Contacts of the helix formed by residues 372 - 395 (chain H) in PDB entry 2ACL
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 ASP 372 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279H LEU* 4.5 6.8 - - + +
283H ASP* 3.4 14.2 + - - +
370H VAL* 4.3 0.4 - - - -
371H GLN* 1.3 75.3 - - + +
373H GLN* 1.3 56.6 + - - +
374H LEU* 3.6 5.6 + - - +
375H GLN* 2.8 39.2 + - + +
376H VAL* 3.0 24.3 + - - +
378H ARG* 4.0 5.1 + - - -
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Residues in contact with GLN 373 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351G THR* 4.5 14.0 + - - +
352G GLU* 3.4 21.7 - - - +
356G LYS* 5.2 7.3 + - - +
365H ALA* 3.5 27.3 - - + +
370H VAL* 3.9 29.8 + - + +
371H GLN 2.6 19.1 + - - +
372H ASP* 1.3 69.4 - - - +
374H LEU* 1.3 65.0 + - - +
376H VAL* 4.3 0.9 - - - -
377H GLU* 3.0 27.0 + - - +
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Residues in contact with LEU 374 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372H ASP* 3.3 5.1 - - - +
373H GLN* 1.3 78.4 - - - +
375H GLN* 1.3 57.5 + - - +
377H GLU* 4.0 4.4 - - - +
378H ARG* 3.1 50.5 + - + +
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Residues in contact with GLN 375 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275H GLY* 5.5 2.8 + - - -
278H GLN* 6.0 3.2 - - - +
279H LEU* 3.8 17.9 - - + -
372H ASP* 2.8 34.6 + - - +
374H LEU* 1.3 76.5 - - - +
376H VAL* 1.3 63.8 + - - +
378H ARG* 2.6 47.4 + - - +
379H LEU* 2.8 58.3 + - + +
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Residues in contact with VAL 376 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279H LEU* 4.2 21.5 - - + -
283H ASP* 5.0 1.8 - - - +
287H LEU* 4.0 11.7 - - + -
363H PHE* 3.5 37.3 - - + +
364H SER 3.7 3.8 - - - +
365H ALA* 3.8 12.6 - - + +
370H VAL* 4.0 19.5 - - + -
372H ASP 3.0 17.9 + - - +
373H GLN 3.8 4.5 - - - +
375H GLN* 1.3 75.4 - - - +
377H GLU* 1.3 59.2 + - - +
379H LEU* 3.4 10.5 + - - +
380H GLN* 2.9 26.3 + - - +
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Residues in contact with GLU 377 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356G LYS* 2.9 36.1 + - - +
417G LYS* 4.3 29.1 + - - +
420G LEU* 5.5 7.7 - - + +
421G ARG* 5.1 7.3 + - - -
363H PHE 5.1 0.4 - - - -
365H ALA* 4.7 6.7 - - + +
373H GLN 3.0 17.8 + - - +
374H LEU* 4.0 5.4 - - - +
376H VAL* 1.3 73.8 - - - +
378H ARG* 1.3 57.6 + - - +
380H GLN* 3.0 20.9 + - - +
381H HIS* 2.7 36.9 + - + +
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Residues in contact with ARG 378 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372H ASP* 4.0 5.5 + - - -
374H LEU* 3.1 37.6 + - + +
375H GLN* 2.6 58.4 + - - +
377H GLU* 1.3 77.6 - - - +
379H LEU* 1.3 65.6 + - - +
381H HIS* 3.0 20.2 + - - +
382H THR* 3.1 12.4 + - - -
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Residues in contact with LEU 379 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274H PRO 4.0 17.9 - - - +
275H GLY* 4.3 11.4 - - - +
279H LEU* 4.3 12.3 - - + -
363H PHE* 3.4 38.6 - - + -
375H GLN* 2.8 49.3 + - + +
376H VAL* 3.4 11.2 - - - +
378H ARG* 1.3 74.9 - - - +
380H GLN* 1.3 63.1 + - - +
382H THR* 3.0 26.5 - - - +
383H TYR* 3.3 14.0 - - + -
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Residues in contact with GLN 380 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420G LEU* 4.0 25.7 - - + +
360H ILE* 3.1 40.5 + - + +
363H PHE* 3.3 29.4 + - + +
364H SER* 4.0 10.5 + - - +
365H ALA 5.5 0.9 + - - -
376H VAL 2.9 9.0 + - - +
