Contacts of the helix formed by residues 285 - 312 (chain C) in PDB entry 2PWZ
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 SER 285 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C SER* 3.9 17.8 + - - -
199C VAL* 5.9 0.5 - - - +
284C LEU* 1.3 76.2 - - - +
286C ALA* 1.3 53.2 + - - +
287C PHE* 3.5 8.9 + - - +
288C GLU* 3.0 37.9 + - - +
289C GLN* 2.8 34.4 + - - +
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Residues in contact with ALA 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285C SER* 1.3 74.0 - - - +
287C PHE* 1.3 62.6 + - - +
289C GLN* 3.8 12.8 - - - +
290C ASN* 3.0 25.1 + - - +
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Residues in contact with PHE 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C LEU* 5.2 2.9 - - + -
196C GLU* 5.6 2.7 - - + -
199C VAL* 3.4 35.7 - - + -
200C ALA* 4.3 17.7 - - + -
203C THR* 3.7 31.9 - - + -
285C SER* 3.2 7.9 + - - +
286C ALA* 1.3 78.9 - - - +
288C GLU* 1.3 67.5 + - + +
290C ASN* 3.5 10.6 + - - +
291C ALA* 2.9 34.4 + - + +
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Residues in contact with GLU 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C LEU* 3.5 22.2 - - + +
184C PRO 3.9 3.1 - - - +
185C LEU* 3.4 22.8 - - + +
186C LEU* 3.1 12.8 + - - +
187C SER* 2.7 47.7 + - - -
199C VAL* 6.1 2.0 - - + +
283C THR 4.4 0.5 - - - +
284C LEU* 3.6 20.6 - - + +
285C SER* 3.0 26.0 + - - +
287C PHE* 1.3 83.3 - - + +
289C GLN* 1.3 53.7 + - - +
291C ALA 3.2 0.5 + - - -
292C LEU* 2.8 31.5 + - - +
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Residues in contact with GLN 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284C LEU* 3.0 40.4 + - + +
285C SER 2.8 23.4 + - - +
286C ALA* 3.8 9.3 - - - +
288C GLU* 1.3 72.2 - - - +
290C ASN* 1.3 61.6 + - - +
292C LEU* 3.4 6.6 + - + +
293C GLU* 3.1 28.1 + - - +
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Residues in contact with ASN 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286C ALA 3.0 18.6 + - - +
287C PHE* 3.7 10.4 + - - +
289C GLN* 1.3 73.1 - - - +
291C ALA* 1.3 62.1 + - - +
293C GLU* 3.4 4.3 + - - +
294C GLY* 2.9 28.2 + - - -
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Residues in contact with ALA 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C VAL 4.7 4.6 - - - +
183C LEU* 3.6 24.5 - - + -
203C THR* 5.9 1.3 - - + -
207C GLN* 5.8 4.9 - - - +
287C PHE* 2.9 29.0 + - + +
288C GLU* 3.2 4.9 + - - +
290C ASN* 1.3 79.5 - - - +
292C LEU* 1.3 62.1 + - - +
294C GLY* 3.6 1.7 + - - -
295C MET* 3.3 24.8 + - - +
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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
----------------------------------------------------------
174C ILE* 4.9 0.7 - - + -
183C LEU* 3.4 15.0 - - + +
260C TYR* 3.4 41.3 - - + +
264C PHE* 3.6 34.3 - - + -
281C ILE* 4.4 4.3 - - + -
284C LEU* 4.0 18.8 - - + -
288C GLU 2.8 20.3 + - - +
289C GLN* 3.6 6.7 - - - +
290C ASN 3.3 0.2 - - - -
291C ALA* 1.3 72.2 - - - +
293C GLU* 1.3 66.2 + - + +
295C MET* 3.0 25.6 - - - +
296C LEU* 3.2 23.3 - - + +
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Residues in contact with GLU 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C TYR* 4.1 16.1 - - - -
289C GLN* 3.1 16.0 + - + +
290C ASN* 4.2 4.0 - - - +
292C LEU* 1.3 80.2 - - + +
294C GLY* 1.3 61.2 + - - +
295C MET 3.2 1.4 + - - -
296C LEU* 3.5 36.4 + - - +
297C ASP* 5.0 1.9 + - - -
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Residues in contact with GLY 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C VAL* 5.0 5.8 - - - +
290C ASN 2.9 17.2 + - - -
