Contacts of the helix formed by residues 295 - 323 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A ALA 4.1 10.1 - - - +
369A GLY* 3.8 32.8 + - - +
371A ALA* 5.6 0.6 - - - +
31C ARG* 3.9 8.5 - - - +
294C GLU* 1.3 75.6 + - - +
296C ILE* 1.3 60.4 + - + +
297C ASP* 3.0 19.2 + - - +
298C GLY* 2.7 36.8 + - - +
299C VAL* 3.0 9.7 + - - +
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Residues in contact with ILE 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C VAL 5.4 0.7 - - - +
31C ARG* 4.0 9.7 - - - +
32C PRO* 6.3 4.3 - - + -
34C LEU* 3.9 19.1 - - + -
38C GLU* 6.1 0.4 - - + -
295C ASP* 1.3 74.4 - - + +
297C ASP* 1.3 78.5 + - - +
299C VAL* 3.1 29.7 + - + +
300C TRP* 3.3 43.4 + - + +
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Residues in contact with ASP 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295C ASP* 3.0 14.3 + - - +
296C ILE* 1.3 93.0 - - - +
298C GLY* 1.3 63.7 + - - +
300C TRP* 3.3 13.5 + - - +
301C ALA* 3.0 22.1 + - - +
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Residues in contact with GLY 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A ALA* 5.7 2.0 - - - -
373A GLU* 4.1 5.1 - - - +
374A ARG* 6.1 0.7 - - - -
294C GLU* 3.6 27.6 - - - -
295C ASP* 2.7 23.8 + - - -
297C ASP* 1.3 73.1 - - - +
299C VAL* 1.3 53.6 + - - -
301C ALA* 3.4 8.4 + - - +
302C SER* 2.9 28.4 + - - -
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Residues in contact with VAL 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C VAL* 3.4 44.2 - - + +
31C ARG* 3.3 47.6 - - - +
290C PRO* 3.8 17.8 - - + +
295C ASP 3.0 7.9 + - - +
296C ILE* 3.2 15.0 - - + +
297C ASP 3.1 0.2 - - - -
298C GLY* 1.3 74.8 - - - +
300C TRP* 1.3 69.7 + - + +
302C SER* 3.2 4.2 + - - -
303C ALA* 2.9 26.0 + - - +
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Residues in contact with TRP 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C VAL* 3.6 39.9 - - + -
34C LEU* 4.0 19.5 - - + -
38C GLU* 4.4 3.5 + - + -
39C ALA* 4.1 6.5 - - - -
42C ARG* 3.4 51.0 - - + +
43C LEU* 4.3 10.5 - - + -
46C LEU* 3.8 25.6 - - + +
296C ILE* 3.3 46.5 + - + +
297C ASP* 3.3 14.4 + - - +
299C VAL* 1.3 78.1 - - + +
301C ALA* 1.3 66.0 + - - +
303C ALA* 3.3 2.9 + - + +
304C ALA* 2.9 24.8 + - - +
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Residues in contact with ALA 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A GLU* 5.0 1.6 - - - -
374A ARG* 4.4 31.6 - - + +
377A GLN* 5.7 4.2 - - - +
259C ARG* 5.2 0.2 - - - -
297C ASP 3.0 14.2 + - - +
298C GLY* 3.5 12.3 - - - +
300C TRP* 1.3 77.7 - - - +
302C SER* 1.3 57.7 + - - +
304C ALA* 3.4 7.2 + - - +
305C GLY* 2.9 24.3 + - - -
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Residues in contact with SER 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A GLU* 3.2 30.7 + - - +
259C ARG* 3.7 17.5 + - - +
288C PHE* 3.0 27.7 - - - -
290C PRO* 4.1 11.9 - - - +
291C PRO* 4.6 0.7 - - - +
298C GLY 2.9 14.9 + - - -
299C VAL 3.4 8.7 - - - -
301C ALA* 1.3 73.9 - - - +
303C ALA* 1.3 65.8 + - - +
305C GLY* 2.9 10.7 + - - -
306C CYS* 3.1 9.9 + - - -
