Contacts of the strand formed by residues 77 - 86 (chain C) in PDB entry 2EWY
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 77 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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74C SER 3.5 25.0 + - - -
75C THR* 3.8 18.5 + - - +
76C TYR* 1.3 89.2 + - - +
78C SER* 1.3 64.6 + - - +
97C GLY* 3.4 1.7 - - - -
98C GLU* 3.0 51.4 + - + +
112C LEU* 6.4 1.3 - - + -
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Residues in contact with SER 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76C TYR* 3.8 21.9 + - - -
77C ARG* 1.3 75.5 - - - +
79C LYS* 1.3 63.5 + - - +
80C GLY* 3.2 14.2 + - - -
95C PHE* 5.7 2.9 - - - +
96C VAL 4.3 2.8 + - - -
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Residues in contact with LYS 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77C ARG 3.7 1.4 + - - -
78C SER* 1.3 73.5 - - - +
80C GLY* 1.3 61.1 + - - +
81C PHE* 3.6 23.7 - - + -
96C VAL* 3.0 42.7 + - + +
97C GLY* 4.0 3.4 - - - +
98C GLU* 3.9 31.0 - - + -
114C ASN* 3.0 28.5 + - - +
148C SER 5.7 3.0 + - - -
149C LEU* 4.3 10.9 - - + +
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Residues in contact with GLY 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78C SER* 3.2 14.2 + - - -
79C LYS* 1.3 78.6 - - - +
81C PHE* 1.3 61.6 + - - +
96C VAL 4.0 0.6 + - - -
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Residues in contact with PHE 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78C SER* 5.2 0.4 + - - -
79C LYS* 3.6 32.2 - - + -
80C GLY* 1.3 79.9 - - - +
82C ASP* 1.3 78.9 + - - +
95C PHE* 3.8 1.3 - - - +
96C VAL* 2.8 59.9 + - + +
145C PRO* 3.9 26.0 - - + -
149C LEU* 4.4 9.4 - - + -
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Residues in contact with ASP 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81C PHE* 1.3 92.1 - - - +
83C VAL* 1.3 60.4 + - - +
93C THR* 4.9 5.4 - - + -
94C GLY 3.2 7.2 - - - +
95C PHE* 3.2 29.6 - - - -
119C PHE* 3.8 28.9 - - + -
145C PRO* 5.5 2.3 - - - +
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Residues in contact with VAL 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53C ASN* 4.7 4.7 - - - +
82C ASP* 1.3 75.3 - - - +
84C THR* 1.3 65.6 + - - +
85C VAL* 5.0 0.7 - - + -
92C TRP* 3.6 24.7 - - + -
93C THR* 3.3 5.1 - - - +
94C GLY 2.8 30.7 + - - +
96C VAL* 3.6 23.6 - - + -
116C ALA* 4.2 7.0 - - + -
144C LYS* 3.4 14.8 - - + +
145C PRO* 3.2 41.1 - - + -
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Residues in contact with THR 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83C VAL* 1.3 79.6 - - - +
85C VAL* 1.3 66.8 + - - +
86C LYS 4.3 0.7 + - - -
91C SER* 5.2 3.1 - - - -
92C TRP 3.1 16.2 + - - -
93C THR* 3.5 18.6 + - - -
144C LYS* 4.1 13.5 - - - +
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Residues in contact with VAL 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51C SER* 5.8 0.7 - - - -
53C ASN* 4.0 14.6 - - + +
83C VAL* 5.0 0.9 - - + -
84C THR* 1.3 78.8 - - - +
86C LYS* 1.3 64.8 + - - +
87C TYR* 3.6 37.8 + - + -
91C SER* 3.2 25.8 - - - -
92C TRP* 3.2 41.3 + - + -
144C LYS* 3.8 27.1 - - + -
1003C DBO 4.4 10.8 - - + -
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Residues in contact with LYS 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84C THR 4.3 0.8 + - - -
85C VAL* 1.3 77.9 - - - +
87C TYR* 1.3 75.5 + - - +
88C THR 4.4 8.3 + - - -
89C GLN* 4.4 1.8 - - - +
90C GLY 3.7 23.2 + - - +
91C SER* 3.9 10.1 + - - -
1003C DBO 3.2 20.4 - - - +
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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