Contacts of the helix formed by residues 263 - 286 (chain S) in PDB entry 1RZZ
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 GLU 263 (chain S).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195R LEU* 3.8 13.0 - - + +
198R ALA* 4.7 2.7 - - + -
199R ASN* 3.0 16.0 + - - +
238S ILE* 3.6 30.6 - - + +
261S THR* 3.1 4.7 + - - +
262S MET* 1.3 77.5 - - - +
264S GLY* 1.3 67.2 + - - +
265S ILE 3.3 0.2 - - - -
266S HIS* 3.1 20.9 + - - +
267S ARG* 2.9 38.8 + - - +
34T GLU* 5.5 0.4 - - - -
37T ARG* 4.7 8.0 + - - -
62T LYS* 3.2 15.1 + - - +
64T PHE* 3.1 26.2 - - - -
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Residues in contact with GLY 264 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261S THR* 2.8 12.4 + - - -
263S GLU* 1.3 76.4 - - - +
265S ILE* 1.3 64.9 + - - +
267S ARG* 2.8 27.0 + - - +
268S TRP* 3.0 14.0 + - - -
34T GLU 5.2 2.2 - - - -
35T ASN* 2.9 30.6 + - - -
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Residues in contact with ILE 265 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215S LEU* 4.1 14.4 - - + -
219S HIS* 3.5 32.8 - - + +
260S ALA* 4.1 5.2 - - + -
261S THR 2.9 14.8 + - - +
262S MET 3.2 11.2 - - - +
264S GLY* 1.3 74.5 - - - +
266S HIS* 1.3 85.6 + - + +
268S TRP* 3.1 9.7 + - + +
269S ALA* 2.9 26.2 + - + +
2008S U10 3.7 60.1 - - + -
35T ASN* 3.4 1.8 + - - -
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Residues in contact with HIS 266 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190R HIS* 3.4 14.1 - + - -
191R GLY* 3.7 13.7 - - - +
194R VAL* 3.4 32.6 - - + +
195R LEU* 3.5 19.1 - - + +
219S HIS* 3.4 3.1 + + - -
234S GLU* 3.1 28.9 + - + -
262S MET* 2.7 29.0 + - - -
263S GLU 3.1 7.9 + - - +
264S GLY 3.0 0.8 - - - -
265S ILE* 1.3 88.8 - - + +
267S ARG* 1.3 60.1 + - - +
269S ALA* 3.6 6.3 - - + -
270S ILE* 3.0 28.4 + - - +
2007S FE2 2.2 25.3 - - - -
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Residues in contact with ARG 267 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195R LEU* 3.9 21.7 - - + +
199R ASN* 3.5 21.6 + - - +
145S HIS* 4.9 6.3 + - - -
263S GLU* 2.9 38.1 + - - +
264S GLY* 2.8 15.0 + - - +
266S HIS* 1.3 74.3 - - - +
268S TRP* 1.3 67.8 + - - +
270S ILE* 4.0 7.4 - - - -
271S TRP* 3.1 35.7 + - + +
30T TYR* 3.4 26.0 + - - -
31T LEU* 3.6 16.2 - - + -
34T GLU* 3.7 31.4 + - - -
62T LYS* 4.0 6.3 - - - +
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Residues in contact with TRP 268 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215S LEU* 3.7 8.5 - - + +
258S PHE* 4.5 9.0 - + - -
259S ASN 5.4 0.4 + - - -
260S ALA* 4.2 2.2 - - + -
264S GLY 3.0 15.4 + - - -
265S ILE* 3.2 11.9 - - + +
267S ARG* 1.3 79.3 - - - +
269S ALA* 1.3 57.1 + - - +
271S TRP* 4.0 1.4 - - - +
272S MET* 3.0 32.3 + - + +
2008S U10 3.6 58.9 - - + +
28T ILE* 4.4 25.6 - - + -
31T LEU* 3.3 42.8 - - + +
32T GLN* 4.4 20.8 + - + -
35T ASN* 3.0 36.9 - - - +
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Residues in contact with ALA 269 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187R LEU* 3.6 38.7 - - + +
190R HIS* 5.6 2.2 - - + -
191R GLY* 4.5 4.5 - - - +
215S LEU* 3.6 13.9 - - + -
219S HIS* 5.8 4.0 - - + -
265S ILE* 2.9 16.7 + - + +
266S HIS* 3.7 12.1 - - + +
267S ARG 3.1 0.2 - - - -
268S TRP* 1.3 76.4 - - - +
270S ILE* 1.3 65.8 + - - +
272S MET* 3.2 10.9 + - - +
273S ALA* 3.3 10.6 + - - +
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Residues in contact with ILE 270 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187R LEU 4.6 0.7 - - - -
188R ALA* 4.1 20.4 - - - +
191R GLY* 4.5 0.6 - - - -
192R ALA* 3.8 32.5 - - + +
195R LEU* 4.0 11.9 - - + -
145S HIS* 4.0 22.9 - - + +
148S TRP* 6.1 0.9 - - + -
149S ALA* 4.3 5.4 - - + +
