Contacts of the helix formed by residues 291 - 319 (chain C) in PDB entry 1IVH
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 GLN 291 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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290A PHE* 3.2 24.4 - - - +
291A GLN* 3.1 24.9 + - + +
292A LEU* 3.1 43.4 + - + +
383B LEU* 3.5 22.8 - - + +
399B FAD 3.0 30.1 + - - -
289C HIS 3.9 1.0 + - - -
290C PHE* 1.3 69.2 - - - +
292C LEU* 1.3 53.1 + - - +
294C GLN* 3.0 13.7 + - - +
295C GLY* 2.8 33.4 + - - -
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Residues in contact with LEU 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291A GLN* 3.0 41.7 + - + +
292A LEU* 3.8 22.0 - - + -
295A GLY* 5.2 6.5 - - - -
291C GLN* 1.3 75.8 - - - +
293C MET* 1.3 58.8 + - - +
295C GLY* 3.7 1.2 + - - -
296C LYS* 3.1 30.3 + - - +
379D GLU* 3.7 46.4 - - + +
382D ARG* 4.8 13.5 - - + -
383D LEU* 4.5 6.3 - - + -
399D FAD 3.9 11.0 - - + -
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Residues in contact with MET 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277C LEU* 3.9 12.7 - - + +
287C ILE* 3.2 32.1 - - + +
288C GLY* 4.0 8.3 - - - -
290C PHE 2.8 5.1 + - - +
292C LEU* 1.3 76.7 - - - +
294C GLN* 1.3 63.3 + - - +
295C GLY 3.2 1.8 - - - -
296C LYS* 3.3 20.0 + - + +
297C MET* 3.2 29.3 + - - +
348C GLN* 5.5 0.4 - - + -
349C CYS* 4.3 19.7 - - - -
379D GLU* 3.7 26.9 - - + -
399D FAD 3.5 52.7 - - + +
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Residues in contact with GLN 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382B ARG 4.1 7.4 - - - +
383B LEU* 3.4 26.4 - - + +
386B GLY* 3.8 21.4 - - - -
387B ARG* 3.4 26.6 + - - +
390B ASN* 2.8 27.3 - - - +
288C GLY 3.5 18.6 - - - +
289C HIS 4.2 9.5 + - - +
290C PHE 2.9 11.5 + - - +
291C GLN* 3.5 17.9 + - - +
293C MET* 1.3 74.6 - - - +
295C GLY* 1.3 64.0 + - - +
297C MET* 3.2 7.6 + - - +
298C ALA* 3.0 22.9 + - - +
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Residues in contact with GLY 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292A LEU* 5.3 3.8 - - - -
382B ARG* 3.8 27.7 - - - +
291C GLN 2.8 14.4 + - - -
292C LEU* 4.0 3.1 - - - -
294C GLN* 1.3 78.6 - - - +
296C LYS* 1.3 60.1 + - - +
298C ALA* 3.4 1.6 + - - +
299C ASP* 3.0 33.8 + - - +
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Residues in contact with LYS 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292C LEU* 3.1 19.4 + - - +
293C MET* 3.4 21.1 - - + +
294C GLN 3.2 0.2 - - - -
295C GLY* 1.3 77.5 - - - +
297C MET* 1.3 59.7 + - + +
299C ASP* 3.4 7.6 + - - +
300C MET* 3.0 32.8 + - - +
345C ASP* 2.9 42.5 + - + +
348C GLN* 3.7 23.2 - - - +
349C CYS* 4.2 18.6 - - - -
379D GLU* 3.7 22.4 + - - -
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Residues in contact with MET 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386B GLY* 4.4 9.2 - - - +
389B PHE* 3.6 29.5 - - + -
270C LEU* 5.0 0.5 - - - +
273C THR* 5.8 1.1 - - + -
274C ILE* 3.5 31.0 - - + -
277C LEU* 3.5 27.1 - - + -
278C HIS* 3.1 34.8 - - + +
288C GLY 4.6 5.6 - - - +
293C MET 3.2 14.6 + - - +
294C GLN* 3.2 13.2 + - - +
296C LYS* 1.3 72.6 - - + +
298C ALA* 1.3 56.0 + - - +
300C MET* 3.3 9.5 + - - +
301C TYR* 2.7 40.3 + - - +
