Contacts of the strand formed by residues 323 - 332 (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 ARG 323 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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235A THR* 4.3 2.4 - - - +
250A VAL* 5.4 1.2 - - - +
251A LEU* 3.0 53.2 + - + +
253A MET* 3.7 18.4 - - + -
321A MET 3.7 0.4 + - - -
322A PRO* 1.3 77.0 - - - +
324A PHE* 1.3 58.6 + - - +
375A GLU* 5.5 6.3 - - - +
376A VAL 3.5 11.3 + - - +
377A ASN* 3.4 19.9 - - - +
378A GLU* 2.9 47.5 + - - +
430A PRO 4.8 2.1 - - - +
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Residues in contact with PHE 324 (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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282A MET* 5.7 2.0 - - - -
321A MET* 5.0 2.0 - - + -
322A PRO* 3.2 37.9 - - + -
323A ARG* 1.3 74.2 - - - +
325A ARG* 1.3 65.0 + - - +
326A ILE* 3.7 16.6 - - + -
374A LEU* 3.7 28.0 - - + -
375A GLU* 3.5 4.6 - - - +
376A VAL* 3.2 56.0 + - + +
409A PHE* 4.1 24.2 - + - -
411A VAL* 5.1 3.4 - - + -
427A VAL* 3.8 23.6 - - + -
430A PRO* 3.5 29.8 - - + +
432A VAL 5.1 0.2 - - - -
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Residues in contact with ARG 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A ARG* 5.2 5.1 - - - +
324A PHE* 1.3 77.0 - - - +
326A ILE* 1.3 65.0 + - - +
327A GLU* 4.9 4.3 - - - -
373A PHE* 3.7 36.4 - - + -
374A LEU 3.2 12.6 - - - +
375A GLU* 3.4 27.7 + - + +
430A PRO 5.0 0.2 - - - +
432A VAL* 2.9 31.7 + - - +
433A ASP* 2.9 59.1 + - - +
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Residues in contact with ILE 326 (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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76A ASN* 4.1 25.1 - - + +
77A ILE 3.9 21.8 - - - +
78A PHE* 4.0 20.4 - - + -
324A PHE* 3.7 8.5 - - + -
325A ARG* 1.3 77.1 - - - +
327A GLU* 1.3 61.6 + - - +
328A ASP* 6.0 0.7 - - + -
373A PHE* 3.5 3.3 - - - -
374A LEU* 2.9 51.3 + - + +
411A VAL* 6.1 0.4 - - + -
425A GLY* 5.4 0.4 - - - -
426A ARG 4.1 11.2 - - - +
427A VAL* 3.6 35.7 - - + +
429A ASN 4.4 3.8 - - - +
430A PRO* 5.2 0.2 - - + -
432A VAL* 5.0 4.3 - - + -
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Residues in contact with GLU 327 (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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76A ASN* 5.9 1.9 - - - +
78A PHE* 5.8 0.4 - - - -
198A ARG 4.2 12.4 - - - +
199A ILE* 5.5 0.7 - - - +
200A THR* 5.1 3.5 - - - +
325A ARG* 4.9 4.3 - - - -
326A ILE* 1.3 76.4 - - - +
328A ASP* 1.3 62.8 + - - +
371A LYS* 3.2 41.0 + - - +
372A ALA 3.4 12.6 - - - +
373A PHE* 3.7 23.3 - - + +
432A VAL* 5.5 3.2 - - + +
433A ASP 4.7 12.8 + - - +
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Residues in contact with ASP 328 (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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71A LYS* 3.2 28.8 + - - -
76A ASN* 3.5 12.0 - - + +
77A ILE* 4.5 0.8 - - - +
78A PHE* 3.6 29.7 + - + +
326A ILE* 6.0 1.1 - - + -
327A GLU* 1.3 77.4 - - - +
329A SER* 1.3 67.0 + - - +
330A PHE* 3.0 35.9 - - - -
371A LYS* 3.1 3.4 - - - +
372A ALA* 2.7 35.7 + - - +
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Residues in contact with SER 329 (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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71A LYS* 5.1 2.9 + - - -
202A VAL* 5.8 4.5 - - - -
328A ASP* 1.3 81.5 + - - +
330A PHE* 1.3 70.1 + - - +
369A PHE* 6.6 0.2 - - - -
370A HIS 3.1 14.6 - - - -
371A LYS* 3.4 31.8 - - - -
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Residues in contact with PHE 330 (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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63A PHE* 3.7 24.9 - + - -
67A LEU* 3.4 38.6 - - + -
71A LYS* 5.0 6.1 - - - -
78A PHE 4.0 7.6 - - - -
79A LEU* 3.6 20.0 - - + -
84A ILE* 4.3 2.0 - - + -
328A ASP* 3.0 28.5 - - - -
329A SER* 1.3 75.6 - - - +
331A SER* 1.3 72.9 + - - +
332A VAL* 4.0 2.0 - - + -
334A GLU* 4.9 4.5 - - - +
335A GLN* 4.4 4.3 - - - +
369A PHE* 3.9 12.1 - - - +
370A HIS* 3.1 46.3 + + + +
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Residues in contact with SER 331 (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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330A PHE* 1.3 77.9 - - - +
332A VAL* 1.3 57.3 + - - +
333A LYS* 3.1 15.2 + - - +
334A GLU* 3.5 24.8 + - - +
335A GLN* 2.7 30.6 + - - -
367A ASP* 3.0 26.6 + - - -
368A ALA 3.6 5.2 + - - -
369A PHE* 4.8 5.8 - - - -
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Residues in contact with VAL 332 (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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63A PHE* 3.5 33.7 - - + -
84A ILE* 3.9 23.6 - - + -
88A PHE* 3.6 20.0 - - + -
330A PHE* 4.0 5.5 - - + -
331A SER* 1.3 73.7 - - - +
333A LYS* 1.3 62.1 + - - +
334A GLU 3.3 0.4 + - - -
335A GLN* 3.5 4.4 + - - +
336A LEU* 3.0 37.0 + - + +
368A ALA* 2.9 41.1 + - + +
369A PHE* 4.8 1.7 - - - +
370A HIS* 5.1 5.4 - - + -
387A THR* 5.6 2.0 - - + -
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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
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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