Contacts of the helix formed by residues 282 - 304 (chain C) in PDB entry 1EZF
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 282 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62C ASP* 2.9 24.1 + - - +
192C PHE* 3.6 35.2 + - + +
193C GLU* 2.9 17.6 + - - +
280C LEU* 4.8 0.2 - - - +
281C ARG* 1.3 79.6 + - - +
283C GLN* 1.3 59.0 + - - +
284C SER* 2.6 32.1 + - - -
285C VAL* 2.9 23.7 + - + +
286C PHE* 2.8 30.6 + - - +
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Residues in contact with GLN 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A ASN* 3.9 20.4 + - + +
332A PRO* 3.8 22.7 - - + -
281C ARG 3.9 2.8 + - - -
282C ASN* 1.3 70.5 + - - +
284C SER* 1.3 61.2 + - - +
286C PHE* 3.1 7.8 + - - +
287C ASN* 2.8 60.5 + - - +
329C THR* 2.9 32.5 + - - +
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Residues in contact with SER 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A PRO* 3.7 19.0 - - - +
57C VAL* 5.3 2.4 - - - +
60C ALA* 3.4 26.9 - - - +
61C LEU* 3.6 11.4 - - - +
62C ASP* 3.1 30.4 + - - +
65C MET* 5.0 0.2 - - - -
282C ASN* 2.6 20.0 + - - -
283C GLN* 1.3 78.8 - - - +
285C VAL* 1.3 62.9 + - - +
287C ASN* 3.5 2.6 + - - +
288C PHE* 3.1 23.0 + - - +
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Residues in contact with VAL 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C LEU* 3.8 11.7 - - + -
65C MET* 3.4 42.0 - - + -
187C PHE* 3.7 33.2 - - + -
193C GLU* 3.5 24.7 - - + +
280C LEU* 4.0 13.0 - - + -
282C ASN* 2.9 16.3 + - + +
284C SER* 1.3 76.6 + - - +
286C PHE* 1.3 59.2 + - - +
288C PHE* 3.1 5.0 + - - +
289C CYS* 2.8 29.0 + - - -
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Residues in contact with PHE 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277C LEU* 3.6 30.3 - - + -
280C LEU* 3.8 23.3 - - + -
282C ASN 2.8 19.0 + - - +
283C GLN* 3.1 9.6 + - - +
285C VAL* 1.3 77.3 - - - +
287C ASN* 1.3 59.4 + - - +
289C CYS* 3.2 1.2 + - - +
290C ALA* 2.8 40.7 + - + +
328C ALA 3.7 12.1 - - - -
329C THR* 3.6 36.3 - - - -
330C ASN* 3.6 1.6 - - - -
331C MET* 3.7 31.0 - - + -
334C VAL* 3.5 24.7 - - + -
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Residues in contact with ASN 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A ASN* 3.4 22.6 + - - -
332A PRO* 3.4 19.3 - - + +
333A ALA* 3.6 13.3 - - - +
57C VAL* 4.2 8.1 - - + -
283C GLN* 2.8 40.9 + - - +
284C SER 3.7 4.5 - - - +
286C PHE* 1.3 71.8 - - - +
288C PHE* 1.3 64.8 + - - +
291C ILE* 2.9 40.4 + - + +
328C ALA 4.8 4.0 - - - -
329C THR* 3.5 18.0 - - - +
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Residues in contact with PHE 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C PHE* 3.1 44.0 - + - -
57C VAL* 3.5 18.1 - - + +
58C ILE* 3.7 21.3 - - + -
61C LEU* 4.0 16.6 - - + -
69C VAL* 3.6 21.1 - - + -
183C LEU* 3.8 13.9 - - + -
187C PHE* 3.6 34.1 - + - -
284C SER 3.1 11.7 + - - +
285C VAL 3.2 9.4 - - - +
287C ASN* 1.3 79.6 - - - +
289C CYS* 1.3 56.9 + - - +
292C PRO* 3.0 22.3 - - - +
995C IN0 3.4 31.6 - + - -
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Residues in contact with CYS 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C PHE* 3.7 32.1 - - - -
207C MET* 4.1 6.4 - - + +
276C TYR* 4.0 9.2 - - - -
277C LEU* 3.6 21.3 - - + -
280C LEU* 3.7 15.3 - - + -
285C VAL* 2.8 21.3 + - - +
288C PHE* 1.3 75.9 - - - +
290C ALA* 1.3 64.4 + - - +
292C PRO* 3.4 9.9 - - - +
293C GLN* 3.5 18.4 - - - +
995C IN0 3.9 21.1 - - - -