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Residues in contact with ALA 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B LEU* 4.4 2.9 - - + -
382B ARG* 4.0 22.4 - - + -
385B ILE* 3.7 40.5 - - + +
294C GLN 3.0 13.2 + - - +
295C GLY 3.5 8.3 - - - +
297C MET* 1.3 76.3 - - - +
299C ASP* 1.3 58.8 + - - +
301C TYR* 3.4 0.7 - - - +
302C THR* 2.8 36.5 + - - +
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Residues in contact with ASP 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B LEU* 4.9 3.3 - - - +
382B ARG* 3.1 35.9 + - - -
295C GLY 3.0 20.7 + - - +
296C LYS* 3.7 7.7 - - - +
298C ALA* 1.3 76.4 - - - +
300C MET* 1.3 62.5 + - - +
302C THR* 3.4 5.9 + - - -
303C ARG* 3.2 46.8 + - - +
345C ASP* 5.0 3.4 - - - +
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Residues in contact with MET 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269C VAL* 3.3 34.1 - - + -
270C LEU* 3.7 22.1 - - + +
273C THR* 3.7 31.4 - - + +
296C LYS 3.0 32.7 + - - +
297C MET* 3.7 10.3 - - - +
299C ASP* 1.3 76.8 - - - +
301C TYR* 1.3 60.6 + - - +
303C ARG* 4.1 5.8 - - - +
304C LEU* 3.3 23.6 + - - +
342C VAL* 3.8 35.0 - - + +
345C ASP* 4.0 20.6 - - - -
346C GLY* 4.3 3.1 - - - -
349C CYS* 4.6 4.9 - - - -
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Residues in contact with TYR 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B TYR* 5.0 3.4 - - - -
326B LYS* 3.6 37.4 - - + -
327B ASP* 3.0 35.6 + - - -
385B ILE* 3.7 20.6 - - + -
389B PHE* 3.7 24.9 - + + -
8C ASP* 5.4 2.6 + - - +
270C LEU* 4.3 19.1 - - + -
297C MET 2.7 20.5 + - - +
298C ALA 3.4 2.2 - - - +
300C MET* 1.3 76.0 - - - +
302C THR* 1.3 67.4 + - + +
304C LEU* 3.4 5.1 + - + +
305C MET* 3.0 52.5 + - + +
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Residues in contact with THR 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B TYR* 3.6 26.6 - - - +
330B GLY* 3.7 24.0 - - - +
333B LEU* 4.6 8.6 - - + +
334B TYR* 3.8 22.3 - - + +
385B ILE* 4.0 12.8 - - + -
298C ALA 2.8 24.4 + - - +
299C ASP* 3.4 9.2 + - - -
301C TYR* 1.3 72.1 - - + +
303C ARG* 1.3 57.8 + - - +
305C MET* 3.1 1.1 + - - +
306C ALA* 2.7 37.7 + - - +
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Residues in contact with ARG 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334B TYR* 3.9 30.1 - - + +
266C MET* 4.3 2.0 - - - +
299C ASP* 3.2 26.7 + - + +
300C MET* 4.1 14.0 - - - +
302C THR* 1.3 75.8 + - - +
304C LEU* 1.3 61.2 + - - +
306C ALA* 4.6 0.2 - - - -
307C CYS* 3.2 32.6 + - - -
338C CYS* 4.1 24.5 - - + +
341C GLN* 3.8 23.0 + - - +
342C VAL* 3.3 38.0 - - + +
345C ASP* 3.3 25.1 + - - -
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Residues in contact with LEU 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C LEU* 3.8 16.2 - - + +
266C MET* 3.6 49.3 - - + +
267C GLN* 4.1 7.0 - - - +
270C LEU* 4.0 17.5 - - + -
300C MET 3.3 17.7 + - - +
301C TYR* 3.6 6.5 - - + +
302C THR 3.2 0.2 - - - -
303C ARG* 1.3 77.9 - - - +
305C MET* 1.3 68.0 + - - +
307C CYS* 4.0 0.9 - - - +
308C ARG* 3.0 70.4 + - - +
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Residues in contact with MET 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B TYR* 3.8 24.5 - - + +
314B VAL* 6.1 0.2 - - + -
327B ASP* 4.1 10.3 - - - +
8C ASP* 4.4 18.4 - - + +
10C ILE* 4.1 26.2 - - + -
11C ASN* 4.6 3.6 - - - +