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Residues in contact with ALA 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C PHE* 3.6 26.8 - - + -
18C VAL* 3.9 19.3 - - + -
43C LEU* 4.4 2.7 - - + -
46C LEU* 4.1 13.7 - - + -
288C PHE* 3.5 11.3 - - - -
299C VAL 2.9 16.0 + - - +
300C TRP* 3.3 6.9 + - + +
302C SER* 1.3 75.3 - - - +
304C ALA* 1.3 63.5 + - - +
306C CYS* 3.0 19.4 + - - +
307C MET* 3.5 4.0 + - - +
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Residues in contact with ALA 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C LEU* 4.2 17.4 - - + +
300C TRP 2.9 17.4 + - - +
301C ALA* 3.6 7.4 - - - +
303C ALA* 1.3 76.4 - - - +
305C GLY* 1.3 65.6 + - - +
306C CYS 3.3 0.3 + - - -
307C MET* 3.3 15.0 + - + +
308C ARG* 2.9 26.6 + - + +
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Residues in contact with GLY 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A GLN* 3.7 27.1 - - - -
259C ARG* 3.9 9.9 - - - -
301C ALA 2.9 14.5 + - - -
302C SER 2.9 6.4 + - - -
304C ALA* 1.3 77.8 - - - +
306C CYS* 1.3 61.5 + - - +
308C ARG* 4.3 2.0 - - - -
309C ASN* 2.9 29.9 + - - -
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Residues in contact with CYS 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C PHE* 4.2 0.4 - - + -
259C ARG* 3.6 15.2 - - - +
260C PHE* 3.5 31.8 - - - +
286C PHE* 3.7 40.7 - - + -
288C PHE* 3.9 29.6 - - - -
302C SER 3.1 8.8 + - - -
303C ALA 3.0 9.9 + - - +
305C GLY* 1.3 77.4 - - - +
307C MET* 1.3 64.3 + - - +
309C ASN* 3.4 2.8 + - - +
310C TYR* 3.2 15.2 + - - +
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Residues in contact with MET 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C PRO* 4.0 17.7 - - + -
11C PHE* 3.5 44.3 - - + -
13C PHE* 3.3 42.0 - - + -
46C LEU* 3.8 35.9 - - + +
48C ALA* 4.3 11.4 - - + +
286C PHE* 3.6 8.3 - - + -
303C ALA 3.5 9.4 + - - +
304C ALA* 3.3 10.3 + - - +
306C CYS* 1.3 74.5 - - - +
308C ARG* 1.3 64.3 + - - +
310C TYR* 3.1 4.2 + - - +
311C LEU* 3.0 27.8 + - - +
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Residues in contact with ARG 308 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A GLN* 3.5 22.2 - - - +
381A ASP* 2.9 37.2 + - - -
386A ALA* 4.4 1.2 - - - +
387A ARG* 4.3 18.4 - - - +
2C ASN 2.9 34.4 + - - +
3C TYR* 3.7 33.3 + - + +
5C PRO* 5.6 1.9 - - + +
304C ALA* 2.9 19.0 + - - +
305C GLY* 3.8 4.7 - - - +
307C MET* 1.3 76.6 - - - +
309C ASN* 1.3 62.4 + - - +
311C LEU* 3.3 2.5 + - - +
312C ILE* 2.9 39.3 + - + +
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Residues in contact with ASN 309 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A GLN* 2.7 38.9 + - - -
380A MET* 3.4 32.0 - - - +
384A LEU* 4.6 2.9 - - + +
259C ARG* 3.8 4.0 + - - -
260C PHE* 2.9 29.9 - - + +
261C GLY* 3.8 7.7 - - - -
265C LEU* 6.3 0.4 - - + -
305C GLY 2.9 14.5 + - - +
306C CYS 3.8 1.1 - - - +
308C ARG* 1.3 76.3 - - - +
310C TYR* 1.3 60.0 + - - +
312C ILE* 3.5 10.4 + - - +
313C LEU* 3.0 35.8 + - + +
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Residues in contact with TYR 310 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C PHE* 3.8 25.4 - + + -
