Contacts of the helix formed by residues 305 - 334 (chain C) in PDB entry 4H9Q
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 PRO 305 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303C GLY 3.6 7.4 - - - +
304C LEU* 1.3 88.0 - - + +
306C ARG* 1.3 67.4 + - - +
307C GLN* 4.7 2.7 - - + +
308C GLN* 3.1 32.5 + - + +
309C LEU* 3.1 19.1 + - - +
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Residues in contact with ARG 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A ALA* 5.9 4.2 - - - +
304C LEU 3.9 0.6 + - - -
305C PRO* 1.3 72.9 - - - +
307C GLN* 1.3 66.2 + - + +
309C LEU* 3.3 12.9 + - - +
310C GLN* 2.9 59.6 + - - +
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Residues in contact with GLN 307 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305C PRO* 3.3 2.7 - - + +
306C ARG* 1.3 84.5 - - + +
308C GLN* 1.3 60.5 + - - +
310C GLN* 3.4 15.2 + - - +
311C LEU* 3.0 29.5 + - - +
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Residues in contact with GLN 308 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264C TYR* 3.4 33.7 + - - -
304C LEU* 3.7 14.8 - - + +
305C PRO* 3.1 38.8 + - + +
307C GLN* 1.3 74.3 - - - +
309C LEU* 1.3 61.3 + - - +
311C LEU* 3.4 5.6 + - - +
312C MET* 2.9 39.2 + - + +
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Residues in contact with LEU 309 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C LEU* 4.2 9.8 - - + +
293C VAL* 3.6 26.9 - - + +
294C GLU* 4.0 25.6 - - + +
297C ALA* 3.8 18.2 - - + -
304C LEU* 3.6 42.8 - - + +
305C PRO 3.1 14.6 + - - +
306C ARG* 3.5 13.5 - - - +
308C GLN* 1.3 77.9 - - - +
310C GLN* 1.3 57.3 + - - +
312C MET* 3.5 4.9 + - + +
313C ALA* 2.9 31.0 + - - +
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Residues in contact with GLN 310 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A ALA* 4.9 14.5 - - - +
286C TYR* 3.5 18.5 + - - +
290C LEU* 4.3 14.3 - - + +
294C GLU* 6.1 0.2 - - - +
306C ARG* 2.9 57.5 + - + +
307C GLN* 3.7 14.9 - - - +
308C GLN 3.3 0.2 - - - -
309C LEU* 1.3 76.8 - - - +
311C LEU* 1.3 57.8 + - - +
313C ALA 3.3 0.9 + - - -
314C GLN* 3.0 44.2 + - - +
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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
----------------------------------------------------------
307C GLN 3.0 18.0 + - - +
308C GLN* 3.9 4.9 - - - +
310C GLN* 1.3 77.1 - - - +
312C MET* 1.3 63.9 + - - +
314C GLN* 3.2 14.0 + - + +
315C ASP* 3.0 50.2 + - - +
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Residues in contact with MET 312 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C TYR* 4.8 1.0 + - - -
262C THR* 3.5 36.7 - - + +
264C TYR* 4.0 15.9 - - + -
267C VAL* 4.2 10.8 - - + -
293C VAL* 4.0 21.5 - - + -
304C LEU* 3.9 14.8 - - + -
308C GLN* 2.9 46.7 + - + +
309C LEU* 3.6 5.6 - - - +
311C LEU* 1.3 76.0 - - - +
313C ALA* 1.3 57.2 + - - +
315C ASP* 3.5 6.3 + - - +
316C ALA* 3.0 30.2 + - - +
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Residues in contact with ALA 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286C TYR* 3.7 12.7 - - + -
289C VAL* 3.7 4.8 - - - +
290C LEU* 3.7 35.7 - - + +
293C VAL* 4.2 13.4 - - + +
