Contacts of the helix formed by residues 284 - 305 (chain A) in PDB entry 2ACX
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 PRO 284 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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282A GLY 4.7 0.9 - - - +
283A PHE* 1.3 89.6 - - + +
285A GLU* 1.3 69.3 + - - +
286A ALA* 4.7 5.2 - - + +
287A ARG* 3.1 29.8 + - + +
288A ALA 3.2 6.9 + - - -
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Residues in contact with GLU 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A PHE 3.5 2.7 + - - -
284A PRO* 1.3 68.7 - - - +
286A ALA* 1.3 67.2 + - - +
287A ARG 2.8 1.0 + - - -
288A ALA* 2.8 7.7 + - - +
289A VAL* 2.7 29.1 + - + +
379A ILE* 4.4 19.5 - - + +
411A ARG 4.8 5.9 - - - +
412A PHE* 4.5 0.9 - - - -
413A SER* 2.6 49.9 + - - -
416A ALA* 3.3 11.6 - - - +
447A LEU* 3.8 16.0 - - - +
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Residues in contact with ALA 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284A PRO* 3.3 5.5 + - + +
285A GLU* 1.3 76.7 - - - +
287A ARG* 1.3 58.1 + - - +
289A VAL* 3.4 8.9 + - - +
290A PHE* 2.9 29.9 + - - +
450A LYS* 6.3 1.3 - - - +
464A PRO* 4.5 9.8 - - + +
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Residues in contact with ARG 287 (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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274A HIS* 4.0 17.6 + - - -
277A HIS* 6.3 0.8 - - - -
278A MET* 5.3 7.1 - - - +
283A PHE* 3.4 44.9 - - + -
284A PRO* 3.1 23.8 + - + +
285A GLU 2.8 3.6 + - - -
286A ALA* 1.3 75.7 - - - +
288A ALA* 1.3 66.8 + - - +
290A PHE* 3.2 4.3 + - - +
291A TYR* 3.1 60.6 + - + +
464A PRO* 3.8 24.7 - - + +
465A PHE* 3.5 46.8 - - - +
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Residues in contact with ALA 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A PHE* 4.0 7.9 - - + +
284A PRO 3.2 5.6 + - - +
285A GLU 2.8 9.3 + - - +
287A ARG* 1.3 76.2 - - - +
289A VAL* 1.3 57.7 - - - +
291A TYR 3.2 1.6 + - - -
292A ALA* 2.9 26.3 + - - +
375A LEU* 4.0 13.0 - - + -
378A MET* 3.4 43.5 - - + +
379A ILE* 4.0 17.7 - - + -
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Residues in contact with VAL 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A GLU* 2.7 29.8 + - + +
286A ALA* 3.5 11.2 - - - +
288A ALA* 1.3 71.8 - - + +
290A PHE* 1.3 65.3 + - - +
292A ALA* 3.3 6.9 + - - +
293A ALA* 2.9 22.5 + - - +
375A LEU* 4.8 2.9 - - + -
379A ILE* 6.0 0.7 - - + -
447A LEU* 3.7 46.2 - - + +
448A PHE* 3.7 23.7 - - + -
451A LEU* 3.9 13.0 - - + -
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Residues in contact with PHE 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A ALA 2.9 17.9 + - - +
287A ARG 3.5 5.4 - - - +
289A VAL* 1.3 77.5 - - - +
291A TYR* 1.3 70.4 + + + +
293A ALA* 3.3 3.7 + - - +
294A GLU* 3.1 49.9 + - + +
323A GLY 4.9 0.2 - - - -
324A HIS* 4.2 0.4 - + - -
451A LEU* 4.3 23.1 - - + -
456A LEU* 3.5 27.8 - - + -
461A LEU* 3.8 30.1 - - + -
462A GLU 4.3 6.3 - - - -
463A PRO* 3.8 20.6 - - + -
464A PRO* 3.8 25.4 - - + -
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Residues in contact with TYR 291 (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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271A LEU* 3.9 16.2 - - + -
283A PHE* 3.5 33.2 - + - -
287A ARG* 3.1 51.8 + - + -
288A ALA 3.6 4.9 - - - +
290A PHE* 1.3 87.7 - + + +
292A ALA* 1.3 67.8 + - - +
294A GLU* 3.1 5.9 + - - +
295A ILE* 2.8 36.9 + - + +
319A LEU* 3.6 13.1 - - + +