266S HIS 3.0 16.9 + - - +
267S ARG* 3.4 15.3 - - + +
269S ALA* 1.3 76.0 - - - +
271S TRP* 1.3 77.9 + - + +
273S ALA* 3.6 1.6 + - - +
274S VAL* 3.0 45.3 + - + +
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Residues in contact with TRP 271 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267S ARG* 3.1 27.6 + - - +
268S TRP 4.2 2.0 - - - +
269S ALA 3.2 0.4 - - - -
270S ILE* 1.3 90.8 - - + +
272S MET* 1.3 66.5 + - - +
274S VAL* 4.4 14.6 - - + -
275S LEU* 2.9 46.0 + - + +
278S LEU* 5.0 5.4 - - + -
23T PHE* 3.9 28.3 - + - -
27T LEU* 3.6 38.0 - - + +
30T TYR* 4.3 14.4 + + - -
31T LEU* 4.1 18.8 - - + -
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Residues in contact with MET 272 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187R LEU* 4.2 0.9 - - + -
207S ALA 4.9 0.7 - - - +
208S PHE* 3.5 48.6 - - + +
211S GLY* 3.4 41.7 - - - +
212S SER* 3.3 20.6 + - - +
214S LEU* 5.7 0.9 - - + -
215S LEU* 3.8 14.6 - - + -
268S TRP* 3.0 23.0 + - + +
269S ALA 3.2 5.5 + - - +
271S TRP* 1.3 76.1 - - - +
273S ALA* 1.3 61.1 + - - +
275S LEU* 4.9 1.1 - - - -
276S VAL* 3.5 1.4 + - - +
2004S BCL 5.3 8.7 - - + -
2008S U10 3.6 31.6 - - + -
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Residues in contact with ALA 273 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184R ALA 3.3 27.6 - - - +
187R LEU* 4.1 7.2 - - + -
188R ALA* 3.7 22.7 - - + +
212S SER* 3.6 10.1 + - - +
269S ALA 3.3 9.2 + - - +
270S ILE 4.1 0.2 - - - +
271S TRP 3.2 0.2 - - - -
272S MET* 1.3 76.9 - - - +
274S VAL* 1.3 65.6 + - - +
275S LEU 3.2 1.6 - - - -
276S VAL* 3.0 24.7 + - - +
2005S BPH 3.5 10.0 - - + +
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Residues in contact with VAL 274 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188R ALA* 4.8 2.0 - - + -
148S TRP 5.5 0.7 - - - +
149S ALA* 3.8 37.9 - - + +
152S SER* 2.6 38.6 + - - +
270S ILE* 3.0 31.8 + - + +
271S TRP* 4.1 17.3 - - + +
273S ALA* 1.3 75.5 - - - +
275S LEU* 1.3 64.4 + - - +
276S VAL 3.0 1.1 + - - -
277S THR 3.3 1.9 + - - -
278S LEU* 3.0 19.9 + - + +
2005S BPH 3.7 10.5 - - + -
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Residues in contact with LEU 275 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208S PHE* 3.5 46.7 - - + -
271S TRP* 2.9 42.4 + - + +
272S MET* 4.2 1.1 - - - +
274S VAL* 1.3 75.8 - - - +
276S VAL* 1.3 60.0 + - - +
278S LEU* 3.7 27.1 - - + -
279S THR* 2.8 31.2 + - - +
20T PHE* 4.5 13.5 - - + -
23T PHE* 4.3 12.8 - - + -
24T LEU* 4.4 5.6 - - + -
27T LEU* 3.7 21.5 - - + -
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Residues in contact with VAL 276 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184R ALA* 4.6 7.9 - - + -
205S SER* 2.9 33.6 + - - +
208S PHE* 3.5 34.5 - - - +
209S LEU* 3.8 15.3 - - + +
212S SER* 3.8 5.4 - - - +
272S MET 3.5 7.2 - - - +
273S ALA* 3.0 18.8 + - - +
275S LEU* 1.3 78.3 - - - +
277S THR* 1.3 63.8 + - + +
279S THR* 3.5 0.4 + - - -
280S GLY* 3.2 14.2 + - - -
2003S BCL 3.8 28.0 - - + +
2005S BPH 5.2 6.1 - - + -
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Residues in contact with THR 277 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152S SER* 2.6 41.9 + - - -
153S ALA* 4.2 3.6 - - - -
155S TRP* 3.2 10.2 - - - -
156S LEU* 3.9 18.4 - - + +
274S VAL 3.3 0.2 + - - -
276S VAL* 1.3 79.7 - - + +
278S LEU* 1.3 60.1 + - - +
280S GLY* 3.7 1.6 - - - +
281S GLY* 2.8 22.3 + - - -
2003S BCL 3.7 34.3 - - + +
2005S BPH 3.3 29.1 - - + +
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Residues in contact with LEU 278 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152S SER* 3.3 10.9 + - - +
155S TRP* 3.3 36.0 + - + +
271S TRP* 5.0 6.1 - - + -
274S VAL* 3.0 25.5 + - + +
