Contacts of the helix formed by residues 282 - 304 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A ASP* 2.8 22.9 + - - +
192A PHE* 3.3 38.5 + - + +
193A GLU* 2.9 14.6 + - - +
280A LEU* 4.8 0.2 - - - +
281A ARG* 1.3 78.5 + - - +
283A GLN* 1.3 58.5 + - - +
284A SER* 2.6 36.9 + - - -
285A VAL* 3.0 19.6 + - + +
286A PHE* 2.9 29.4 + - - +
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Residues in contact with GLN 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ASP* 6.0 0.2 - - - +
281A ARG 3.7 4.2 + - - -
282A ASN* 1.3 71.1 + - - +
284A SER* 1.3 65.6 + - - +
286A PHE* 3.3 8.2 + - - +
287A ASN* 2.8 56.7 + - - +
329A THR* 3.0 28.7 + - - +
330B ASN* 3.9 31.6 + - + +
332B PRO* 4.0 13.7 - - + -
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Residues in contact with SER 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A VAL* 5.2 2.4 - - - +
60A ALA* 3.2 28.0 - - - -
61A LEU* 3.6 10.2 - - - +
62A ASP* 3.1 26.7 + - - +
282A ASN* 2.6 19.3 + - - -
283A GLN* 1.3 77.2 - - - +
285A VAL* 1.3 57.1 + - - +
287A ASN* 3.6 3.6 + - - +
288A PHE* 3.0 28.1 + - - +
332B PRO* 3.7 21.7 - - - +
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Residues in contact with VAL 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A LEU* 4.1 3.1 - - + -
65A MET* 3.5 38.8 - - + -
187A PHE* 3.7 34.5 - - + -
193A GLU* 3.5 16.6 - - + +
280A LEU* 3.9 12.1 - - + -
282A ASN* 3.0 30.9 + - + +
284A SER* 1.3 74.8 - - - +
286A PHE* 1.3 66.3 + - - +
288A PHE* 3.2 7.7 + - - +
289A CYS* 2.9 22.8 + - - -
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Residues in contact with PHE 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277A LEU* 3.6 19.5 - - + -
280A LEU* 3.8 23.1 - - + +
281A ARG 6.1 0.2 - - - -
282A ASN 2.9 16.3 + - - +
283A GLN* 3.3 10.3 + - - +
285A VAL* 1.3 77.8 - - - +
287A ASN* 1.3 55.6 + - - +
289A CYS* 3.2 0.7 + - - +
290A ALA* 2.7 46.8 + - + +
328A ALA 3.4 23.6 - - - -
329A THR 3.8 11.7 - - - -
330A ASN* 3.6 15.0 - - - -
331A MET* 3.5 44.0 - - + -
334A VAL* 3.5 23.3 - - + -
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Residues in contact with ASN 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A VAL* 4.2 6.1 - - + -
283A GLN* 2.8 33.8 + - - +
284A SER* 3.9 4.3 - - - +
286A PHE* 1.3 80.0 - - - +
288A PHE* 1.3 64.3 + - - +
291A ILE* 3.1 40.8 + - + +
328A ALA 4.5 6.1 - - - -
329A THR* 3.7 21.0 - - - +
330B ASN* 3.6 21.8 + - - -
332B PRO* 3.8 9.0 - - + +
333B ALA* 3.8 16.4 - - - +
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Residues in contact with PHE 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE* 3.3 44.4 - + - -
57A VAL* 3.6 17.2 - - + +
58A ILE* 3.4 18.8 - - + -
61A LEU* 3.8 20.2 - - + -
69A VAL* 3.5 22.9 - - + -
183A LEU* 3.8 22.7 - - + -
187A PHE* 3.7 24.2 - + - -
284A SER 3.0 20.4 + - - +
285A VAL 3.3 4.5 - - - +
287A ASN* 1.3 76.8 - - - +
289A CYS* 1.3 58.0 + - - +
292A PRO* 3.0 23.9 - - - +
991A IN0 3.6 27.5 - + - -
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Residues in contact with CYS 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187A PHE* 3.6 33.7 - - - -
207A MET* 4.0 9.3 - - + +
276A TYR* 4.0 14.8 - - - -
277A LEU* 3.8 18.4 - - + -
280A LEU* 3.9 7.2 - - + -
285A VAL 2.9 18.6 + - - +
288A PHE* 1.3 80.6 - - - +
290A ALA* 1.3 63.5 + - - +
292A PRO* 3.4 8.7 - - - +
293A GLN* 3.4 20.4 - - - +
991A IN0 3.9 18.0 - - - -
