Contacts of the helix formed by residues 590 - 601 (chain A) in PDB entry 2WIN
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 THR 590 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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588A LYS* 4.1 8.2 + - - +
589A LEU* 1.3 80.6 + - - +
591A GLN* 1.3 69.6 + - + +
592A SER* 3.5 20.4 - - - +
593A LYS* 3.0 37.5 + - - +
594A ILE* 3.3 15.0 + - - +
795B VAL* 4.4 5.4 - - - -
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Residues in contact with GLN 591 (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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134A LEU* 5.9 0.2 - - - +
536A SER* 4.7 2.0 - - - -
537A CYS* 3.5 30.4 - - - +
590A THR* 1.3 76.5 - - + +
592A SER* 1.3 61.1 + - - +
594A ILE* 3.2 30.9 + - - +
595A TRP* 3.1 61.1 + - + +
793B ILE* 4.0 12.6 + - - +
794B CYS* 3.7 1.9 - - - -
795B VAL* 3.0 46.6 + - - +
797B ASP* 6.1 0.2 - - - +
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Residues in contact with SER 592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535A ASP* 6.5 0.2 - - - -
590A THR* 3.1 14.8 - - - +
591A GLN* 1.3 80.3 - - - +
593A LYS* 1.3 61.4 + - - +
595A TRP* 3.5 9.3 + - - +
596A ASP* 3.1 22.9 + - - +
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Residues in contact with LYS 593 (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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109A PHE* 5.6 0.4 - - - -
585A LYS 5.8 0.4 + - - -
586A LYS* 5.5 0.8 - - - +
587A ASN* 4.2 10.7 - - - +
588A LYS* 3.7 38.9 + - - +
589A LEU* 5.7 2.7 - - + -
590A THR* 3.0 28.3 + - - +
592A SER* 1.3 78.2 - - - +
594A ILE* 1.3 64.0 + - + +
596A ASP* 3.6 8.8 + - - +
597A VAL* 3.2 27.7 + - - +
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Residues in contact with ILE 594 (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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109A PHE* 3.5 40.6 - - + -
134A LEU* 4.5 21.1 - - + -
589A LEU* 4.6 8.1 - - + -
590A THR 3.5 9.9 - - - +
591A GLN* 3.3 30.3 - - - +
592A SER 3.2 0.4 - - - -
593A LYS* 1.3 75.8 - - - +
595A TRP* 1.3 68.4 + - + +
597A VAL* 3.1 6.4 + - - +
598A VAL* 3.1 23.1 + - + +
793B ILE* 4.3 24.7 - - + -
795B VAL* 3.9 18.6 - - + -
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Residues in contact with TRP 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A LEU* 3.3 34.1 - - + -
475A LYS* 4.6 7.9 - - + -
504A ILE* 4.1 15.0 - - + -
505A PRO* 3.4 40.9 - - + +
535A ASP* 4.4 26.9 - - + +
536A SER 3.2 28.9 + - - +
538A VAL* 3.6 22.4 - - + -
591A GLN* 3.1 54.1 + - + +
592A SER* 3.5 8.3 + - - +
594A ILE* 1.3 77.8 - - + +
596A ASP* 1.3 57.5 + - - +
598A VAL* 3.7 8.6 - - + +
599A GLU* 2.9 31.9 + - - +
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Residues in contact with ASP 596 (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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592A SER 3.1 17.5 + - - +
593A LYS* 3.7 11.7 - - - +
594A ILE 3.2 0.2 - - - -
595A TRP* 1.3 77.1 - - - +
597A VAL* 1.3 61.9 + - + +
599A GLU* 3.8 5.9 + - - +
600A LYS* 3.2 46.7 + - - +
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Residues in contact with VAL 597 (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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107A TYR* 4.2 22.9 - - + -
109A PHE* 4.9 14.4 - - + -
196A PHE* 5.4 8.5 - - + -
593A LYS 3.2 16.6 + - - +
594A ILE* 3.1 9.3 + - - +
596A ASP* 1.3 77.7 - - + +
598A VAL* 1.3 65.7 + - + +
599A GLU 3.2 0.2 - - - -
600A LYS* 3.2 19.1 + - + +
601A ALA* 3.2 13.4 + - + +
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Residues in contact with VAL 598 (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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107A TYR* 4.3 26.6 + - + +
109A PHE* 5.5 0.7 - - + -
134A LEU* 4.1 26.5 - - + -
475A LYS* 3.7 40.7 - - + +
505A PRO* 4.9 4.5 - - + -
594A ILE* 3.1 18.5 + - + +
595A TRP* 3.3 21.5 + - + +
597A VAL* 1.3 76.0 - - + +
599A GLU* 1.3 63.7 + - - +
601A ALA* 3.2 13.5 + - - +
602A ASP* 3.6 8.0 + - - +
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Residues in contact with GLU 599 (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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505A PRO* 5.7 8.3 - - + +
506A SER* 4.1 19.1 + - - +
508A ARG* 5.3 2.6 + - - -
530A TRP* 4.2 19.6 - - + -
595A TRP 2.9 17.7 + - - +
596A ASP* 4.1 7.2 - - - +
598A VAL* 1.3 79.1 - - - +
600A LYS* 1.3 64.2 + - + +
602A ASP* 3.1 33.3 - - - +
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Residues in contact with LYS 600 (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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596A ASP* 3.2 36.0 + - - +
597A VAL* 3.2 14.4 + - + +
599A GLU* 1.3 80.2 - - + +
601A ALA* 1.3 57.6 + - - +
602A ASP 3.1 7.3 + - - +
640A CYS* 6.0 0.7 - - - -
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Residues in contact with ALA 601 (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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13A ARG* 3.8 16.9 + - - +
104A GLN* 4.7 14.8 + - - +
107A TYR* 3.5 32.2 + - + +
132A HIS* 6.1 0.4 - - + -
475A LYS 5.3 1.0 - - - +
597A VAL* 3.2 11.5 + - + +
598A VAL 3.2 6.5 + - - +
599A GLU 3.2 0.8 - - - -
600A LYS* 1.3 75.4 - - - +
602A ASP* 1.3 62.6 + - - +
603A ILE* 3.8 3.6 + - - +
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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