275S LEU* 3.8 27.4 - - + -
277S THR* 1.3 74.9 - - - +
279S THR* 1.3 67.2 + - + +
282S ILE* 3.3 24.5 - - + +
20T PHE* 5.6 3.6 - - + -
23T PHE* 5.0 10.1 - - + -
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Residues in contact with THR 279 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201S PHE* 3.4 28.8 - - + +
204S LEU* 4.0 7.3 - - + -
205S SER* 3.3 21.7 + - - -
208S PHE* 4.0 9.4 - - + -
275S LEU* 2.8 24.5 + - + +
278S LEU* 1.3 74.6 - - + +
280S GLY* 1.3 66.8 + - - +
282S ILE* 3.3 5.5 + - + +
283S GLY 3.0 18.7 + - - -
20T PHE* 3.4 44.4 - - + -
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Residues in contact with GLY 280 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156S LEU* 4.4 1.1 - - - -
205S SER* 4.0 4.7 - - - -
276S VAL 3.2 14.7 + - - -
277S THR* 3.9 1.3 - - - -
278S LEU 3.3 0.2 - - - -
279S THR* 1.3 80.2 + - - +
281S GLY* 1.3 63.8 + - - +
283S GLY 3.3 0.3 + - - -
284S ILE* 3.1 13.3 + - - +
2003S BCL 3.0 48.9 - - - +
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Residues in contact with GLY 281 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155S TRP* 3.2 25.6 - - - -
156S LEU* 4.1 18.7 - - - +
159S VAL* 3.8 7.3 - - - +
277S THR 2.8 16.7 + - - -
279S THR 3.3 0.2 - - - -
280S GLY* 1.3 71.0 - - - +
282S ILE* 1.3 58.6 + - - +
284S ILE 3.3 1.0 + - - -
285S LEU* 2.9 30.7 + - - +
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Residues in contact with ILE 282 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155S TRP* 3.6 18.4 - - + +
201S PHE* 3.7 39.3 - - + -
278S LEU* 3.3 28.4 + - + +
279S THR* 3.3 8.5 + - - +
280S GLY 3.3 0.4 - - - -
281S GLY* 1.3 75.6 - - - +
283S GLY* 1.3 63.4 + - - +
285S LEU* 3.3 5.4 + - + +
286S LEU* 3.0 34.8 + - + +
16T ALA* 4.7 6.5 - - + -
20T PHE* 5.3 7.0 - - + -
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Residues in contact with GLY 283 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199S ASN* 3.0 19.4 + - - -
201S PHE* 3.5 25.1 - - - +
279S THR 3.0 11.5 + - - -
280S GLY 3.3 3.3 + - - -
281S GLY 3.3 0.4 - - - -
282S ILE* 1.3 76.9 - - - +
284S ILE* 1.3 60.0 + - - +
286S LEU* 3.8 2.1 + - - -
287S SER* 2.8 25.1 + - - -
294S TRP* 3.9 1.9 - - - -
2003S BCL 4.5 3.4 - - - -
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Residues in contact with ILE 284 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156S LEU* 4.5 4.7 - - + -
159S VAL* 3.8 17.3 - - + -
160S LEU* 4.0 17.3 - - + -
164S ARG* 3.3 24.0 - - - -
189S PHE* 3.7 29.6 - - + -
196S LEU* 4.2 5.2 - - + -
280S GLY 3.1 17.1 + - - +
281S GLY* 3.8 3.8 - - - +
283S GLY* 1.3 75.4 - - - +
285S LEU* 1.3 64.7 + - - +
286S LEU 3.1 1.8 - - - -
287S SER* 3.0 15.8 + - - -
2003S BCL 3.1 50.7 - - + +
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Residues in contact with LEU 285 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155S TRP* 3.7 26.7 - - + -
159S VAL* 3.7 11.6 - - + +
163S ILE* 3.5 31.4 - - + -
164S ARG* 4.1 15.7 - - - +
167S LEU* 3.9 19.5 - - + -
281S GLY 2.9 17.5 + - - +
282S ILE* 3.3 6.3 + - + +
284S ILE* 1.3 78.1 - - - +
286S LEU* 1.3 56.6 + - + +
287S SER 3.5 0.5 + - - -
289S THR* 2.6 34.0 + - - +
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Residues in contact with LEU 286 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201S PHE* 4.0 16.8 - - + -
282S ILE* 3.0 36.6 + - + +
283S GLY* 4.1 0.7 - - - +
285S LEU* 1.3 80.4 - - + +
287S SER* 1.3 59.8 + - - +
289S THR* 3.5 3.1 - - - +
290S VAL* 3.1 25.1 + - + -
291S VAL* 3.0 27.4 + - - +
294S TRP* 4.1 16.8 - - + -
12T LEU* 3.8 28.5 - - + -
13T ALA* 3.8 26.7 - - + -
16T ALA* 4.2 4.3 - - + -
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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