377H GLU* 3.0 21.4 + - - +
379H LEU* 1.3 74.1 - - - +
381H HIS* 1.3 64.7 + - - +
383H TYR* 3.1 8.9 + - - +
384H VAL* 2.8 38.2 + - + +
409H LEU* 4.7 3.2 - - - +
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Residues in contact with HIS 381 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412G PRO* 6.4 0.9 - - + -
413G GLY* 4.0 23.6 + - - -
416G ALA* 6.2 1.8 - - + -
420G LEU* 6.0 1.8 - - - -
377H GLU* 2.7 18.2 + - + +
378H ARG* 3.0 12.5 + - - +
380H GLN* 1.3 72.2 - - - +
382H THR* 1.3 53.2 + - - +
384H VAL* 3.6 9.8 - - + -
385H GLU* 2.8 58.6 + - + +
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Residues in contact with THR 382 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208H GLN* 5.0 2.0 + - + -
211H MET* 3.3 29.2 - - + -
378H ARG 3.1 9.0 + - - -
379H LEU* 3.0 19.6 + - - -
380H GLN 3.0 0.2 - - - -
381H HIS* 1.3 79.2 - - - +
383H TYR* 1.3 55.1 + - - +
385H GLU* 4.1 3.8 - - - +
386H ALA* 3.0 29.1 + - - +
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Residues in contact with TYR 383 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211H MET* 3.5 39.0 - - + +
215H LEU* 4.2 16.4 - - + -
273H LEU* 4.2 2.9 - - + -
274H PRO* 3.2 42.8 + - + +
356H LEU* 4.0 13.8 - - + +
359H ALA* 3.9 17.3 - - + -
360H ILE* 3.6 23.0 - - + +
363H PHE* 3.5 34.7 - + - -
379H LEU* 3.3 28.0 - - + -
380H GLN* 3.1 4.8 + - - +
382H THR* 1.3 75.6 - - - +
384H VAL* 1.3 60.5 + - - +
386H ALA* 3.8 5.5 - - - +
387H LEU* 2.9 29.1 + - - +
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Residues in contact with VAL 384 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416G ALA* 4.1 16.6 - - + -
420G LEU* 4.2 13.5 - - + -
360H ILE* 3.6 22.4 - - + -
380H GLN* 2.8 44.2 + - + +
381H HIS* 3.6 10.3 - - + +
383H TYR* 1.3 75.8 - - - +
385H GLU* 1.3 68.4 + - - +
387H LEU* 3.5 1.6 + - - +
388H HIS* 3.1 21.5 + - - +
402H PHE* 3.7 26.0 - - + -
406H LEU* 4.2 12.8 - - + -
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Residues in contact with GLU 385 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412G PRO* 4.2 18.6 - - - +
413G GLY* 3.6 20.9 - - - -
416G ALA* 5.0 7.4 - - - +
208H GLN* 4.0 11.2 - - - +
381H HIS* 2.8 42.7 + - + +
382H THR* 4.1 3.8 - - - +
384H VAL* 1.3 78.3 - - - +
386H ALA* 1.3 64.6 + - - +
388H HIS* 2.9 22.2 + - - +
389H ALA* 2.9 22.7 + - - +
402H PHE* 5.1 1.4 - - - -
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Residues in contact with ALA 386 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204H LEU* 4.3 2.4 - - - +
208H GLN* 3.7 29.3 - - + +
211H MET* 4.0 20.4 - - - -
212H ILE* 4.9 6.5 - - + -
356H LEU* 4.4 8.7 - - + -
382H THR 3.0 18.7 + - - +
383H TYR* 3.8 4.3 - - - +
385H GLU* 1.3 77.8 - - - +
387H LEU* 1.3 64.2 + - - +
389H ALA* 3.2 1.7 + - - +
390H TYR* 2.9 24.4 + - - +
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Residues in contact with LEU 387 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353H GLU* 4.7 5.6 - - + -
356H LEU* 3.3 34.9 - - + +
357H LEU* 4.9 5.4 - - + -
360H ILE* 4.1 17.5 - - + -
383H TYR 2.9 19.3 + - - +
384H VAL 3.8 3.6 - - - +
386H ALA* 1.3 75.4 - - - +
388H HIS* 1.3 52.5 + - - +
390H TYR* 3.5 0.5 + - - +
391H VAL* 2.6 51.4 + - + +
402H PHE* 4.3 18.8 - - + -
405H MET* 3.2 41.3 - - + -
406H LEU* 4.8 6.1 - - + -
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Residues in contact with HIS 388 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401G GLU* 4.2 16.4 + - - -
412G PRO 5.5 5.1 + - - -