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Residues in contact with ALA 290 (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 15.6 - - + +
286C PHE* 2.8 36.5 + - + +
287C ASN 4.2 0.7 - - - +
289C CYS* 1.3 71.3 - - - +
291C ILE* 1.3 67.4 + - - +
293C GLN* 3.0 5.4 + - - +
294C VAL* 2.9 25.7 + - - +
328C ALA* 3.8 22.7 - - + +
334C VAL* 4.1 12.8 - - + -
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Residues in contact with ILE 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C PHE* 4.4 14.6 - - + -
57C VAL* 4.9 13.2 - - + -
287C ASN* 2.9 28.9 + - + +
290C ALA* 1.3 76.4 - - - +
292C PRO* 1.3 71.6 - - + +
294C VAL* 3.3 5.5 + - - +
295C MET* 3.0 49.5 + - + +
328C ALA* 4.4 24.5 - - + +
329C THR* 5.9 2.2 - - + -
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Residues in contact with PRO 292 (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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54C PHE* 3.5 20.9 - - + -
211C LEU* 3.3 34.6 - - + +
288C PHE 3.0 28.3 - - - +
289C CYS 3.4 9.0 - - - +
291C ILE* 1.3 91.8 - - + +
293C GLN* 1.3 55.7 + - - +
295C MET* 3.3 8.8 + - + +
296C ALA 2.9 23.9 + - - -
995C IN0 3.9 22.7 - - + +
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Residues in contact with GLN 293 (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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207C MET* 3.1 45.7 + - + +
210C PHE* 2.9 33.0 - - + -
211C LEU* 3.5 19.1 - - - +
273C VAL* 3.5 32.4 - - + +
277C LEU* 4.4 8.1 - - + -
289C CYS 3.5 15.2 + - - +
290C ALA 3.0 8.4 + - - +
292C PRO* 1.3 77.4 - - - +
294C VAL* 1.3 59.5 + - + +
296C ALA* 3.2 2.3 + - - +
297C ILE* 2.9 37.3 + - + +
338C ILE* 5.8 2.9 - - + -
995C IN0 5.0 1.2 - - - -
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Residues in contact with VAL 294 (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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290C ALA 2.9 20.1 + - - +
291C ILE* 3.8 5.2 - - - +
293C GLN* 1.3 75.5 - - + +
295C MET* 1.3 59.1 + - + +
297C ILE* 2.9 15.5 - - + +
298C ALA* 2.9 29.1 + - + +
328C ALA* 4.1 24.7 - - + -
334C VAL* 4.4 17.9 - - + -
337C ILE* 3.6 31.9 - - + -
338C ILE* 5.0 1.3 - - + -
341C TYR* 4.4 6.1 - - + +
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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
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53C SER* 5.2 5.2 - - - +
54C PHE* 6.3 0.7 - - - -
291C ILE* 3.0 40.6 + - + +
292C PRO* 3.7 6.7 - - + +
293C GLN 3.2 0.2 - - - -
294C VAL* 1.3 79.3 - - + +
296C ALA* 1.3 52.0 + - - +
298C ALA* 3.5 7.5 - - - +
299C THR* 2.7 36.2 + - - -
995C IN0 4.3 24.9 - - - +
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Residues in contact with ALA 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210C PHE* 3.8 15.3 - - + -
211C LEU* 3.6 19.7 - - + -
214C THR* 3.8 20.8 + - + +
292C PRO 2.9 17.5 + - - +
293C GLN 3.2 5.1 + - - +
295C MET* 1.3 74.3 - - - +
297C ILE* 1.3 66.1 + - - +
299C THR* 2.9 8.0 + - - -
300C LEU* 2.9 25.3 + - - +
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Residues in contact with ILE 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210C PHE* 3.3 28.5 - - + -
270C ILE* 3.7 13.9 - - + -
273C VAL* 6.4 0.9 - - + -
293C GLN* 2.9 13.6 + - + +
294C VAL* 2.9 34.5 - - + +
296C ALA* 1.3 74.4 - - - +
298C ALA* 1.3 61.9 + - - +
300C LEU* 3.2 5.3 + - - +
301C ALA* 2.9 26.9 + - - +
338C ILE* 3.4 48.0 - - + +
341C TYR* 3.5 26.4 - - + +
342C MET* 5.3 7.2 - - + +
345C ILE* 5.4 0.7 - - - +
