Contacts of the helix formed by residues 364 - 381 (chain A) in PDB entry 2WWA
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 364 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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361A THR* 4.3 10.3 - - - +
362A GLN 3.8 6.7 - - - +
363A GLN* 1.3 87.8 - - - +
365A LEU* 1.4 75.8 + - + +
366A THR 3.4 0.2 - - - -
367A PHE* 3.4 9.3 - - + +
368A ILE* 3.2 35.6 + - + +
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Residues in contact with LEU 365 (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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349A LEU* 5.3 1.8 - - + -
363A GLN* 3.3 3.5 - - + -
364A PRO* 1.4 93.4 - - + +
366A THR* 1.4 62.8 + - - +
368A ILE* 3.5 9.9 + - + +
369A THR* 3.3 28.3 + - + +
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Residues in contact with THR 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A LEU* 3.7 33.2 + - - +
351A ALA 5.4 1.7 + - - -
353A PRO* 5.1 15.4 - - + +
360A VAL* 5.8 1.8 - - + -
363A GLN* 3.6 44.9 - - + +
365A LEU* 1.4 74.9 - - - +
367A PHE* 1.4 64.5 + - + +
369A THR* 3.2 15.9 + - - -
370A TYR* 3.2 17.0 + - - +
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Residues in contact with PHE 367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A PRO* 4.6 19.7 - - + -
360A VAL 4.6 14.6 - - - -
363A GLN 4.0 7.4 - - - +
364A PRO* 3.4 17.0 - - + +
365A LEU 3.2 0.2 - - - -
366A THR* 1.4 80.1 - - + +
368A ILE* 1.4 69.1 + - + +
370A TYR* 3.5 7.2 + + - +
371A SER* 3.1 43.2 + - - -
439A VAL* 5.2 9.0 - - + -
440A ILE* 5.6 5.8 - - + -
443A SER* 3.3 34.5 - - - -
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Residues in contact with ILE 368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A PRO* 3.2 25.5 + - + +
365A LEU* 3.9 9.2 - - + +
366A THR 3.5 0.2 - - - -
367A PHE* 1.4 81.8 - - + +
369A THR* 1.4 61.0 + - + +
371A SER* 3.5 5.1 + - - -
372A ALA* 3.0 30.7 + - + +
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Residues in contact with THR 369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A LEU* 3.5 28.4 - - + +
350A LEU* 5.7 0.7 - - - +
365A LEU 3.3 14.8 + - - +
366A THR* 3.2 18.9 + - - -
368A ILE* 1.4 77.6 - - + +
370A TYR* 1.4 61.0 + - - +
372A ALA* 3.6 6.4 + - - +
373A PHE* 3.1 25.8 + - - +
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Residues in contact with TYR 370 (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 TYR* 3.8 16.1 - - - -
303A LEU* 4.1 3.6 - - + +
349A LEU 3.4 10.1 - - - +
350A LEU* 3.1 33.9 - - - +
351A ALA 3.8 4.5 - - - +
352A PRO* 3.6 29.5 - - + +
353A PRO* 3.8 20.0 - - + -
366A THR 3.2 20.2 + - - +
367A PHE* 3.7 8.1 - + - +
368A ILE 3.4 0.2 - - - -
369A THR* 1.4 76.8 + - - +
371A SER* 1.4 61.6 + - - +
373A PHE* 3.5 1.4 + - - +
374A ILE* 3.4 46.3 + - + +
439A VAL* 3.4 31.9 - - + -
442A GLU* 3.6 17.8 + - + -
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Residues in contact with SER 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A PHE* 3.1 32.6 + - - -
368A ILE* 3.8 5.8 - - - -
370A TYR* 1.4 76.8 - - - +
372A ALA* 1.4 61.4 + - - +
374A ILE* 3.5 10.6 - - - +
375A LEU* 3.3 32.5 + - - +
436A LEU* 5.1 11.4 - - - +
439A VAL* 4.3 18.5 - - - +
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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
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368A ILE* 3.0 22.0 + - + +
369A THR* 3.8 7.4 - - - +
371A SER* 1.4 76.3 - - - +
373A PHE* 1.4 61.9 + - - +
375A LEU* 3.5 6.4 + - - +
376A VAL* 3.3 28.3 + - + +
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Residues in contact with PHE 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A ILE* 5.2 1.3 - - + -
303A LEU* 4.3 11.0 - - + -
306A ILE* 4.7 8.5 - - + -
309A PHE* 3.8 27.6 - + - -
350A LEU* 3.4 46.9 - - + -
369A THR 3.1 18.1 + - - +
370A TYR 3.9 4.5 - - - +
371A SER 3.4 0.2 - - - -