202H VAL* 5.6 9.2 - - + +
384H VAL 3.1 13.6 + - - +
385H GLU* 2.9 28.2 + - - +
387H LEU* 1.3 73.9 - - - +
389H ALA* 1.3 69.9 + - - +
391H VAL* 2.9 19.6 - - - +
392H SER* 3.0 15.0 + - - -
399H PRO* 5.4 4.0 - - + -
402H PHE* 3.1 51.6 - + + +
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Residues in contact with ALA 389 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202H VAL* 4.1 15.5 - - + -
203H GLN 4.2 13.2 - - - +
204H LEU* 4.0 6.7 - - + -
208H GLN* 3.6 24.0 - - - +
385H GLU 2.9 10.7 + - - +
386H ALA 3.6 7.0 - - - +
388H HIS* 1.3 75.1 - - - +
390H TYR* 1.3 68.6 + - - +
392H SER* 2.6 28.4 + - - -
393H ILE* 3.4 7.3 + - - +
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Residues in contact with TYR 390 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204H LEU* 3.8 21.6 - - + +
209H LEU* 6.2 0.7 - - + -
212H ILE* 3.2 33.2 - - + -
213H GLU* 5.1 3.8 - - - -
350H ASN* 3.8 14.6 + - - -
352H ALA* 3.7 23.8 - - + +
353H GLU* 3.6 35.0 - - + -
356H LEU* 4.3 4.9 - - + -
386H ALA 2.9 14.7 + - - +
387H LEU* 3.5 6.7 - - - +
389H ALA* 1.3 82.2 - - - +
391H VAL* 1.3 66.2 + - + +
393H ILE* 3.0 7.9 + - + +
394H ASN* 3.0 39.2 + - + +
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Residues in contact with VAL 391 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353H GLU* 3.4 22.9 - - + +
387H LEU* 2.6 46.7 + - + +
388H HIS* 2.9 22.7 - - - +
390H TYR* 1.3 70.9 - - - +
392H SER* 1.3 64.1 + - - +
394H ASN* 4.3 6.7 - - - -
395H HIS* 2.8 28.2 + - - +
398H ASP 5.3 0.6 - - - +
401H MET* 4.2 13.9 - - + -
402H PHE* 4.3 18.4 - - + +
405H MET* 3.7 16.6 - - - -
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Residues in contact with SER 392 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202H VAL* 3.5 31.3 + - - +
388H HIS* 3.0 19.3 + - - -
389H ALA 2.6 23.9 + - - -
391H VAL* 1.3 72.8 - - - +
393H ILE* 1.3 56.9 + - - +
395H HIS 2.6 25.3 - - - +
396H PRO* 3.3 10.4 - - - +
398H ASP 5.9 1.1 - - - -
399H PRO* 6.2 3.1 - - - -
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Residues in contact with ILE 393 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202H VAL 3.8 8.3 - - - +
203H GLN* 3.8 16.4 - - + +
204H LEU* 3.7 41.1 - - + +
389H ALA 3.6 9.2 - - - +
390H TYR* 3.0 6.7 + - + +
392H SER* 1.3 87.8 + - - +
394H ASN* 1.3 59.8 + - - +
395H HIS 2.8 10.3 + - - -
396H PRO* 3.6 14.9 - - - +
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Residues in contact with ASN 394 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348H GLN 5.7 0.6 + - - -
350H ASN* 4.5 7.3 + - - +
353H GLU* 3.5 18.8 + - - +
390H TYR* 3.0 35.2 + - + +
391H VAL* 4.1 0.9 - - - +
393H ILE* 1.3 79.3 - - - +
395H HIS* 1.3 97.2 + - + +
396H PRO* 4.1 1.8 - - - +
----------------------------------------------------------
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Residues in contact with HIS 395 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347H LEU 4.9 1.0 + - - -
348H GLN* 4.7 8.3 + - - +
353H GLU* 3.0 31.1 + - - -
391H VAL 2.8 15.4 + - - +
392H SER* 2.6 19.4 - - - +
393H ILE 2.8 0.6 + - - -
394H ASN* 1.3 115.1 + - - +
396H PRO* 1.3 61.9 - - - +
397H HIS 3.4 2.4 + - - +
398H ASP* 4.0 34.1 + - + +
399H PRO* 5.3 0.7 - - - +
401H MET* 3.9 33.9 - - + +
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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) + - + + + + + -
------------------------------------------------------------
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