309C LEU 2.9 18.1 + - - +
310C GLN 3.6 4.3 - - - +
311C LEU 3.2 0.2 - - - -
312C MET* 1.3 77.4 - - - +
314C GLN* 1.3 57.9 + - - +
316C ALA* 3.4 1.2 + - - +
317C PHE* 2.9 31.2 + - - +
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Residues in contact with GLN 314 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ILE* 3.7 27.1 - - + +
286C TYR* 3.4 33.6 + - + -
310C GLN* 3.0 29.2 + - - +
311C LEU* 3.2 13.9 + - + +
313C ALA* 1.3 73.2 - - - +
315C ASP* 1.3 69.1 + - - +
317C PHE* 3.8 4.6 - - - +
318C ARG* 3.0 33.7 + - - +
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Residues in contact with ASP 315 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C TYR* 5.3 1.8 - - - +
311C LEU* 3.0 42.3 + - - +
312C MET* 3.9 5.7 - - - +
314C GLN* 1.3 74.8 - - - +
316C ALA* 1.3 62.6 + - - +
318C ARG* 3.4 30.7 + - - +
319C ASP* 3.0 35.1 + - - +
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Residues in contact with ALA 316 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C TYR* 3.3 27.3 + - + +
262C THR* 5.3 0.7 - - + -
271C ILE* 3.7 28.0 - - + -
289C VAL* 4.0 7.6 - - + -
312C MET 3.0 18.1 + - - +
313C ALA* 3.6 4.5 - - - +
315C ASP* 1.3 77.2 - - - +
317C PHE* 1.3 57.1 + - - +
319C ASP* 3.1 2.9 + - - +
320C VAL* 2.9 35.4 + - - +
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Residues in contact with PHE 317 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ASN* 3.5 31.0 - - - -
109A LEU* 3.6 32.3 - - + +
112A ILE* 3.7 25.1 - - + -
283C PHE* 5.2 1.3 - + - -
284C PRO* 3.5 23.1 - - + -
285C ASP 3.6 0.4 - - - -
286C TYR* 3.4 39.7 - + + -
289C VAL* 3.8 23.0 - - + +
313C ALA 2.9 21.1 + - - +
314C GLN 3.8 3.8 - - - +
315C ASP 3.4 0.2 - - - -
316C ALA* 1.3 71.5 - - - +
318C ARG* 1.3 63.9 + - - +
320C VAL* 3.7 9.1 - - + +
321C GLY* 2.9 22.1 + - - -
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Residues in contact with ARG 318 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 5.5 3.3 - - - +
131A ARG* 6.3 1.3 - - - +
314C GLN* 3.0 20.1 + - - +
315C ASP* 3.4 41.2 + - - +
317C PHE* 1.3 79.4 - - - +
319C ASP* 1.3 73.8 + - - +
321C GLY* 3.2 2.3 + - - -
322C ILE* 3.2 38.9 + - + +
----------------------------------------------------------
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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
----------------------------------------------------------
259C TYR* 4.0 24.7 + - + -
261C GLY* 5.3 3.5 - - - -
315C ASP* 3.0 22.6 + - - +
316C ALA 3.1 3.8 + - - +
318C ARG* 1.3 93.1 + - - +
320C VAL* 1.3 62.3 + - - +
322C ILE* 3.6 12.6 + - - +
323C ARG* 3.6 28.3 + - - +
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Residues in contact with VAL 320 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257C ILE* 5.8 0.2 - - + -
259C TYR* 3.7 26.2 - - + -
271C ILE* 4.0 11.9 - - + -
275C ILE* 3.9 40.6 - - + -
284C PRO* 4.9 1.3 - - + -
289C VAL* 4.8 10.1 - - + -
316C ALA 2.9 25.0 + - - +
317C PHE* 3.7 14.4 - - + +
319C ASP* 1.3 71.2 - - - +
321C GLY* 1.3 63.3 + - - +
323C ARG* 3.2 9.8 + - - +
324C LEU* 2.9 39.5 + - + +
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Residues in contact with GLY 321 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 3.7 28.3 - - - -
