Contacts of the strand formed by residues 362 - 378 (chain A) in PDB entry 1ATT
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 362 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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347A PRO* 4.6 11.2 - - - +
350A SER* 5.1 3.3 - - - -
361A SER* 1.3 74.1 - - - +
363A LEU* 1.3 66.0 + - - +
364A TYR* 3.5 16.1 + - - +
392A ALA 4.0 0.3 - - - +
393A GLY* 3.0 30.6 - - - +
394A ARG 3.2 10.7 + - - +
395A SER* 2.7 43.4 + - - +
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Residues in contact with LEU 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A VAL* 3.5 39.9 - - + -
350A SER* 2.8 27.0 + - - +
352A LEU* 4.0 33.7 - - + +
355A ILE* 5.1 2.7 - - + -
356A VAL* 4.1 12.6 - - + +
360A ARG 4.0 3.6 - - - -
361A SER 3.0 19.8 + - - +
362A ASP* 1.3 89.6 - - - +
364A TYR* 1.3 53.0 + - - +
391A ILE* 4.6 12.8 - - + -
392A ALA 3.1 10.3 - - - +
394A ARG 3.9 1.3 - - - +
395A SER 3.9 6.1 - - - +
396A LEU 3.2 23.8 - - - +
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Residues in contact with TYR 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A LEU 4.2 1.6 - - - +
345A PHE 3.7 17.9 - - - -
346A SER 4.2 0.2 - - - -
347A PRO* 3.8 37.2 - - + -
350A SER* 3.1 23.3 - - - +
352A LEU* 4.8 2.2 - - - -
362A ASP 3.7 9.9 - - - -
363A LEU* 1.3 74.7 - - - +
365A VAL* 1.3 64.8 + - - +
366A SER* 3.5 23.2 + - - -
391A ILE* 3.3 6.9 - - - +
392A ALA* 2.9 69.5 + - + +
393A GLY* 3.9 6.5 - - - -
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Residues in contact with VAL 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A THR* 4.6 2.0 - - + -
344A LEU* 3.0 41.8 + - + +
345A PHE* 3.3 47.6 - - + +
352A LEU* 4.9 1.3 - - + -
364A TYR* 1.3 73.4 - - - +
366A SER* 1.3 63.5 + - - +
367A ASP 3.9 13.5 - - - +
368A ALA* 4.3 0.7 - - + -
389A ILE* 3.8 23.3 - - + -
390A SER 3.7 13.5 - - - +
391A ILE* 3.7 17.9 - - + -
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Residues in contact with SER 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A ALA 4.9 5.0 + - - -
212A THR* 5.9 0.2 - - - +
333A LYS* 2.6 34.7 + - - +
345A PHE 5.5 0.2 - - - -
364A TYR* 3.5 33.5 + - - -
365A VAL* 1.3 73.3 - - - +
367A ASP* 1.3 57.6 + - - +
390A SER* 3.4 21.3 + - - -
391A ILE* 4.3 0.2 - - - +
392A ALA* 4.3 13.3 - - - +
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Residues in contact with ASP 367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A ALA* 5.8 3.8 - - + +
331A SER* 3.0 24.5 + - - -
333A LYS* 3.6 17.8 - - - +
365A VAL* 3.9 2.6 - - - +
366A SER* 1.3 84.1 + - - +
368A ALA* 1.3 64.8 + - - +
369A PHE* 3.3 36.3 - - + -
388A VAL 4.4 0.2 - - - +
389A ILE* 3.9 0.2 - - - -
390A SER* 3.0 30.6 + - - +
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Residues in contact with ALA 368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A PHE* 4.1 5.6 - - + -
331A SER* 3.6 3.6 + - - -
332A VAL* 2.9 51.5 + - + +
333A LYS* 4.4 4.9 - - - +
345A PHE* 4.6 4.5 - - + -
365A VAL* 4.3 7.9 - - + -
367A ASP* 1.3 86.3 + - - +
369A PHE* 1.3 62.2 + - - +
387A THR* 5.9 0.2 - - + -
388A VAL 3.4 5.2 - - - -
389A ILE* 4.0 19.3 - - + -
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Residues in contact with PHE 369 (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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202A VAL* 4.1 18.4 - - + +
203A ILE* 4.4 7.2 - - + -
204A PRO* 3.5 42.2 - - + -
207A ALA* 3.6 18.8 - - + -
330A PHE 3.9 16.2 - - - +
331A SER* 4.8 4.7 - - - -
332A VAL* 5.3 0.9 - - - -
367A ASP* 3.3 43.5 - - + -
368A ALA* 1.3 75.3 - - - +
370A HIS* 1.3 61.9 + - - +
387A THR* 3.0 8.0 - - - +
388A VAL* 2.7 56.9 + - + +
390A SER* 5.2 4.5 - - - -
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Residues in contact with HIS 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LEU* 3.3 8.1 - - + +
80A SER* 3.1 37.8 + - - -
83A SER* 4.1 7.0 - - - -
84A ILE* 3.2 28.0 - - + +
202A VAL* 4.3 3.1 - - - -
329A SER* 3.1 22.0 - - - -
330A PHE* 3.1 41.8 + + + -
332A VAL* 5.1 3.8 - - + -
369A PHE* 1.3 79.2 - - - +
371A LYS* 1.3 71.1 + - - +
