Contacts of the strand formed by residues 81 - 87 (chain A) in PDB entry 2EW9
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 ASN 81 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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48A TYR* 5.2 5.2 + - - -
50A PRO* 6.2 5.4 - - + -
75A TYR* 3.0 42.6 + - - -
76A ALA* 3.7 17.6 - - + +
77A GLY 3.4 1.2 + - - -
78A SER* 2.9 20.2 + - - -
79A ASP 2.8 9.4 + - - +
80A GLY* 1.3 71.6 - - - +
82A ILE* 1.3 60.0 + - - +
122A VAL 3.4 5.2 - - - -
123A LYS* 2.7 39.1 + - + +
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Residues in contact with ILE 82 (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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75A TYR* 2.8 17.8 + - - -
77A GLY* 3.7 7.0 - - - +
78A SER 2.9 38.1 - - - +
79A ASP* 4.2 0.2 - - - -
80A GLY 3.4 20.9 - - - +
81A ASN* 1.3 71.7 - - - +
83A GLU* 1.3 70.0 + - - +
84A LEU* 5.5 7.4 - - + -
122A VAL* 2.9 28.9 + - + +
124A PHE* 3.5 29.8 - - + -
126A PRO* 5.9 0.2 - - + -
131A PRO* 5.6 9.6 - - + -
147A LEU* 5.6 6.1 - - + -
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Residues in contact with GLU 83 (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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74A ASP* 4.9 7.4 - - + -
75A TYR* 4.0 8.3 - - + -
76A ALA 4.8 2.9 - - - +
77A GLY* 4.0 17.6 - - - +
82A ILE* 1.3 80.7 - - - +
84A LEU* 1.3 79.1 + - - +
119A LYS* 3.1 30.5 - - - +
120A ALA 3.1 6.7 - - - -
121A LEU* 3.4 25.6 - - + -
122A VAL* 4.6 0.4 - - - +
147A LEU* 3.6 9.9 - - - +
148A ALA* 2.8 20.1 + - - +
149A GLN* 2.7 31.6 + - - +
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Residues in contact with LEU 84 (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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82A ILE* 5.5 6.3 - - + -
83A GLU* 1.3 91.2 + - - +
85A THR* 1.3 58.9 + - - +
86A ILE* 3.8 2.9 + - + +
102A LEU* 5.7 0.7 - - + -
119A LYS* 3.1 3.0 - - - -
120A ALA* 2.7 43.4 + - + +
122A VAL* 3.9 24.5 - - + -
131A PRO* 5.6 10.3 - - + -
134A ILE* 4.5 18.4 - - + -
135A ILE* 5.4 7.4 - - + -
145A ALA* 4.2 32.1 - - + +
146A SER 3.9 4.3 - - - -
147A LEU* 3.7 24.0 - - + +
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Residues in contact with THR 85 (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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84A LEU* 1.3 68.6 - - - +
86A ILE* 1.3 59.8 - - - +
87A THR* 3.7 17.9 + - - +
117A THR 5.3 0.2 + - - -
118A SER* 2.8 23.5 + - - +
119A LYS* 3.9 2.8 - - - +
144A HIS 3.2 3.8 - - - +
145A ALA* 4.2 1.1 - - - -
146A SER* 2.8 48.0 + - - +
148A ALA* 3.3 21.7 - - - +
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Residues in contact with ILE 86 (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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84A LEU* 5.5 2.0 - - + -
85A THR* 1.3 71.7 - - - +
87A THR* 1.3 61.6 + - - +
89A MET* 3.5 36.8 + - + +
98A ILE* 4.5 25.8 - - + -
113A VAL* 3.9 26.0 - - + -
114A ALA 5.1 0.4 - - - +
118A SER* 3.9 30.3 + - - -
119A LYS* 4.2 1.6 - - - +
120A ALA* 4.3 13.2 - - + -
138A ILE* 5.2 4.7 - - + -
143A PHE* 4.8 8.5 - - + -
144A HIS 3.3 4.9 - - - +
145A ALA* 4.0 22.9 - - + -
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Residues in contact with THR 87 (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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85A THR* 3.7 17.9 + - - +
86A ILE* 1.3 72.3 - - - +
88A GLY* 1.3 60.8 + - - +
89A MET 3.4 7.9 + - - -
143A PHE* 3.6 6.2 - - - +
144A HIS* 2.8 46.8 + - - +
146A SER* 5.3 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
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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