Contacts of the helix formed by residues 369 - 383 (chain A) in PDB entry 1EYN
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 369 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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308A ALA* 5.5 0.7 - - - +
331A ARG* 3.1 39.1 + - + +
333A MET* 6.3 2.2 - - + -
367A ALA* 3.5 1.2 - - - +
368A THR* 1.3 79.1 - - - +
370A LEU* 1.3 63.3 + - - +
371A ARG* 2.7 33.1 + - - +
372A ALA* 3.0 20.7 + - + +
373A SER* 2.8 26.7 + - - -
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Residues in contact with LEU 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LYS* 5.9 2.2 - - - +
331A ARG* 4.8 2.7 - - - +
368A THR 3.3 4.9 + - - -
369A ASP* 1.3 79.4 - - - +
371A ARG* 1.3 104.1 + - + +
373A SER* 3.8 7.4 - - - -
374A ALA* 2.9 27.9 + - - +
394A HIS* 3.4 25.4 - - + +
395A ILE* 4.1 5.3 - - - +
397A ARG* 5.0 1.3 - - + -
398A GLY* 3.8 31.2 - - - +
399A TYR* 4.2 6.2 - - + -
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Residues in contact with ARG 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LYS* 6.2 1.4 - - - +
23A ASN* 4.6 12.9 - - - +
231A ASP* 5.2 6.7 + - - -
233A ILE* 3.4 29.1 - - - +
234A GLU 4.7 1.8 - - - +
304A THR 5.8 0.2 - - - +
305A ASP* 3.5 39.3 + - - +
308A ALA* 4.0 5.8 - - + +
309A GLN* 3.9 11.4 - - - +
331A ARG* 3.6 23.1 - - - +
369A ASP* 2.7 14.3 + - - +
370A LEU* 1.3 95.2 - - + +
372A ALA* 1.3 58.3 + - - +
374A ALA* 3.8 5.1 - - - +
375A SER* 2.9 33.4 + - - -
398A GLY* 4.8 6.1 + - - -
399A TYR* 3.1 38.7 + - - -
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Residues in contact with ALA 372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A ALA* 3.8 12.5 - - + +
333A MET* 5.2 2.2 - - + +
334A HIS* 3.8 30.7 - - + +
367A ALA* 3.8 16.2 - - + -
369A ASP* 3.0 23.8 + - + +
371A ARG* 1.3 77.7 - - - +
373A SER* 1.3 58.7 + - - +
375A SER* 3.1 4.3 + - - -
376A LEU* 2.9 31.9 + - - +
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Residues in contact with SER 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A ALA* 3.8 23.1 + - - +
369A ASP 2.8 17.4 + - - -
370A LEU* 3.8 3.8 - - - -
372A ALA* 1.3 75.1 - - - +
374A ALA* 1.3 66.3 + - - +
376A LEU* 3.0 18.3 + - - +
377A VAL* 3.1 14.7 + - - +
389A VAL* 3.9 13.0 - - - +
390A ASP 4.5 3.1 + - - -
391A ARG 4.7 0.9 + - - -
392A ILE* 4.3 5.4 - - - +
394A HIS* 5.1 2.9 - - - -
395A ILE* 3.2 27.4 - - - +
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Residues in contact with ALA 374 (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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237A THR* 4.5 8.3 - - + -
309A GLN* 5.7 1.6 - - + +
370A LEU 2.9 20.1 + - - +
371A ARG 3.9 3.6 - - - +
373A SER* 1.3 74.2 - - - +
375A SER* 1.3 63.9 + - - +
377A VAL* 3.1 7.6 + - - +
378A LEU* 3.0 26.3 + - - +
395A ILE* 3.8 11.4 - - + +
399A TYR* 3.9 29.2 - - + +
402A ILE* 4.3 13.1 - - + +
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Residues in contact with SER 375 (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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308A ALA* 3.3 13.6 - - - +
309A GLN* 3.2 34.9 + - - +
312A LEU* 3.4 16.4 - - - +
334A HIS* 5.2 4.5 - - - -
338A LEU* 5.5 3.6 - - - -
371A ARG 2.9 22.5 + - - -
372A ALA* 3.3 8.3 - - - -
374A ALA* 1.3 79.4 - - - +
376A LEU* 1.3 57.5 + - - +
378A LEU* 3.2 8.8 + - - +
379A ALA* 2.8 26.6 + - - +
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Residues in contact with LEU 376 (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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334A HIS* 4.5 6.7 - - + +
337A GLU* 3.9 21.3 - - + -
338A LEU* 3.9 28.3 - - + +
341A MET* 4.7 3.5 - - - +
365A VAL* 3.9 19.5 - - + -
366A MET* 3.8 39.7 - - - +
367A ALA* 3.9 14.6 - - + +
372A ALA 2.9 15.4 + - - +
373A SER* 3.0 10.0 + - - +
375A SER* 1.3 78.9 - - - +
377A VAL* 1.3 61.8 + - - +
379A ALA* 3.3 4.4 + - - +
380A GLY* 3.0 18.9 + - - -
387A THR* 4.4 3.3 - - - +
389A VAL* 3.9 12.6 - - + +