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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
----------------------------------------------------------
294C VAL* 2.9 19.3 + - + +
295C MET* 3.5 10.3 - - - +
297C ILE* 1.3 76.3 - - - +
299C THR* 1.3 63.8 + - - +
301C ALA* 3.5 2.6 + - - +
302C ALA* 3.1 23.3 + - - +
341C TYR* 3.7 36.3 - - + +
344C GLU* 5.3 0.2 - - - +
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Residues in contact with THR 299 (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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214C THR* 4.7 11.4 - - - +
218C ARG* 4.0 44.6 + - + +
295C MET* 2.7 18.6 + - - +
296C ALA* 2.9 11.1 + - - -
298C ALA* 1.3 77.2 - - - +
300C LEU* 1.3 57.7 + - + +
302C ALA* 3.1 7.3 + - + +
303C CYS* 2.8 35.2 + - - -
314C VAL 6.1 0.9 - - - +
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Residues in contact with LEU 300 (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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210C PHE* 3.5 37.9 - - + -
214C THR* 3.6 36.1 - - + +
217C ILE* 4.1 13.5 - - + -
263C ILE* 3.8 34.0 - - + +
266C ALA* 4.1 10.8 - - + -
267C LEU* 4.3 12.6 - - + -
296C ALA 2.9 10.9 + - - +
297C ILE* 3.2 7.4 + - - +
299C THR* 1.3 74.3 - - + +
301C ALA* 1.3 54.1 + - - +
303C CYS* 3.6 2.6 - - + +
304C TYR* 2.8 36.4 + - - +
345C ILE* 4.4 7.1 - - + +
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Residues in contact with ALA 301 (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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297C ILE 2.9 16.2 + - - +
298C ALA 3.7 3.8 - - - +
300C LEU* 1.3 77.4 - - - +
302C ALA* 1.3 56.1 + - - +
304C TYR* 3.9 3.3 + - - +
341C TYR* 3.8 24.9 - - + +
342C MET* 6.3 0.2 - - + -
344C GLU* 3.4 29.3 - - - +
345C ILE* 3.7 16.8 - - + +
348C ARG* 2.9 28.9 + - - -
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Residues in contact with ALA 302 (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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298C ALA 3.1 17.8 + - - +
299C THR* 3.5 7.9 - - - +
301C ALA* 1.3 78.8 - - - +
303C CYS* 1.3 59.8 + - - +
306C ASN* 3.0 24.0 + - - -
314C VAL 5.9 7.0 - - - +
344C GLU* 4.4 2.7 - - - +
348C ARG* 3.3 17.9 + - - +
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Residues in contact with CYS 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ILE* 4.8 3.8 - - + -
218C ARG* 4.2 20.9 - - - -
259C LEU* 3.3 12.8 - - + +
263C ILE* 3.9 11.9 - - + -
299C THR* 2.8 34.8 + - - +
300C LEU* 3.9 5.2 - - - +
302C ALA* 1.3 81.4 - - - +
304C TYR* 1.3 64.4 + - - +
305C ASN 3.1 1.0 + - - -
306C ASN* 2.9 21.6 + - - +
309C VAL* 3.7 24.5 - - + -
314C VAL 6.2 0.4 - - - -
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Residues in contact with TYR 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C ASN* 3.7 36.7 + - + +
263C ILE* 3.5 24.0 - - + +
264C THR* 4.9 0.7 - - - -
300C LEU 2.8 21.4 + - - +
301C ALA 4.0 8.5 - - - +
302C ALA 3.4 1.0 - - - -
303C CYS* 1.3 70.0 - - - +
305C ASN* 1.3 71.0 + - + +
306C ASN 3.1 0.3 + - - -
345C ILE* 3.7 31.4 - - + -
348C ARG* 2.7 71.8 + - + +
349C ILE* 3.4 20.8 - - + +
350C PRO* 3.3 19.4 - - - +
353C ASP* 4.5 2.4 + - - -
359C THR* 4.4 14.8 + - + +
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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) + - + + + + + -
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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