246C LEU* 4.1 15.0 - - + -
260C PHE* 3.4 30.0 - + + -
272C VAL* 3.5 24.2 - - + +
275C LEU* 4.0 15.7 - - + +
276C GLU* 2.8 31.9 + - - +
284C ARG* 2.8 38.4 + - + +
286C PHE* 4.4 1.3 - - + -
306C CYS 3.2 11.4 + - - +
307C MET 3.1 9.0 + - - +
309C ASN* 1.3 74.2 - - - +
311C LEU* 1.3 64.0 + - + +
313C LEU* 3.5 3.0 + - - +
314C LYS* 2.9 34.1 + - + +
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Residues in contact with LEU 311 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C TYR* 3.4 38.0 - - + +
4C GLN 3.9 4.5 - - - +
5C PRO* 3.6 32.8 - - + -
9C ASP* 3.7 26.2 - - - +
11C PHE* 3.9 10.5 - - + -
307C MET 3.0 17.2 + - - +
308C ARG 3.3 3.8 + - - +
310C TYR* 1.3 77.4 - - + +
312C ILE* 1.3 63.2 + - - +
314C LYS* 3.4 19.9 + - + +
315C GLU* 3.1 22.2 + - - +
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Residues in contact with ILE 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381A ASP* 3.8 21.8 - - - +
384A LEU* 3.8 32.5 - - + -
386A ALA* 4.2 13.7 - - + -
3C TYR* 3.4 32.8 - - + -
308C ARG* 2.9 37.3 + - + +
309C ASN* 3.9 8.1 - - - +
311C LEU* 1.3 77.3 - - - +
313C LEU* 1.3 58.6 + - + +
315C GLU* 3.4 3.6 + - - +
316C ARG* 3.1 47.9 + - + +
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Residues in contact with LEU 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384A LEU* 4.8 8.5 - - + -
260C PHE* 4.1 8.1 - - + -
261C GLY* 5.0 3.4 - - - -
265C LEU* 4.2 16.8 - - + -
268C ALA* 3.8 38.6 - - + +
269C PHE* 4.1 14.2 - - + -
272C VAL* 3.9 18.2 - - + -
309C ASN* 3.0 27.8 + - + +
310C TYR 3.9 3.6 - - - +
312C ILE* 1.3 75.8 - - + +
314C LYS* 1.3 56.8 + - - +
316C ARG* 3.9 3.7 - - - +
317C ALA* 2.8 37.8 + - - +
383C LEU* 3.5 31.2 - - + -
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Residues in contact with LYS 314 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C ASP* 4.3 15.8 + - - +
272C VAL* 3.4 15.0 - - + +
276C GLU* 3.5 38.7 + - + +
310C TYR* 2.9 24.9 + - + +
311C LEU* 3.5 20.7 - - + +
313C LEU* 1.3 77.8 - - - +
315C GLU* 1.3 62.6 + - - +
317C ALA* 3.6 1.8 + - - +
318C ALA* 3.1 25.6 + - + +
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Residues in contact with GLU 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C TYR* 2.8 36.2 + - + -
311C LEU 3.1 10.5 + - - +
312C ILE 3.7 7.0 - - - +
314C LYS* 1.3 80.4 - - - +
316C ARG* 1.3 83.4 + - - +
318C ALA* 3.3 5.4 + - - +
319C ALA* 3.0 24.6 + - + +
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Residues in contact with ARG 316 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384A LEU* 2.5 33.1 + - - +
385A GLY 3.4 16.9 + - - -
386A ALA* 4.4 1.2 - - - +
3C TYR* 3.2 21.8 + - - -
269C PHE* 3.9 14.1 - - + -
312C ILE* 3.1 23.5 + - + +
313C LEU* 3.9 5.2 - - - +
315C GLU* 1.3 95.3 + - - +
317C ALA* 1.3 61.8 + - - +
319C ALA* 3.4 8.2 + - - +
320C PHE* 3.0 23.2 + - - +
382C HIS* 3.2 27.3 - - - +
383C LEU* 3.1 21.7 + - + +
385C GLY* 3.7 13.8 - - - +
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Residues in contact with ALA 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269C PHE* 3.5 21.9 - - + +