283C PHE* 4.2 3.0 - - - -
317C PHE* 2.9 19.1 + - - -
318C ARG 3.2 1.7 + - - -
320C VAL* 1.3 79.0 - - - +
322C ILE* 1.3 62.5 + - - +
324C LEU* 3.8 7.7 - - - +
325C GLN* 3.0 28.6 + - - +
----------------------------------------------------------
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Residues in contact with ILE 322 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 4.9 1.0 - - + +
131A ARG* 5.3 11.2 - - - +
318C ARG* 3.2 29.6 + - + +
319C ASP* 3.7 12.6 - - - +
321C GLY* 1.3 77.3 - - - +
323C ARG* 1.3 63.6 + - - +
325C GLN* 3.4 8.2 + - - +
326C GLU* 3.0 32.5 + - + +
----------------------------------------------------------
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Residues in contact with ARG 323 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257C ILE* 3.8 30.9 - - + +
258C PRO* 2.6 41.8 + - - +
259C TYR* 4.3 17.0 - - - +
260C ARG 5.4 0.2 - - - +
319C ASP* 3.6 19.0 + - - +
320C VAL* 3.2 9.9 + - - +
322C ILE* 1.3 82.4 - - - +
324C LEU* 1.3 61.6 + - - +
326C GLU* 3.4 16.8 + - - +
327C ARG* 2.9 30.5 + - - +
----------------------------------------------------------
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Residues in contact with LEU 324 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257C ILE* 4.0 10.8 - - + -
275C ILE* 3.8 20.4 - - + +
282C THR* 4.0 14.6 - - + +
283C PHE* 3.7 23.3 - - + -
284C PRO* 3.7 28.0 - - + -
320C VAL* 2.9 35.0 + - + +
321C GLY* 3.8 5.2 - - - +
323C ARG* 1.3 74.1 - - - +
325C GLN* 1.3 64.0 - - - +
327C ARG* 3.4 29.7 + - - +
328C ARG* 3.0 29.9 + - - +
----------------------------------------------------------
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Residues in contact with GLN 325 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ALA* 4.5 3.8 + - - +
105A GLU* 2.9 36.8 + - - +
106A ASP* 3.2 22.3 + - - +
109A LEU* 3.6 8.3 - - - +
131A ARG* 2.8 28.0 + - - -
95B ARG* 5.5 2.4 - - - +
283C PHE* 3.9 12.6 - - + -
321C GLY 3.0 18.4 + - - +
322C ILE* 3.7 5.7 - - - +
324C LEU* 1.3 78.2 - - - +
326C GLU* 1.3 57.4 + - - +
328C ARG* 3.4 5.4 + - - +
329C HIS* 2.9 30.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 326 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322C ILE* 3.0 22.2 + - + +
323C ARG* 3.6 18.1 - - - +
324C LEU 3.3 0.2 - - - -
325C GLN* 1.3 76.4 - - - +
327C ARG* 1.3 64.3 + - - +
329C HIS* 3.2 7.2 + - + +
330C LEU* 3.0 42.8 + - + +
----------------------------------------------------------
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Residues in contact with ARG 327 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C VAL* 3.4 33.5 - - + +
253C ILE* 3.6 29.3 + - + +
255C GLN* 2.8 41.4 + - + +
257C ILE* 3.5 18.3 - - + +
275C ILE 3.2 20.8 + - - -
276C ASN* 3.2 21.8 + - - +
277C LYS 5.4 1.6 + - - -
282C THR* 4.8 9.7 + - - +
323C ARG 2.9 17.3 + - - +
324C LEU* 3.4 20.3 + - - +
326C GLU* 1.3 75.8 - - - +
328C ARG* 1.3 59.7 + - - +
330C LEU* 3.5 2.0 + - - -
331C ASP* 3.0 29.3 + - - +
----------------------------------------------------------
