Contacts of the helix formed by residues 309 - 336 (chain C) in PDB entry 6DWM
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 ASN 309 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C SER* 4.1 14.8 + - - +
119C GLN* 3.0 33.6 + - - +
120C SER* 5.3 0.7 - - - -
121C MET 4.9 1.0 + - - -
134C ARG* 3.2 19.4 + - - +
259C TYR* 4.3 15.1 + - + +
262C MET* 3.6 25.1 - - + +
305C GLU* 3.1 18.4 + - - +
306C LYS* 3.3 7.1 - - - +
308C ILE* 1.3 74.4 - - - +
310C ILE* 1.3 69.3 + - - +
311C VAL 3.2 1.1 - - - -
312C LEU* 3.1 13.5 + - + +
313C ASP* 3.3 15.4 + - - +
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Residues in contact with ILE 310 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C MET* 4.3 15.7 - - + -
134C ARG* 3.8 37.2 - - + +
137C LEU* 4.2 14.8 - - + -
138C ALA* 3.7 32.3 - - + +
281C ILE* 6.1 0.2 - - + -
285C LEU* 4.2 9.2 - - + -
306C LYS 3.4 20.0 - - - +
307C ILE* 3.6 21.5 - - - +
308C ILE 2.9 1.2 + - - -
309C ASN* 1.3 82.6 + - - +
311C VAL* 1.3 63.2 + - - +
313C ASP* 3.0 11.0 + - - +
314C LEU* 3.0 25.3 + - + +
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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
----------------------------------------------------------
202C CYS* 3.5 35.4 - - + +
203C PHE* 3.9 20.0 - - + -
262C MET* 4.4 13.2 - - + -
266C VAL* 5.5 2.5 - - + -
281C ILE* 4.4 8.1 - - + -
282C THR* 3.9 17.7 - - + +
285C LEU* 4.1 13.0 - - + +
308C ILE* 3.2 19.8 + - + +
310C ILE* 1.3 78.0 - - - +
312C LEU* 1.3 55.6 + - - +
314C LEU* 3.2 9.7 + - - +
315C PHE* 2.7 34.2 + - - +
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Residues in contact with LEU 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C SER* 3.6 19.5 - - - +
203C PHE* 5.9 2.5 - - + -
255C ASN 5.7 0.2 - - - +
258C PHE* 3.9 46.4 - - + +
259C TYR* 3.8 25.1 - - + +
261C PHE* 5.8 2.5 - - + -
262C MET* 4.1 20.2 - - + +
309C ASN 3.1 12.2 + - - +
310C ILE 3.1 0.8 - - - -
311C VAL* 1.3 80.4 - - - +
313C ASP* 1.3 60.2 + - - +
315C PHE* 4.3 11.0 - - + +
316C GLY 3.0 24.6 + - - -
602C HJJ 3.6 22.4 - - + +
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Residues in contact with ASP 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C SER* 3.6 17.8 + - - -
120C SER* 2.9 24.0 + - - -
121C MET* 3.2 22.3 + - + +
122C SER* 3.2 30.8 + - - +
309C ASN* 3.3 13.1 + - - +
310C ILE* 3.0 8.8 + - - +
312C LEU* 1.3 76.5 - - - +
314C LEU* 1.3 62.4 + - - +
317C ALA* 3.4 24.1 + - - +
601C HEM 4.3 2.7 - - + +
602C HJJ 3.8 21.6 - - + +
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Residues in contact with LEU 314 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C MET* 5.3 0.7 - - + -
138C ALA* 4.1 18.4 - - + -
142C LEU* 4.1 21.1 - - + -
198C ILE* 3.9 4.3 - - - +
202C CYS* 4.4 7.4 - - - -
281C ILE* 4.1 35.2 - - + -
310C ILE* 3.0 24.5 + - + +
311C VAL* 3.5 8.3 - - - +
313C ASP* 1.3 75.7 - - - +
315C PHE* 1.3 60.6 + - - +
318C GLY* 2.8 28.1 + - - -
458C ILE* 3.8 28.7 - - + -
601C HEM 3.9 25.4 - - + +
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Residues in contact with PHE 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C THR* 3.7 32.1 - - + -
198C ILE* 4.2 20.3 - - + +
199C CYS* 4.1 21.1 - - + -
202C CYS* 4.4 5.8 - - - -
203C PHE* 4.1 19.1 - + + -
214C LEU* 4.7 4.5 - - + -