372A ALA* 4.2 2.4 - - + +
385A ALA* 4.5 2.4 - - + +
386A SER 3.0 13.1 + - - -
387A THR* 2.8 21.9 + - + +
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Residues in contact with LYS 371 (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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199A ILE* 3.7 20.0 - - + +
200A THR* 3.1 34.6 + - - +
201A ASP* 3.6 20.6 + - - +
202A VAL* 4.0 13.7 - - + +
327A GLU* 3.2 30.9 + - - +
328A ASP 3.1 15.9 - - - +
329A SER* 3.4 22.7 - - - +
370A HIS* 1.3 74.9 - - - +
372A ALA* 1.3 62.5 + - - +
385A ALA* 3.5 1.6 - - - -
386A SER 3.0 29.6 + - - +
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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
----------------------------------------------------------
78A PHE* 3.1 43.1 - - + +
79A LEU* 4.1 9.4 - - - -
199A ILE* 3.6 8.3 - - - +
327A GLU* 3.4 9.1 - - - +
328A ASP 2.7 27.7 + - - +
370A HIS* 4.2 3.1 - - + +
371A LYS* 1.3 75.5 - - - +
373A PHE* 1.3 64.0 + - - +
384A ALA 3.6 7.4 - - - +
385A ALA* 4.7 0.7 - - - -
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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
----------------------------------------------------------
78A PHE* 2.8 17.7 - - - -
198A ARG* 3.5 49.4 - - + +
199A ILE* 3.9 15.3 - - + -
325A ARG* 3.7 47.8 - - + -
326A ILE 3.5 10.1 - - - -
327A GLU* 3.7 20.6 - - - +
372A ALA* 1.3 76.7 - - - +
374A LEU* 1.3 71.7 + - - +
375A GLU* 3.8 22.4 - - + -
382A GLU* 3.8 13.5 - - + -
383A ALA* 3.3 0.7 - - - -
384A ALA* 3.1 27.6 + - + -
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Residues in contact with LEU 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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78A PHE* 3.7 37.2 - - + -
282A MET* 4.3 1.1 - - + -
324A PHE* 3.7 30.1 - - + +
325A ARG* 3.2 5.7 - - - +
326A ILE* 2.9 41.4 + - + +
373A PHE* 1.3 80.4 - - - +
375A GLU* 1.3 60.4 + - - +
376A VAL* 3.9 18.2 - - + -
381A SER* 4.5 4.0 - - - -
382A GLU 3.4 10.8 - - - +
383A ALA* 4.3 3.6 - - + -
411A VAL* 4.6 15.3 - - + -
413A ILE* 4.1 16.8 - - + -
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Residues in contact with GLU 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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198A ARG* 4.0 14.4 + - - -
323A ARG* 5.5 4.9 - - - +
324A PHE 3.5 10.3 - - - +
325A ARG* 3.4 34.1 + - + +
373A PHE* 3.8 14.5 - - + -
374A LEU* 1.3 72.3 - - - +
376A VAL* 1.3 66.1 + - - +
377A ASN* 4.6 13.7 + - + +
380A GLY 3.9 0.5 - - - +
381A SER* 3.0 24.8 - - - -
382A GLU* 2.9 18.6 + - + +
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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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226A TRP* 3.8 18.6 - - + -
253A MET* 4.5 2.9 - - + -
282A MET* 3.3 34.8 - - + -
321A MET* 4.2 15.9 - - - -
322A PRO 4.2 5.4 - - - +
323A ARG* 3.5 1.6 + - - +
324A PHE* 3.2 60.3 + - + +
374A LEU* 3.9 10.0 - - + +
375A GLU* 1.3 70.1 - - - +
377A ASN* 1.3 69.8 + - - +
381A SER* 3.5 13.5 - - - -
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Residues in contact with ASN 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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226A TRP* 2.7 30.5 + - - -
253A MET* 3.2 16.0 - - - +
323A ARG* 3.4 22.8 - - - +
375A GLU* 4.6 16.3 + - + +
376A VAL* 1.3 79.5 - - - +
378A GLU* 1.3 68.6 + - - +
379A GLU* 2.9 31.3 + - - +
380A GLY 2.9 33.7 + - - +
381A SER* 4.8 0.6 - - - +
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Residues in contact with GLU 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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226A TRP* 3.0 17.7 + - - -
230A PHE* 3.2 36.2 + - + +
232A PRO* 4.2 20.3 - - + +
235A THR* 3.2 33.0 + - - +
253A MET* 3.2 17.5 - - - +
323A ARG* 2.9 43.0 + - - +
377A ASN* 1.3 76.4 + - - +
379A GLU* 1.3 78.0 + - - +
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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
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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