323A GLY 4.0 15.3 + - - -
325A ILE* 3.6 30.3 - - + -
378A MET* 3.7 15.3 - - + -
464A PRO* 5.5 4.0 - - + -
465A PHE* 3.9 10.4 + - + +
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Residues in contact with ALA 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288A ALA 2.9 16.2 + - - +
289A VAL* 3.6 5.2 - - - +
291A TYR* 1.3 75.9 - - - +
293A ALA* 1.3 58.2 + - - +
295A ILE* 3.2 4.4 + - - +
296A CYS* 2.8 32.4 + - - +
371A LEU* 4.2 22.0 - - + +
375A LEU* 4.1 23.1 - - + -
378A MET* 4.2 4.0 - - + +
448A PHE* 4.1 17.0 - - + -
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Residues in contact with ALA 293 (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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289A VAL 2.9 16.2 + - - +
290A PHE 3.7 4.3 - - - +
291A TYR 3.1 0.2 - - - -
292A ALA* 1.3 76.5 - - - +
294A GLU* 1.3 62.1 + - - +
296A CYS* 3.3 7.3 - - - +
297A CYS* 3.0 26.5 + - - -
448A PHE* 3.9 7.4 - - + -
451A LEU* 3.8 17.0 - - + -
453A PHE* 3.6 17.4 - - + -
456A LEU* 3.6 22.2 - - + -
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Residues in contact with GLU 294 (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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245A PHE* 3.5 37.1 - - + +
290A PHE* 3.1 34.2 + - - +
291A TYR* 3.1 5.1 + - - +
293A ALA* 1.3 77.1 - - - +
295A ILE* 1.3 62.9 + - - +
297A CYS* 3.2 7.4 + - - +
298A GLY 3.0 16.8 + - - -
323A GLY 4.5 0.2 - - - +
324A HIS* 2.6 34.1 + - - -
325A ILE* 3.0 41.9 + - + +
456A LEU* 3.9 20.2 - - + +
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Residues in contact with ILE 295 (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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271A LEU* 4.7 3.6 - - + -
291A TYR* 2.8 32.2 + - + +
292A ALA* 3.7 6.5 - - - +
294A GLU* 1.3 72.6 - - - +
296A CYS* 1.3 57.3 + - - +
298A GLY* 3.0 3.7 + - - +
299A LEU* 2.8 38.8 + - + +
312A LEU* 4.0 24.9 - - + -
317A ILE* 4.2 25.6 - - + -
325A ILE* 3.8 19.1 - - + -
327A ILE* 4.2 9.0 - - + +
371A LEU* 4.0 18.6 - - + -
374A LEU* 4.5 17.5 - - + -
378A MET* 5.1 2.0 - - + -
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Residues in contact with CYS 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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292A ALA 2.8 19.0 + - - +
293A ALA* 3.3 9.0 - - - +
295A ILE* 1.3 76.0 - - - +
297A CYS* 1.3 62.0 + - - +
299A LEU* 3.3 3.6 + - - +
300A GLU* 2.9 23.1 + - - +
368A TRP* 4.0 21.1 - - - -
371A LEU* 4.3 9.3 - - + +
439A ALA* 4.5 2.9 - - - -
442A VAL* 3.6 31.2 - - + -
443A LYS* 4.1 23.3 - - - -
448A PHE* 5.2 2.5 - - + -
453A PHE* 5.1 2.0 - - - -
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Residues in contact with CYS 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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245A PHE* 3.5 24.9 - - + -
293A ALA 3.0 19.0 + - - -
294A GLU 3.2 9.2 + - - +
296A CYS* 1.3 76.4 - - - +
298A GLY* 1.3 57.3 + - - +
300A GLU* 3.2 10.8 + - - +
301A ASP* 2.9 32.0 + - - +
443A LYS* 4.4 11.7 - - - -
453A PHE* 3.8 26.5 - - - -
456A LEU* 4.0 13.5 - - - -
457A GLY* 5.2 5.4 - - - -
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Residues in contact with GLY 298 (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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243A SER* 4.3 6.7 - - - -
245A PHE* 3.4 23.5 - - - +
246A VAL* 4.3 1.5 - - - +
294A GLU 3.0 7.9 + - - -
295A ILE 3.0 7.3 + - - -
297A CYS* 1.3 75.7 - - - +