217C LEU* 4.0 16.4 - - + -
218C VAL* 4.6 5.4 - - + -
258C PHE* 3.9 30.3 - + - -
261C PHE* 4.1 18.8 - + - -
311C VAL 2.7 20.6 + - - +
312C LEU* 3.9 11.0 - - + +
314C LEU* 1.3 73.2 - - - +
316C GLY* 1.3 65.0 + - - +
318C GLY* 3.2 0.3 + - - -
319C PHE* 3.1 31.4 + + + -
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Residues in contact with GLY 316 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258C PHE* 4.9 1.8 - - - -
312C LEU 3.0 11.3 + - - -
315C PHE* 1.3 79.1 - - - +
317C ALA* 1.3 62.7 + - - +
319C PHE* 3.3 16.1 - - - -
320C ASP* 3.2 27.2 + - - +
602C HJJ 3.3 31.9 - - - -
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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
----------------------------------------------------------
313C ASP 3.4 21.5 + - - +
315C PHE 3.3 0.4 - - - -
316C GLY* 1.3 75.8 - - - +
318C GLY* 1.3 59.4 + - - +
320C ASP* 5.1 0.4 - - - -
321C THR* 2.6 40.8 + - + -
601C HEM 3.5 34.5 - - + +
602C HJJ 3.5 25.1 + - + -
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Residues in contact with GLY 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194C VAL* 3.9 4.2 - - - +
198C ILE* 4.0 18.0 - - - +
314C LEU 2.8 19.4 + - - -
315C PHE 3.2 1.3 + - - -
317C ALA* 1.3 78.5 - - - +
319C PHE* 1.3 60.4 + - - +
322C VAL* 3.4 26.2 - - - +
466C GLU* 5.1 1.2 - - - +
601C HEM 3.9 19.0 - - - -
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Residues in contact with PHE 319 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C TYR* 5.0 1.8 - - - -
191C VAL* 4.1 7.6 - - + -
194C VAL* 4.2 6.1 - - - -
195C THR* 3.4 23.3 - - + +
198C ILE* 3.9 11.3 - - + +
218C VAL* 3.4 46.4 - - + -
222C ASN* 5.4 0.7 - - - -
258C PHE* 3.8 16.4 - + - -
315C PHE* 3.1 23.3 + + + +
316C GLY* 3.3 28.9 - - - -
318C GLY* 1.3 76.0 - - - +
320C ASP* 1.3 72.4 + - + +
323C THR* 2.3 37.7 + - - -
602C HJJ 3.6 34.8 - + - -
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Residues in contact with ASP 320 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C TYR* 4.4 11.0 + - - -
222C ASN* 5.7 3.6 - - - +
224C PHE* 5.5 2.9 - - - -
225C GLY* 5.5 3.3 + - - -
316C GLY 3.2 16.6 + - - +
317C ALA* 4.7 0.7 - - - +
319C PHE* 1.3 92.8 - - + +
321C THR* 1.3 66.4 + - + +
323C THR* 3.9 2.3 - - - -
324C THR* 2.8 32.3 + - - -
497C THR* 3.0 31.0 + - - +
499C LYS* 5.8 3.8 - - - +
602C HJJ 4.0 25.1 - - + +
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Residues in contact with THR 321 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317C ALA* 2.6 31.1 + - - +
320C ASP* 1.3 79.9 - - + +
322C VAL* 1.3 64.0 + - - +
324C THR* 3.5 1.4 + - - -
325C ALA* 3.1 22.9 + - - +
381C PHE* 3.6 16.5 - - + -
382C VAL* 5.6 0.2 - - + -
497C THR* 3.9 8.1 - - + -
601C HEM 3.1 40.7 - - + +
602C HJJ 3.5 33.9 - - + -
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Residues in contact with VAL 322 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194C VAL* 3.7 16.2 - - + -
318C GLY 3.4 21.1 + - - +
321C THR* 1.3 80.9 + - - +
323C THR* 1.3 66.2 + - - +
325C ALA* 3.1 5.5 + - - +
326C ILE* 2.9 39.0 + - + +
463C ALA* 4.4 15.3 - - + +
466C GLU* 3.8 30.1 - - + +
467C VAL* 4.3 10.3 - - + -
601C HEM 3.9 24.0 - - + -
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Residues in contact with THR 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C TYR* 3.5 30.7 - - + -