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Residues in contact with ARG 328 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A LYS* 5.4 0.5 + - - -
101A VAL* 3.7 10.6 - - - +
105A GLU* 2.8 28.9 + - - +
40B ARG* 2.7 33.1 + - - -
253C ILE* 4.4 13.2 - - + +
280C PRO* 2.9 29.5 + - - +
281C ASP 3.6 7.5 - - - -
282C THR 3.3 22.0 + - - +
283C PHE* 3.5 15.7 - - - -
324C LEU* 3.0 21.1 + - - +
325C GLN 3.8 3.8 - - - +
327C ARG* 1.3 74.5 - - + +
329C HIS* 1.3 66.3 + - - +
331C ASP* 3.2 8.7 + - - +
332C LEU* 3.0 22.9 + - - +
----------------------------------------------------------
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Residues in contact with HIS 329 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B ARG 3.6 21.3 + - - -
96B THR 3.8 11.9 + - - -
98B TYR* 2.8 34.1 + - + +
325C GLN 2.9 18.3 + - - +
326C GLU* 3.2 6.5 + - - +
328C ARG* 1.3 77.8 - - - +
330C LEU* 1.3 65.3 + - + +
332C LEU* 3.2 8.8 + - - +
333C ILE* 3.0 50.7 + - + +
----------------------------------------------------------
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Residues in contact with LEU 330 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C VAL* 4.0 19.1 - - + -
255C GLN* 6.1 0.7 - - - +
326C GLU* 3.0 38.3 + - + +
327C ARG* 3.9 4.0 - - - +
329C HIS* 1.3 83.7 - - + +
331C ASP* 1.3 57.7 + - - +
333C ILE* 4.0 14.1 - - + -
334C TYR* 2.9 73.1 + - + +
----------------------------------------------------------
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Residues in contact with ASP 331 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A LYS* 2.8 27.9 + - - +
251C ARG* 2.9 36.3 + - - +
252C VAL* 3.1 30.1 + - + +
253C ILE* 3.6 20.3 + - + +
327C ARG 3.0 18.7 + - - +
328C ARG 3.2 6.0 + - - +
330C LEU* 1.3 76.4 - - - +
332C LEU* 1.3 61.4 + - - +
335C ASN* 3.0 30.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 332 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A LYS* 4.3 10.1 - - - +
94A GLU* 3.4 43.7 - - + +
95A ALA* 5.3 1.3 - - - -
98A ALA* 3.6 26.5 - - + -
96B THR* 3.5 27.8 - - + +
97B LEU* 4.4 13.5 - - + -
328C ARG 3.0 12.9 + - - +
329C HIS* 3.4 12.3 - - - +
331C ASP* 1.3 76.5 + - - +
333C ILE* 1.3 63.9 + - + +
335C ASN 3.1 14.0 + - - -
336C PHE* 3.3 23.6 - - + +
----------------------------------------------------------
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Residues in contact with ILE 333 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B THR 4.6 1.1 - - - +
97B LEU* 4.0 22.2 - - + +
98B TYR 3.7 26.7 - - - +
99B GLY* 3.9 17.7 - - - +
100B PHE* 3.4 38.5 - - + +
101B GLY 5.2 0.5 + - - -
329C HIS* 3.0 42.8 + - + +
330C LEU* 3.8 15.5 - - + +
332C LEU* 1.3 76.4 - - + +
334C TYR* 1.3 80.5 + - + +
335C ASN 3.3 0.6 + - - -
336C PHE* 4.6 1.1 - - - -
----------------------------------------------------------
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Residues in contact with TYR 334 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ARG* 5.9 1.9 - - - +
52A ARG* 5.4 2.4 + - - -
252C VAL* 3.6 25.1 - - + -
255C GLN* 6.1 1.3 - - - -
330C LEU* 2.9 50.7 + - + +
333C ILE* 1.3 90.6 - - + +
335C ASN* 1.3 74.1 + - - +
336C PHE 3.8 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