372A ALA* 1.4 76.4 - - - +
374A ILE* 1.4 58.5 + - + +
376A VAL* 3.3 12.1 + - + +
377A THR* 3.0 50.0 + - + -
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Residues in contact with ILE 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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299A SER* 3.5 8.1 + - - +
300A TYR* 6.5 0.9 - - + -
303A LEU* 3.7 39.3 - - + -
370A TYR* 3.4 36.5 + - + +
371A SER* 3.5 8.1 - - - +
373A PHE* 1.4 75.1 - - + +
375A LEU* 1.4 63.1 + - + +
376A VAL 3.4 0.2 - - - -
377A THR* 4.3 6.1 - - - -
378A GLY 3.0 18.9 + - - -
435A SER* 3.3 42.0 + - - +
438A THR* 5.1 4.7 - - + -
439A VAL* 3.8 25.8 - - + -
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Residues in contact with LEU 375 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A SER* 3.3 27.3 + - - +
372A ALA* 3.9 5.8 - - - +
373A PHE 3.3 0.2 - - - -
374A ILE* 1.4 77.4 - - + +
376A VAL* 1.4 63.9 + - + +
378A GLY 3.3 1.4 + - - -
379A ILE* 3.2 30.9 + - - +
432A SER* 3.4 33.2 + - - +
435A SER* 3.6 19.1 - - - +
436A LEU* 3.9 37.0 - - + +
439A VAL* 5.5 0.2 - - + -
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Residues in contact with VAL 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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372A ALA* 3.3 16.0 + - + +
373A PHE* 3.3 15.0 + - + +
375A LEU* 1.4 77.5 - - + +
377A THR* 1.4 57.7 + - - +
379A ILE* 3.3 17.3 - - + +
380A TRP* 3.1 28.9 + - + +
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Residues in contact with THR 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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299A SER* 3.6 23.2 + - - +
302A ILE* 3.9 17.0 - - + -
303A LEU* 5.7 0.9 - - - -
373A PHE* 3.0 37.7 + - + -
374A ILE* 4.2 2.9 - - - -
376A VAL* 1.4 76.1 - - - +
378A GLY* 1.4 60.4 + - - +
379A ILE 3.3 1.1 - - - -
380A TRP* 3.5 9.6 - - + +
381A PHE* 3.4 49.1 + - + +
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Residues in contact with GLY 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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295A SER* 3.8 5.7 + - - -
296A VAL* 6.1 0.2 - - - -
299A SER* 3.9 10.3 - - - -
374A ILE 3.0 19.0 + - - -
375A LEU 3.3 4.0 + - - -
376A VAL 3.3 0.6 - - - -
377A THR* 1.4 77.2 - - - +
379A ILE* 1.4 56.0 + - - +
382A ALA* 3.6 6.6 - - - +
431A ALA* 3.1 44.8 - - - +
435A SER* 4.3 0.9 - - - -
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Residues in contact with ILE 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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375A LEU 3.2 14.5 + - - +
376A VAL* 3.3 24.0 - - + +
378A GLY* 1.4 74.6 - - - +
380A TRP* 1.4 55.9 + - - +
381A PHE 3.4 0.9 - - - -
382A ALA* 3.7 8.8 - - - +
383A ASP* 2.8 32.8 + - - +
428A VAL* 3.5 37.1 - - + +
429A THR* 5.2 0.2 - - - -
432A SER* 3.7 18.6 - - - +
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Residues in contact with TRP 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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96A LEU* 3.7 30.7 - - + +
100A LEU* 4.2 17.9 - - + -
302A ILE* 6.4 0.2 - - + -
376A VAL* 3.1 21.4 + - + +
377A THR* 3.4 13.2 + - + +
379A ILE* 1.4 77.4 - - - +
381A PHE* 1.4 89.1 + + - +
383A ASP* 3.3 17.5 - - - +
384A LYS* 3.3 56.0 + - - +
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Residues in contact with PHE 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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92A LEU* 4.4 15.0 - - + -
95A GLN* 3.8 34.7 - - + +
96A LEU* 5.0 7.0 - - + -
295A SER* 3.5 22.3 + - - +
298A PHE* 3.5 45.9 - + + -
299A SER* 3.9 4.7 - - - -
302A ILE* 4.3 19.7 - - + -
377A THR* 3.4 38.3 + - + +
380A TRP* 1.4 96.6 - + - +
382A ALA* 1.4 59.2 + - - +
383A ASP 3.4 0.4 - - - -
384A LYS* 3.8 7.9 - - + +
385A TRP* 3.2 25.3 + - - +
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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