190C VAL* 4.3 7.4 - - + +
191C VAL* 3.6 36.3 + - + +
194C VAL* 3.4 24.5 - - - +
319C PHE 2.3 26.6 + - - -
320C ASP* 3.9 4.0 - - - -
322C VAL* 1.3 79.0 - - - +
324C THR* 1.3 56.6 + - - +
326C ILE* 3.9 0.9 - - - +
327C SER* 2.9 30.0 + - - -
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Residues in contact with THR 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C TYR* 5.0 8.6 + - - -
320C ASP* 2.8 25.3 + - - -
321C THR* 3.8 4.9 - - - -
323C THR* 1.3 78.2 - - - +
325C ALA* 1.3 59.1 + - - +
327C SER* 3.3 6.1 + - - -
328C TRP* 2.8 42.1 + - + +
381C PHE* 3.8 17.0 - - + -
497C THR* 4.5 11.5 + - - -
498C MET 3.4 27.6 - - - +
499C LYS* 4.9 11.7 - - + +
500C HIS* 6.0 1.1 - - + -
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Residues in contact with ALA 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321C THR 3.1 17.3 + - - +
322C VAL* 3.1 5.6 + - - +
324C THR* 1.3 77.4 - - - +
326C ILE* 1.3 58.1 + - - +
328C TRP* 3.4 4.1 + - - +
329C SER* 2.9 32.4 + - - -
375C THR* 4.3 3.2 - - + +
376C PHE* 4.2 15.3 - - + -
381C PHE* 3.7 26.4 - - + -
467C VAL* 4.3 13.0 - - + -
601C HEM 4.2 5.6 - - + -
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Residues in contact with ILE 326 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C VAL* 4.0 18.8 - - + -
194C VAL* 3.5 28.5 - - + -
322C VAL* 2.9 24.1 + - + +
323C THR 4.2 2.2 - - - +
325C ALA* 1.3 76.0 - - - +
327C SER* 1.3 61.5 + - - +
329C SER* 3.2 7.3 + - - -
330C LEU* 3.0 36.7 + - + +
467C VAL* 4.3 22.0 - - + +
470C PHE* 3.7 33.4 - - + -
471C LEU* 4.7 12.3 - - + -
474C LEU* 6.1 4.0 - - + -
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Residues in contact with SER 327 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C PRO* 5.4 4.4 - - - +
187C TYR* 4.2 25.7 + - - +
190C VAL* 5.0 3.3 - - - +
323C THR 2.9 20.8 + - - -
324C THR* 3.6 7.2 - - - -
326C ILE* 1.3 77.8 - - - +
328C TRP* 1.3 63.1 + - - +
330C LEU* 3.1 13.1 + - - +
331C MET* 3.1 24.8 + - - +
500C HIS* 2.5 35.1 + - - -
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Residues in contact with TRP 328 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C THR* 2.8 43.2 + - + +
325C ALA* 3.7 4.7 - - - +
327C SER* 1.3 72.1 - - - +
329C SER* 1.3 64.2 + - - +
331C MET* 3.2 6.0 + - + +
332C TYR* 2.9 62.2 + + + -
375C THR* 4.3 7.4 - - + -
379C SER* 4.2 11.4 - - - +
381C PHE* 3.8 15.9 - + + +
490C MET* 3.2 45.5 - - + -
492C PRO* 3.8 31.9 - - + -
498C MET 3.1 19.3 + - - -
499C LYS 4.0 4.2 - - - -
500C HIS* 3.8 36.5 - + + -
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Residues in contact with SER 329 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325C ALA 2.9 18.3 + - - -
326C ILE* 3.4 10.1 - - - -
327C SER 3.2 0.2 - - - -
328C TRP* 1.3 76.4 - - - +
330C LEU* 1.3 57.9 + - - +
332C TYR* 3.1 3.6 + - - +
333C LEU* 2.8 34.3 + - - +
371C PHE* 3.7 16.0 - - - -
372C ILE* 5.6 0.7 - - - +
375C THR* 3.6 19.7 + - - +
467C VAL* 4.7 4.9 - - - +
471C LEU* 4.0 31.3 - - - +
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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
----------------------------------------------------------
186C PRO* 4.0 25.4 - - + -
190C VAL* 4.0 20.0 - - + -