301C TYR* 3.0 56.3 + - + +
302C THR 3.1 4.0 + - - +
304C LEU* 1.3 76.5 - - + +
306C ALA* 1.3 64.6 + - - +
308C ARG* 3.2 21.4 + - - -
309C GLN* 3.1 41.8 + - - +
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Residues in contact with ALA 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306B ALA* 4.3 12.7 - - + +
310B TYR* 4.0 21.9 - - + -
334B TYR* 3.5 35.0 - - + +
302C THR 2.7 20.8 + - - +
303C ARG 4.1 3.1 - - - +
305C MET* 1.3 73.7 - - - +
307C CYS* 1.3 58.2 + - - +
309C GLN* 3.2 3.1 + - - +
310C TYR* 2.9 29.6 + - - +
334C TYR* 4.9 1.3 - - + -
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Residues in contact with CYS 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C LEU* 3.9 12.3 - - + +
266C MET* 3.9 5.8 - - + -
303C ARG 3.2 22.7 + - - +
304C LEU 4.0 0.4 - - - +
306C ALA* 1.3 79.4 - - - +
308C ARG* 1.3 63.0 + - - +
310C TYR* 3.5 7.6 - - - +
311C VAL* 3.0 28.8 + - - +
334C TYR* 3.7 15.0 - - - -
335C SER* 3.6 32.7 + - - +
338C CYS* 3.6 29.6 - - - -
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Residues in contact with ARG 308 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C ASP* 3.5 25.7 + - - +
8C ASP 5.3 1.4 - - - +
11C ASN* 4.0 6.8 - - - +
21C ARG* 4.5 0.2 - - - +
84C GLU* 2.6 33.3 + - - -
263C LEU* 3.8 20.8 - - - +
267C GLN* 2.9 36.0 + - - +
304C LEU* 3.0 43.6 + - - +
305C MET* 3.4 17.7 - - - +
306C ALA 3.2 0.2 - - - -
307C CYS* 1.3 77.1 - - - +
309C GLN* 1.3 68.6 + - - +
311C VAL* 3.4 0.3 - - - +
312C TYR* 2.9 70.6 + - + -
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Residues in contact with GLN 309 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B GLN* 3.6 19.1 - - - +
310B TYR* 3.9 20.2 - - + +
313B ASN* 2.9 38.0 + - + +
10C ILE* 3.9 10.9 - - + +
11C ASN* 3.0 39.7 + - - +
305C MET* 3.1 34.7 + - - +
306C ALA 3.7 4.3 - - - +
308C ARG* 1.3 78.2 - - - +
310C TYR* 1.3 68.2 + - - +
312C TYR* 4.4 2.4 - - - -
313C ASN* 3.0 27.4 + - - +
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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
----------------------------------------------------------
301B TYR* 4.7 5.5 - - - -
302B THR* 3.7 28.7 - - - +
305B MET* 3.6 33.0 - - + +
306B ALA* 3.9 17.7 - - + -
309B GLN* 3.9 19.6 - - + +
306C ALA 2.9 16.9 + - - +
307C CYS* 3.5 7.6 - - - +
309C GLN* 1.3 81.2 - - - +
311C VAL* 1.3 63.1 + - - +
313C ASN* 3.9 1.2 - - - +
314C VAL* 3.2 28.7 + - + +
327C ASP* 4.8 6.2 + - - -
330C GLY* 3.7 15.4 - - - -
331C VAL* 3.7 37.7 - - + -
334C TYR* 3.9 19.1 - + + -
335C SER* 5.3 0.9 - - - -
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Residues in contact with VAL 311 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C VAL* 4.3 11.9 - - + -
256C LEU* 3.8 14.8 - - + +
259C ALA* 3.6 28.7 - - + +
263C LEU* 3.3 33.2 - - + -
307C CYS 3.0 18.4 + - - +
308C ARG 3.4 2.0 - - - +
310C TYR* 1.3 78.9 - - - +
312C TYR* 1.3 69.4 + - + +
314C VAL* 3.5 1.2 + - - +
315C ALA* 3.0 22.7 + - - +
331C VAL* 3.8 22.0 - - + -
335C SER* 4.8 2.7 - - - +
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Residues in contact with TYR 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313B ASN* 5.3 0.2 - - - +
11C ASN* 3.2 45.5 - - + +
13C LEU* 3.7 19.5 - - + -
21C ARG* 2.8 21.3 + - - -
77C LEU* 3.9 14.3 - - + +