272C VAL* 4.8 0.7 - - + -
273C ASP* 3.8 36.9 - - + +
276C GLU* 6.1 2.0 - - + -
313C LEU 2.8 22.4 + - - +
314C LYS* 3.9 5.4 - - - +
316C ARG* 1.3 72.4 - - - +
318C ALA* 1.3 62.3 + - - +
320C PHE* 3.2 4.5 - - - +
321C ARG* 3.1 26.9 + - - +
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Residues in contact with ALA 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314C LYS* 3.1 20.2 + - + +
315C GLU* 3.6 6.1 - - - +
317C ALA* 1.3 76.2 - - - +
319C ALA* 1.3 64.4 - - - +
321C ARG* 3.2 8.1 + - - +
322C ALA* 3.0 24.4 + - - +
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Residues in contact with ALA 319 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315C GLU* 3.0 18.6 + - + +
316C ARG* 3.8 6.7 - - - +
318C ALA* 1.3 76.7 - - - +
320C PHE* 1.3 62.0 + - - +
322C ALA* 4.0 6.0 - - - +
323C ASP* 3.0 19.2 + - - +
382C HIS* 3.3 27.1 - - + +
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Residues in contact with PHE 320 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269C PHE* 4.6 6.7 - + + -
270C TRP* 4.1 11.2 - + - -
273C ASP* 4.6 4.0 - - - -
316C ARG 3.0 14.1 + - - +
317C ALA* 3.2 11.9 - - - +
319C ALA* 1.3 80.4 - - - +
321C ARG* 1.3 86.1 + - + +
322C ALA 3.4 0.2 + - - -
323C ASP 3.4 1.6 + - - -
326C VAL* 3.1 64.9 - - + +
330C LEU* 5.5 0.4 - - + -
375C LEU* 4.2 9.4 - - + -
378C LEU 3.9 0.7 - - - -
379C ALA* 3.4 44.6 - - + -
382C HIS* 3.7 18.6 + + + -
147D ALA* 3.9 28.5 - - + -
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Residues in contact with ARG 321 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270C TRP* 4.0 14.1 - - - -
273C ASP* 2.9 38.7 + - - +
277C SER* 5.6 10.6 - - - -
317C ALA 3.1 13.9 + - - +
318C ALA* 3.2 7.6 + - - +
320C PHE* 1.3 90.0 - - + +
322C ALA* 1.3 57.8 + - - +
323C ASP 4.7 0.4 - - - -
326C VAL* 5.0 2.5 - - - -
327C GLN* 3.2 23.8 - - - +
330C LEU* 4.1 31.5 - - - +
335C LEU* 6.3 0.2 - - - +
146D GLY 5.4 0.4 + - - -
147D ALA* 4.3 12.1 + - - +
327H GLN* 4.7 0.5 + - - -
331H ARG* 6.0 0.2 + - - -
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Residues in contact with ALA 322 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318C ALA 3.0 16.7 + - - +
319C ALA* 4.0 7.2 - - - +
320C PHE 3.3 0.2 - - - -
321C ARG* 1.3 75.7 - - - +
323C ASP* 1.3 67.3 + - - +
324C PRO* 3.0 11.8 - - - +
327C GLN* 3.3 11.0 - - - +
324H PRO* 4.7 7.4 - - + +
327H GLN* 3.8 9.5 + - - +
331H ARG* 5.3 13.0 - - - +
----------------------------------------------------------
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Residues in contact with ASP 323 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319C ALA 3.0 18.4 + - - +
320C PHE 3.4 0.2 + - - -
322C ALA* 1.3 75.5 - - - +
324C PRO* 1.3 71.6 - - - +
325C GLU* 2.9 19.0 + - - +
326C VAL* 2.9 37.6 + - + +
327C GLN* 3.1 11.4 + - - +
378C LEU* 5.4 0.3 - - - +
382C HIS* 3.1 14.0 + - + +
387C ARG* 2.7 36.5 + - - -
----------------------------------------------------------
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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