326C ILE* 3.0 25.7 + - + +
327C SER* 3.6 8.5 - - - +
329C SER* 1.3 75.0 - - - +
331C MET* 1.3 62.9 + - - +
333C LEU* 3.3 16.0 + - + +
334C VAL* 3.0 29.3 + - - +
471C LEU* 4.6 10.5 - - + -
474C LEU* 5.2 5.8 - - + -
480C PHE* 4.0 40.8 - - + -
506C PHE* 4.0 16.2 - - + -
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Residues in contact with MET 331 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C PRO* 5.7 1.1 - - + -
327C SER 3.1 15.0 + - - +
328C TRP* 3.5 9.9 - - + +
330C LEU* 1.3 77.4 - - - +
332C TYR* 1.3 57.1 + - - +
334C VAL* 3.3 2.7 + - - +
335C MET* 2.9 33.8 + - - +
488C VAL* 3.7 28.5 - - + -
489C ASP 4.0 14.8 - - - +
490C MET* 3.7 19.7 - - + -
500C HIS* 3.7 44.9 - - + +
501C ALA 4.2 6.1 - - - +
503C CYS* 4.6 5.8 - - + -
506C PHE* 3.6 30.3 - - + -
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Residues in contact with TYR 332 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328C TRP* 2.9 55.8 + + + -
329C SER 3.7 4.7 - - - +
331C MET* 1.3 73.9 - - - +
333C LEU* 1.3 59.7 + - - +
336C ASN* 2.8 43.7 + - - +
339C VAL* 5.2 0.2 - - - -
371C PHE* 4.3 4.9 - - + -
375C THR* 4.1 13.7 - - + -
378C HIS* 2.9 37.3 + + - -
379C SER* 3.3 30.6 + - - -
427C PHE* 3.5 47.1 - + + -
490C MET* 3.7 18.4 - - + -
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Residues in contact with LEU 333 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329C SER 2.8 25.5 + - - +
330C LEU* 3.7 21.3 - - + +
332C TYR* 1.3 76.7 - - - +
334C VAL* 1.3 61.7 + - + +
336C ASN 3.5 18.5 - - - +
337C PRO* 3.6 1.9 - - - +
339C VAL* 4.1 2.9 - - + -
340C GLN* 3.2 43.4 + - + +
343C ILE* 3.7 20.6 - - + -
371C PHE* 3.3 28.3 - - + -
471C LEU* 4.3 9.6 - - + -
475C LEU* 4.0 27.1 - - + -
480C PHE* 5.3 2.7 - - + -
----------------------------------------------------------
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Residues in contact with VAL 334 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C LEU 3.0 12.0 + - - +
331C MET* 3.8 3.1 - - - +
333C LEU* 1.3 78.8 - - - +
335C MET* 1.3 74.9 + - + +
336C ASN 3.6 0.2 + - - -
337C PRO* 3.6 14.3 - - - +
340C GLN* 4.8 1.6 - - - +
480C PHE* 4.0 10.1 - - + -
481C SER* 3.8 25.8 - - - +
482C VAL* 3.3 40.0 + - + +
488C VAL* 5.6 2.0 - - + -
506C PHE* 3.3 33.2 - - + -
----------------------------------------------------------
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Residues in contact with MET 335 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331C MET 2.9 19.5 + - - +
332C TYR* 4.6 0.9 - - - -
334C VAL* 1.3 98.3 - - + +
336C ASN* 1.3 74.2 + - - +
337C PRO* 3.5 6.5 - - - +
482C VAL* 4.6 7.0 - - + -
488C VAL* 3.9 34.8 - - + +
490C MET* 3.9 29.4 - - + -
----------------------------------------------------------
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Residues in contact with ASN 336 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332C TYR* 2.8 25.9 + - - +
333C LEU 3.5 5.9 - - - +
335C MET* 1.3 89.5 - - - +
337C PRO* 1.3 66.9 - - - +
338C ARG* 3.0 9.6 + - + +
339C VAL* 3.0 39.2 + - + +
340C GLN 3.5 0.3 + - - -
427C PHE* 3.8 32.1 - - + +
----------------------------------------------------------
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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