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Residues in contact with ALA 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277A LEU* 3.8 17.2 - - + +
286A PHE* 2.7 49.7 + - + +
287A ASN 4.5 0.2 - - - +
289A CYS* 1.3 71.5 - - - +
291A ILE* 1.3 66.4 + - - +
293A GLN* 3.3 3.0 + - - +
294A VAL* 3.0 27.4 + - - +
328A ALA* 3.9 11.7 - - + +
334A VAL* 4.1 10.3 - - + -
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Residues in contact with ILE 291 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE* 4.4 12.8 - - + -
57A VAL* 3.7 24.9 - - + -
287A ASN* 3.1 26.9 + - + +
290A ALA* 1.3 76.4 - - - +
292A PRO* 1.3 73.0 - - + +
294A VAL* 3.1 5.2 + - - +
295A MET* 3.0 47.0 + - + +
328A ALA* 4.7 15.5 - - + +
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Residues in contact with PRO 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A PHE* 3.6 26.2 - - + -
211A LEU* 3.4 27.3 - - + +
288A PHE 3.0 23.6 - - - +
289A CYS 3.4 7.2 - - - +
291A ILE* 1.3 87.9 - - + +
293A GLN* 1.3 55.8 + - + +
295A MET* 3.3 10.5 + - + +
296A ALA* 2.8 30.5 + - - +
991A IN0 3.7 25.6 - - + +
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Residues in contact with GLN 293 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A MET* 3.1 58.7 + - + +
210A PHE* 3.1 28.6 - - + +
211A LEU* 3.4 21.4 - - - +
273A VAL* 3.3 25.8 - - + +
277A LEU* 4.5 6.5 - - + -
289A CYS 3.4 15.4 + - - +
290A ALA 3.3 7.1 + - - +
291A ILE 3.3 0.8 - - - -
292A PRO* 1.3 77.8 - - + +
294A VAL* 1.3 60.5 + - + +
296A ALA* 3.6 1.6 - - - +
297A ILE* 3.0 33.8 + - + +
338A ILE* 5.7 2.0 - - + -
991A IN0 4.8 1.4 - - - -
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Residues in contact with VAL 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A ALA 3.0 19.8 + - - +
291A ILE* 3.7 3.8 - - - +
293A GLN* 1.3 75.8 - - + +
295A MET* 1.3 70.4 + - + +
297A ILE* 3.5 6.9 + - - +
298A ALA* 3.0 22.5 + - + +
328A ALA* 4.1 23.1 - - + -
334A VAL* 4.3 19.7 - - + -
337A ILE* 3.6 33.2 - - + -
338A ILE* 4.9 5.8 - - + -
341A TYR* 4.3 5.5 - - + -
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Residues in contact with MET 295 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER* 5.1 7.2 - - - +
54A PHE* 6.1 2.0 - - - -
291A ILE* 3.0 40.0 + - + +
292A PRO* 3.7 9.0 - - + +
294A VAL* 1.3 81.8 - - + +
296A ALA* 1.3 57.2 + - - +
298A ALA* 3.4 7.2 + - - +
299A THR* 2.8 32.5 + - - -
316A ILE* 4.7 5.9 - - + +
991A IN0 3.9 24.7 - - - +
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Residues in contact with ALA 296 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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210A PHE* 3.5 23.8 - - + -
211A LEU* 3.7 16.2 - - + -
214A THR* 3.9 19.8 - - + +
292A PRO 2.8 18.5 + - - +
293A GLN 3.6 1.6 - - - +
294A VAL 3.2 0.2 - - - -
295A MET* 1.3 74.5 - - - +
297A ILE* 1.3 60.8 + - - +
299A THR* 3.0 8.4 + - - -
300A LEU* 2.9 29.3 + - - +
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Residues in contact with ILE 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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210A PHE* 3.4 22.0 - - + -
267A LEU* 5.3 0.2 - - + -
270A ILE* 3.4 15.3 - - + -
273A VAL* 5.8 0.4 - - + -
293A GLN* 3.0 17.4 + - + +
294A VAL* 4.0 4.3 - - - +
296A ALA* 1.3 75.3 - - - +
298A ALA* 1.3 56.6 - - - +
300A LEU* 3.4 6.9 + - + +
301A ALA* 2.9 29.1 + - - +
