 + - + +
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Residues in contact with LEU 313 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384F LEU* 4.4 9.6 - - + -
260H PHE* 4.2 5.6 - - + -
261H GLY* 5.1 2.7 - - - -
265H LEU* 4.4 16.2 - - + +
268H ALA* 3.5 43.5 - - + +
269H PHE* 4.0 10.9 - - + -
272H VAL* 3.8 22.6 - - + +
309H ASN* 3.0 22.8 + - + +
310H TYR 3.9 0.2 - - - +
312H ILE* 1.3 74.7 - - + +
314H LYS* 1.3 61.2 + - - +
316H ARG* 3.9 3.3 - - - +
317H ALA* 2.9 33.8 + - - +
383H LEU* 3.5 32.1 - - + -
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Residues in contact with LYS 314 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H ASP* 4.8 11.3 + - - +
272H VAL* 3.5 14.1 - - + +
276H GLU* 3.8 35.3 + - + +
310H TYR* 2.9 27.2 + - + +
311H LEU* 3.6 20.2 - - + +
312H ILE 3.1 0.2 - - - -
313H LEU* 1.3 78.1 - - - +
315H GLU* 1.3 61.4 - - - +
317H ALA* 3.9 2.1 - - - +
318H ALA* 3.0 26.7 + - + +
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Residues in contact with GLU 315 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3H TYR* 2.9 34.5 + - + -
311H LEU 3.2 10.4 + - - +
312H ILE 3.1 8.0 + - - +
314H LYS* 1.3 82.9 - - - +
316H ARG* 1.3 76.3 + - - +
318H ALA* 3.4 5.5 + - - +
319H ALA* 3.1 26.2 + - + +
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Residues in contact with ARG 316 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384F LEU* 2.5 30.7 + - - +
385F GLY 3.3 18.4 + - - -
386F ALA* 4.2 4.8 - - - +
3H TYR* 3.5 17.6 + - - -
269H PHE* 3.7 15.9 - - + -
312H ILE* 2.8 30.2 + - + +
313H LEU* 3.9 4.0 - - - +
315H GLU* 1.3 94.3 + - - +
317H ALA* 1.3 58.7 + - - +
319H ALA* 3.7 4.6 + - - +
320H PHE* 3.1 27.5 + - - +
382H HIS* 3.4 25.3 - - - +
383H LEU* 3.0 27.7 + - + +
385H GLY* 3.5 17.0 - - - +
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Residues in contact with ALA 317 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269H PHE* 3.4 19.9 - - + -
272H VAL* 4.9 0.7 - - + -
273H ASP* 3.8 35.7 - - - +
276H GLU* 6.1 2.7 - - + -
313H LEU 2.9 18.2 + - - +
314H LYS* 3.9 4.9 - - - +
316H ARG* 1.3 75.4 - - - +
318H ALA* 1.3 60.3 + - - +
320H PHE* 3.4 1.8 - - - +
321H ARG* 3.0 33.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 318 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314H LYS* 3.0 20.3 + - + +
315H GLU* 3.8 5.8 - - - +
317H ALA* 1.3 74.5 - - - +
319H ALA* 1.3 60.5 + - - +
321H ARG* 3.3 7.0 + - - +
322H ALA* 2.9 30.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 319 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315H GLU* 3.1 16.2 + - + +
316H ARG* 4.1 4.5 - - - +
318H ALA* 1.3 76.5 - - - +
320H PHE* 1.3 66.4 + - - +
322H ALA* 3.6 6.3 - - - +
323H ASP* 2.9 25.6 + - - +
382H HIS* 3.6 18.9 - - + +
----------------------------------------------------------
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Residues in contact with PHE 320 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147G ALA* 3.9 16.8 - - + -
269H PHE* 4.4 10.3 - + + -
270H TRP* 4.1 11.7 - + - -
273H ASP* 4.4 3.8 - - - -
316H ARG 3.1 20.2 + - - +
317H ALA* 3.4 8.5 - - - +
318H ALA 3.2 0.4 - - - -
319H ALA* 1.3 80.4 - - - +
321H ARG* 1.3 97.6 + - - +
323H ASP 3.2 2.8 + - - -
326H VAL* 3.2 62.2 - - + +
375H LEU* 4.3 7.6 - - + -
379H ALA* 3.4 43.1 - - + -
382H HIS* 3.6 20.1 + + + -
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Residues in contact with ARG 321 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327C GLN* 5.0 0.2 + - - -
331C ARG* 6.2 0.7 - - - -
146G GLY 5.0 1.8 + - - -
147G ALA* 4.4 10.5 + - - +
150G ASP* 5.9 1.0 + - - -
270H TRP* 4.3 6.9 - - - -
273H ASP* 2.9 37.1 + - - +
277H SER* 5.5 12.5 + - - -
317H ALA 3.0 20.1 + - - +
318H ALA* 3.8 5.4 - - - +
320H PHE* 1.3 95.7 - - + +
322H ALA* 1.3 59.5 + - - +
323H ASP 3.3 1.2 + - - -
326H VAL* 4.8 2.8 - - - +
327H GLN* 3.5 19.9 - - - +
330H LEU* 3.7 39.1 - - - +
----------------------------------------------------------
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Residues in contact with ALA 322 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C PRO* 4.2 11.7 - - + +
327C GLN* 4.0 10.8 + - - +
331C ARG* 4.9 18.6 - - - +
318H ALA 2.9 18.7 + - - +
319H ALA* 3.6 6.7 - - - +
320H PHE 3.2 0.4 - - - -
321H ARG* 1.3 75.9 - - - +
323H ASP* 1.3 62.3 + - - +
324H PRO* 3.5 7.3 - - - +
327H GLN* 3.4 11.0 - - - +
----------------------------------------------------------
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Residues in contact with ASP 323 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319H ALA 2.9 10.6 + - - +
320H PHE 3.2 14.7 + - - +
322H ALA* 1.3 76.0 - - - +
324H PRO* 1.3 73.4 - - - +
325H GLU* 2.8 34.2 + - - +
326H VAL* 3.1 12.7 + - + +
327H GLN* 3.0 24.3 + - - +
382H HIS* 2.7 26.3 + - + +
387H ARG* 3.1 20.5 + - - -
----------------------------------------------------------
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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