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Residues in contact with VAL 377 (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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4A PHE* 3.7 17.0 - - + -
6A VAL* 4.3 7.5 - - + +
373A SER 3.1 12.9 + - - +
374A ALA* 3.1 9.0 + - - +
376A LEU* 1.3 76.6 - - - +
378A LEU* 1.3 62.3 + - + +
380A GLY* 3.0 11.1 + - - -
381A CYS* 3.1 14.2 + - - -
389A VAL* 3.9 19.1 - - + -
395A ILE* 3.7 21.8 - - + -
402A ILE* 5.4 3.6 - - + -
406A LEU* 3.5 28.9 - - + -
413A ILE* 3.7 20.4 - - + -
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Residues in contact with LEU 378 (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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12A LEU* 4.9 3.0 - - + +
237A THR* 3.6 37.9 - - + +
238A PHE* 5.9 0.4 - - + -
240A VAL* 4.2 14.1 - - + -
241A ALA* 3.7 31.4 - - + +
244A ILE* 4.0 9.8 - - + +
309A GLN* 5.0 4.0 - - + -
312A LEU* 3.8 12.6 - - + -
374A ALA 3.0 17.9 + - - +
375A SER* 3.6 10.5 - - - +
377A VAL* 1.3 75.3 - - - +
379A ALA* 1.3 63.1 + - - +
381A CYS* 3.1 19.9 + - - +
382A ILE* 3.4 9.5 + - - +
402A ILE* 5.7 2.7 - - + -
406A LEU* 3.9 25.8 - - + -
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Residues in contact with ALA 379 (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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312A LEU* 3.7 14.3 - - + +
338A LEU* 3.7 27.6 - - + -
341A MET* 3.8 15.0 - - + +
360A LEU* 4.1 3.9 - - + +
375A SER 2.8 17.2 + - - +
376A LEU 3.5 6.5 - - - +
377A VAL 3.2 0.2 - - - -
378A LEU* 1.3 76.3 - - - +
380A GLY* 1.3 56.7 + - - +
382A ILE* 3.2 11.3 + - - +
383A ALA* 2.9 30.0 + - - +
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Residues in contact with GLY 380 (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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6A VAL* 3.5 16.7 - - - +
8A GLY* 3.8 11.8 + - - -
341A MET* 3.9 1.3 - - - +
376A LEU 3.0 12.5 + - - -
377A VAL 3.0 4.8 + - - -
379A ALA* 1.3 76.6 - - - +
381A CYS* 1.3 61.9 + - - +
382A ILE 3.4 0.3 + - - -
383A ALA* 3.5 9.2 + - - +
385A GLY 4.8 0.7 - - - +
387A THR* 3.5 33.8 + - - -
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Residues in contact with CYS 381 (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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6A VAL* 3.7 13.0 - - - -
7A GLN 5.1 0.2 - - - -
8A GLY* 3.6 2.6 - - - -
9A PRO* 3.4 4.5 - - - +
10A THR* 2.8 38.9 + - - +
12A LEU* 4.0 24.0 - - + -
377A VAL* 3.1 20.3 + - - -
378A LEU* 3.1 12.5 + - - +
380A GLY* 1.3 77.8 - - - +
382A ILE* 1.3 60.1 + - + +
406A LEU* 4.4 14.4 - - - -
411A ALA* 3.8 26.9 - - - -
413A ILE* 5.6 0.9 - - - -
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Residues in contact with ILE 382 (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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9A PRO* 3.5 16.6 - - - +
10A THR 4.3 3.6 - - - +
12A LEU* 5.3 1.1 - - + -
244A ILE* 3.8 40.2 - - + +
245A SER* 3.5 32.5 - - - -
312A LEU* 4.7 2.9 - - + -
316A VAL* 3.9 29.6 - - + -
359A LYS* 4.4 9.9 - - - +
360A LEU* 4.6 9.6 + - + +
378A LEU 3.7 8.7 - - - +
379A ALA* 3.4 13.0 - - - +
381A CYS* 1.3 82.2 - - + +
383A ALA* 1.3 62.5 + - - +
384A GLU 3.9 0.3 + - - -
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Residues in contact with ALA 383 (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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8A GLY* 2.9 29.9 + - - -
9A PRO* 3.2 1.0 - - - -
341A MET* 3.7 21.3 - - + -
360A LEU* 3.5 26.0 - - + +
361A SER 3.7 7.6 - - - -
362A GLY* 3.9 1.6 - - - +
379A ALA 2.9 16.7 + - - +
380A GLY 3.5 6.5 + - - +
382A ILE* 1.3 78.2 - - - +
384A GLU* 1.3 62.8 + - - +
385A GLY 4.1 1.0 - - - +
387A THR* 4.2 3.1 - - - +
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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
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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