299A LEU* 1.3 58.4 + - - +
301A ASP* 3.2 2.6 + - - +
302A LEU* 2.9 31.5 + - - +
327A ILE* 4.1 15.0 - - - -
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Residues in contact with LEU 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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295A ILE* 2.8 27.8 + - + +
296A CYS 3.7 4.3 - - - +
298A GLY* 1.3 72.6 - - - +
300A GLU* 1.3 56.9 + - - +
302A LEU* 3.2 11.2 + - + +
303A HIS* 2.9 41.6 + - + +
309A TYR* 4.3 9.4 - - + -
312A LEU* 4.1 15.9 - - + -
327A ILE* 4.1 13.9 - - + +
367A ASP* 3.8 47.3 - - + +
368A TRP* 3.9 30.3 - - + -
371A LEU* 4.5 4.7 - - + -
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Residues in contact with GLU 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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296A CYS 2.9 10.3 + - - +
297A CYS* 3.6 10.7 - - - +
299A LEU* 1.3 75.1 - - - +
301A ASP* 1.3 66.8 + - - +
303A HIS* 3.2 7.1 + - - +
304A ARG* 2.8 53.0 + - + +
368A TRP* 4.6 0.8 - - - -
439A ALA* 3.5 26.6 - - + +
440A ARG* 5.2 2.8 + - - +
443A LYS* 2.6 42.4 + - - -
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Residues in contact with ASP 301 (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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241A VAL* 5.3 4.2 - - + +
242A ASN 4.8 3.3 - - - +
243A SER* 2.6 42.3 + - - +
244A ARG 4.3 1.6 + - - -
245A PHE* 4.2 8.7 - - - -
246A VAL* 5.2 0.9 - - + -
297A CYS* 2.9 16.1 + - - +
298A GLY 3.2 5.6 + - - +
300A GLU* 1.3 81.3 - - - +
302A LEU* 1.3 63.1 + - - +
304A ARG* 2.8 34.8 + - - +
305A GLU* 3.5 21.3 + - - +
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Residues in contact with LEU 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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241A VAL* 3.9 26.0 - - + -
246A VAL* 4.2 14.8 - - + -
298A GLY 2.9 20.8 + - - +
299A LEU* 3.7 7.9 - - + +
300A GLU 3.2 0.2 - - - -
301A ASP* 1.3 76.9 - - - +
303A HIS* 1.3 62.4 + - + +
305A GLU* 3.1 14.9 + - - +
306A ARG 3.2 0.2 + - - -
307A ILE* 3.0 45.7 + - + +
309A TYR* 4.0 31.0 - - + -
327A ILE* 4.0 24.5 - - + -
330A LEU* 4.3 14.8 - - + -
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Residues in contact with HIS 303 (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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299A LEU* 2.9 25.0 + - + +
300A GLU* 3.8 4.9 - - - +
302A LEU* 1.3 75.1 - - + +
304A ARG* 1.3 57.9 + - - +
306A ARG* 2.7 28.3 + - - +
307A ILE 3.2 20.4 - - - +
364A PHE* 3.6 37.6 + + + +
367A ASP* 2.8 34.5 + - + -
368A TRP* 3.6 42.7 + + - -
438A SER* 6.2 2.5 - - - -
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Residues in contact with ARG 304 (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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300A GLU* 2.8 46.0 + - + +
301A ASP* 2.8 41.8 + - - +
303A HIS* 1.3 75.6 - - - +
305A GLU* 1.3 70.5 + - - +
306A ARG* 3.2 8.4 + - - +
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Residues in contact with GLU 305 (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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59A ARG* 5.9 0.9 + - - -
240A LYS* 3.0 61.0 + - + +
241A VAL* 4.4 17.9 - - + -
242A ASN 5.6 1.1 - - - +
301A ASP 3.5 10.5 + - - +
302A LEU 3.1 10.1 + - - +
304A ARG* 1.3 88.7 - - - +
306A ARG* 1.3 69.5 + - - +
307A ILE* 3.3 13.9 + - + +
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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