80C VAL* 4.3 7.9 - - + -
81C LEU* 3.6 13.3 - - + +
84C GLU* 2.7 23.0 + - - -
263C LEU* 3.7 21.5 - - + -
308C ARG* 2.9 35.9 + - + +
309C GLN* 3.9 4.9 - - - +
311C VAL* 1.3 80.8 - - + +
313C ASN* 1.3 59.6 - - - +
315C ALA* 3.2 4.4 + - - +
316C LYS* 2.9 42.9 + - - +
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Residues in contact with ASN 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ILE* 3.9 15.3 - - + +
11B ASN 4.7 6.9 + - - -
12B GLY* 6.2 0.2 - - - -
309B GLN* 2.9 39.8 + - - +
313B ASN* 2.9 32.6 + - - +
316B LYS* 4.8 4.4 + - - +
309C GLN 3.0 14.1 + - - +
310C TYR 3.9 2.0 - - - +
312C TYR* 1.3 74.1 - - - +
314C VAL* 1.3 65.6 + - + +
316C LYS* 2.8 39.1 + - - +
317C ALA* 3.0 24.4 + - - +
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Residues in contact with VAL 314 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ILE* 4.1 27.4 - - + -
305B MET* 6.1 0.2 - - + -
309B GLN* 5.9 1.1 - - + -
256C LEU* 3.7 19.3 - - + -
310C TYR* 3.2 25.0 + - + +
311C VAL 3.9 2.2 - - - +
313C ASN* 1.3 76.1 - - + +
315C ALA* 1.3 58.6 + - - +
317C ALA* 3.4 2.4 + - - +
318C CYS* 2.9 43.2 + - - -
327C ASP* 4.2 25.6 - - + +
328C CYS* 4.9 1.8 - - - +
331C VAL* 3.6 28.0 - - + -
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Residues in contact with ALA 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C TYR* 4.3 3.9 - - - +
77C LEU* 3.9 27.3 + - + +
80C VAL* 4.4 8.1 - - + -
256C LEU* 4.0 21.1 - - + +
311C VAL 3.0 18.9 + - - +
312C TYR 3.2 5.6 + - - +
314C VAL* 1.3 75.5 - - - +
316C LYS* 1.3 64.2 + - - +
318C CYS* 3.2 2.6 + - - +
319C ASP* 2.8 29.9 + - - +
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Residues in contact with LYS 316 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313B ASN* 4.4 1.2 - - - +
316B LYS* 6.1 0.6 - - - +
11C ASN 3.2 20.1 + - - -
12C GLY* 3.7 23.3 - - - -
77C LEU* 4.0 23.1 - - + -
312C TYR* 2.9 27.1 + - - +
313C ASN* 2.8 34.9 + - - +
315C ALA* 1.3 74.2 - - - +
317C ALA* 1.3 62.3 + - - +
319C ASP* 3.1 22.5 + - - +
320C GLU* 3.1 17.7 + - + +
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Residues in contact with ALA 317 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ILE* 3.3 39.3 - - + +
313C ASN 3.0 12.3 + - - +
314C VAL 3.5 4.0 - - - +
316C LYS* 1.3 78.2 - - - +
318C CYS* 1.3 55.0 + - - +
320C GLU* 2.9 22.2 + - - +
321C GLY 3.2 0.3 + - - -
322C HIS* 2.9 34.7 + - + +
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Residues in contact with CYS 318 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C TYR* 4.5 11.1 - - + -
256C LEU* 3.7 22.9 - - + -
314C VAL* 2.9 36.4 + - - +
315C ALA 3.2 6.3 + - - +
317C ALA* 1.3 76.0 - - - +
319C ASP* 1.3 59.1 + - - +
321C GLY* 2.9 19.6 + - - -
322C HIS 3.6 10.3 - - - -
323C CYS* 2.4 46.5 - - - -
328C CYS* 4.5 3.4 - - - -
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Residues in contact with ASP 319 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C GLY* 3.4 10.5 - - - -
76C TYR* 2.8 38.0 + - - +
77C LEU* 3.3 24.4 + - - +
78C GLU* 4.7 1.3 - - - +
315C ALA 2.8 17.2 + - - +
316C LYS* 3.1 10.6 + - - +
318C CYS* 1.3 76.5 - - - +
320C GLU* 1.3 64.1 + - + +
321C GLY 3.1 1.3 + - - -
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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