291C ALA* 4.0 2.7 - - - -
293C GLU* 1.3 75.6 - - - +
295C MET* 1.3 58.5 + - - +
297C ASP* 5.2 2.2 + - - +
298C THR* 5.0 3.3 + - - -
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Residues in contact with MET 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C GLY* 4.2 11.2 - - - -
180C VAL* 3.4 35.2 - - + +
181C THR* 3.6 29.6 - - + +
183C LEU* 5.3 4.9 - - + -
264C PHE* 4.7 0.2 - - - -
291C ALA 3.3 12.0 + - - +
292C LEU* 3.0 29.2 - - - +
293C GLU 3.1 0.2 - - - -
294C GLY* 1.3 75.9 - - - +
296C LEU* 1.3 77.4 + - + +
297C ASP 3.2 2.7 - - - -
298C THR* 3.2 8.7 + - - -
299C LEU* 3.1 58.0 + - + -
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Residues in contact with LEU 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C GLN 5.3 0.2 - - - +
260C TYR* 3.7 48.6 - - + +
264C PHE* 4.4 1.6 - - + -
292C LEU* 3.2 31.2 - - + +
293C GLU* 3.5 38.7 + - - +
295C MET* 1.3 94.6 - - + +
297C ASP* 1.3 60.4 + - - +
299C LEU* 3.5 4.1 + - + +
300C LYS* 3.0 47.3 + - - +
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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
----------------------------------------------------------
293C GLU 5.0 1.7 + - - -
294C GLY 5.8 1.8 - - - +
295C MET 3.2 0.8 - - - -
296C LEU* 1.3 77.9 - - - +
298C THR* 1.3 65.0 + - - +
300C LYS* 3.4 19.1 + - - +
301C LYS* 3.0 35.9 + - + +
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Residues in contact with THR 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C SER* 5.6 1.3 - - - +
180C VAL* 4.2 18.8 - - + +
181C THR* 3.7 18.2 - - + -
294C GLY 5.0 3.0 + - - -
295C MET* 3.2 12.2 + - - -
297C ASP* 1.3 78.0 - - - +
299C LEU* 1.3 63.6 + - - +
301C LYS* 3.2 11.6 + - - +
302C ASP* 3.0 33.3 + - - +
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Residues in contact with LEU 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ASN* 3.4 33.7 - - - +
175C GLY 4.5 4.0 - - - +
176C GLY* 4.0 7.4 - - - -
181C THR* 3.9 3.8 - - + +
253C TYR* 3.6 19.1 - - + +
261C ALA* 3.7 21.3 - - + -
263C PHE 3.7 9.4 - - - +
264C PHE* 4.0 15.0 - - + -
295C MET* 3.1 37.2 + - + -
296C LEU* 3.8 4.0 - - + +
298C THR* 1.3 77.5 - - - +
300C LYS* 1.3 57.6 + - - +
302C ASP* 3.1 9.0 + - - +
303C ILE* 2.9 39.7 + - + +
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Residues in contact with LYS 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C TYR 3.3 22.2 + - - -
261C ALA* 4.1 15.3 - - + +
296C LEU* 3.0 36.4 + - - +
297C ASP* 3.7 17.2 + - - +
299C LEU* 1.3 72.5 - - - +
301C LYS* 1.3 59.3 + - - +
303C ILE* 3.5 9.8 + - + +
304C ALA* 3.0 28.6 + - - +
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Residues in contact with LYS 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297C ASP* 3.0 27.0 + - - +
298C THR* 3.2 10.5 + - - +
300C LYS* 1.3 73.7 - - - +
302C ASP* 1.3 65.9 + - - +
304C ALA* 3.4 5.8 + - - +
305C LEU* 3.0 26.0 + - - +
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Residues in contact with ASP 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C PRO* 6.3 1.1 - - - -
122C ASN* 2.8 44.9 + - + -
123C THR* 2.8 29.5 + - - +
178C SER* 4.1 6.8 + - - -
181C THR* 4.2 0.2 - - - +
298C THR* 3.0 31.1 + - - +
299C LEU* 3.1 10.3 + - - +
301C LYS* 1.3 78.5 - - - +
303C ILE* 1.3 63.7 + - - +
305C LEU* 3.6 5.5 + - - +
306C GLY 3.4 10.4 + - - -
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Residues in contact with ILE 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ASN 3.9 6.5 - - - +
126C ALA* 3.6 3.9 - - + +
253C TYR* 3.3 19.7 - - - +
261C ALA* 3.6 30.5 - - + -
262C ARG* 4.0 8.5 - - + +