338A ILE* 3.3 48.0 - - + +
341A TYR* 3.8 24.6 - - + +
342A MET* 4.1 21.5 - - - -
345A ILE* 5.3 3.1 - - + -
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Residues in contact with ALA 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294A VAL* 3.0 18.8 + - + +
295A MET* 3.5 9.4 - - - +
296A ALA 3.1 0.2 - - - -
297A ILE* 1.3 76.4 - - - +
299A THR* 1.3 59.1 + - - +
301A ALA* 3.3 3.5 + - - +
302A ALA* 2.9 28.9 + - - +
316A ILE* 3.9 19.3 - - + +
341A TYR* 3.5 37.1 - - + +
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Residues in contact with THR 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214A THR* 4.8 11.9 - - - +
218A ARG* 4.1 34.0 + - + +
295A MET* 2.8 18.0 + - - +
296A ALA* 3.0 12.1 + - - -
298A ALA* 1.3 73.6 - - - +
300A LEU* 1.3 59.5 + - + +
302A ALA* 2.9 5.9 + - - +
303A CYS* 2.8 45.0 + - - -
314A VAL 6.2 0.2 - - - +
316A ILE* 3.2 26.5 - - + +
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Residues in contact with LEU 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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210A PHE* 3.5 37.7 - - + -
214A THR* 3.6 35.2 - - + +
217A ILE* 4.3 12.6 - - + -
263A ILE* 4.0 33.1 - - + +
266A ALA* 4.0 11.4 - - + -
267A LEU* 4.1 14.6 - - + -
296A ALA 2.9 8.6 + - - +
297A ILE* 3.7 7.0 - - - +
299A THR* 1.3 76.0 - - + +
301A ALA* 1.3 58.8 + - - +
303A CYS* 3.6 4.7 - - + +
304A TYR* 2.8 33.4 + - - +
345A ILE* 4.3 7.0 - - + -
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Residues in contact with ALA 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A ILE 2.9 18.4 + - - +
298A ALA 3.5 4.9 - - - +
299A THR 3.2 0.2 - - - -
300A LEU* 1.3 77.2 - - - +
302A ALA* 1.3 57.7 + - - +
304A TYR* 3.8 2.8 + - - +
341A TYR* 3.8 28.5 - - + +
344A GLU* 4.5 10.6 - - + +
345A ILE* 3.6 25.9 - - + +
348A ARG* 2.7 29.6 + - - -
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Residues in contact with ALA 302 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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298A ALA 2.9 12.3 + - - +
299A THR* 2.9 9.7 + - - +
301A ALA* 1.3 77.6 - - - +
303A CYS* 1.3 62.1 + - - +
306A ASN* 2.8 26.0 + - - +
314A VAL* 4.2 15.9 - - + -
315A LYS 4.3 6.7 - - - +
316A ILE* 4.3 19.5 - - + -
348A ARG* 3.5 14.9 + - - +
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Residues in contact with CYS 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A ILE* 5.0 4.0 - - + -
218A ARG* 4.2 21.5 - - - -
259A LEU* 3.3 14.9 - - + +
263A ILE* 4.0 11.0 - - + -
299A THR* 2.8 35.4 + - - +
300A LEU* 3.8 5.2 - - + +
302A ALA* 1.3 78.1 - - - +
304A TYR* 1.3 65.0 + - - +
305A ASN 3.2 1.2 + - - -
306A ASN* 3.0 21.6 + - - +
309A VAL* 3.7 22.8 - - + +
314A VAL* 4.4 12.1 - - - -
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Residues in contact with TYR 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A ASN* 3.4 35.4 + - + +
263A ILE* 3.5 22.9 - - + +
300A LEU 2.8 19.9 + - - +
301A ALA 4.0 7.9 - - - +
302A ALA 3.4 1.4 - - - -
303A CYS* 1.3 71.1 - - - +
305A ASN* 1.3 72.6 + - + +
306A ASN* 3.0 1.2 + - - +
345A ILE* 3.7 35.0 - - + -
348A ARG* 2.9 65.5 + - + +
349A ILE* 3.4 17.6 - - + +
350A PRO* 3.2 21.3 - - + +
353A ASP* 4.7 3.1 + - - -
356A SER* 5.7 0.2 - - - -
359A THR* 4.4 15.0 + - + -
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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