263C PHE* 3.6 42.6 - - + +
299C LEU* 2.9 23.3 + - + +
300C LYS* 3.7 7.4 - - + +
301C LYS 3.2 0.2 - - - -
302C ASP* 1.3 76.1 - - - +
304C ALA* 1.3 61.6 + - - +
306C GLY* 3.0 12.1 + - - -
307C GLU* 3.1 35.1 + - - +
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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
----------------------------------------------------------
300C LYS 3.0 17.5 + - - +
301C LYS* 3.4 7.4 + - - +
303C ILE* 1.3 75.3 - - - +
305C LEU* 1.3 57.0 + - - +
307C GLU* 3.3 16.5 + - - +
308C GLU* 2.9 51.9 + - - +
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Residues in contact with LEU 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C PHE* 3.7 42.8 - - + -
120C PRO* 5.9 1.1 - - + -
123C THR* 4.1 10.1 - - - +
301C LYS 3.0 17.3 + - - +
302C ASP* 3.6 7.9 - - - +
304C ALA* 1.3 76.3 - - - +
306C GLY* 1.3 55.1 + - - +
308C GLU* 3.8 13.5 + - - +
309C PHE* 3.2 27.0 + - - +
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Residues in contact with GLY 306 (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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123C THR* 3.7 15.6 - - - +
126C ALA* 4.1 0.7 - - - -
127C ILE* 3.5 39.8 - - - +
302C ASP 3.4 4.4 + - - -
303C ILE 3.0 7.5 + - - -
305C LEU* 1.3 77.2 - - - +
307C GLU* 1.3 63.5 + - - +
309C PHE* 3.4 9.4 + - - +
310C VAL* 3.7 8.3 + - - +
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Residues in contact with GLU 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ALA* 4.1 3.5 - - + +
130C GLU* 4.0 12.8 - - + +
262C ARG* 3.0 45.5 + - - +
303C ILE* 3.1 24.9 + - + +
304C ALA* 3.7 17.9 - - - +
306C GLY* 1.3 74.8 - - - +
308C GLU* 1.3 58.4 + - + +
310C VAL* 3.4 3.8 + - - +
311C ASN* 3.0 41.5 + - - +
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Residues in contact with GLU 308 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304C ALA* 2.9 37.9 + - - +
305C LEU* 4.1 14.5 - - + +
307C GLU* 1.3 74.5 - - + +
309C PHE* 1.3 67.5 + - - +
311C ASN* 4.9 1.3 - - - -
312C LYS* 2.9 44.6 + - - +
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Residues in contact with PHE 309 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C PHE* 4.3 10.8 - + + -
92C ASN* 3.8 28.7 - - + -
95C ALA* 3.6 31.6 - - + -
96C GLY* 3.6 22.4 - - - -
99C LYS* 3.8 26.2 + - + -
127C ILE* 4.0 17.5 - - + -
305C LEU 3.2 18.7 + - - +
306C GLY 3.6 6.7 - - - +
307C GLU 3.3 0.6 - - - -
308C GLU* 1.3 75.8 - - - +
310C VAL* 1.3 67.8 + - + +
312C LYS* 3.9 21.4 + - - +
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Residues in contact with VAL 310 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LYS* 4.4 22.1 + - + +
127C ILE* 3.7 40.6 - - + +
130C GLU* 3.8 23.8 - - + -
131C VAL* 4.3 11.0 - - + +
134C LYS* 3.8 35.8 + - + +
306C GLY 3.7 9.4 + - - +
307C GLU 3.4 2.8 + - - +
308C GLU 3.1 0.2 - - - -
309C PHE* 1.3 85.2 - - + +
311C ASN* 1.3 61.3 + - - +
312C LYS* 3.3 9.5 + - - +
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Residues in contact with ASN 311 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C GLU* 3.1 31.0 + - - +
134C LYS* 3.9 27.6 - - - +
307C GLU* 3.0 24.1 + - - +
308C GLU* 4.9 1.1 - - - -
310C VAL* 1.3 79.2 - - - +
312C LYS* 1.3 71.9 + - - +
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Residues in contact with LYS 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308C GLU* 2.9 37.0 + - - +
309C PHE* 3.9 26.8 + - - +
310C VAL 4.3 5.4 - - - +
311C ASN* 1.3 85.1 - - - +
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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