Contacts of the strand formed by residues 71 - 78 (chain C) in PDB entry 2ZNZ
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 ILE 71 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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33C ILE* 4.9 4.3 - - + -
36C LEU* 3.8 28.0 - - + -
62C ILE* 4.5 7.6 - - + -
65C LEU* 3.2 36.1 + - + +
66C ARG* 3.7 27.6 + - + +
69C GLY* 3.8 4.2 - - - -
70C VAL* 1.3 74.9 - - - +
72C LYS* 1.3 62.7 + - - +
73C LYS 3.8 16.4 - - - +
74C PHE* 3.7 30.7 - - + -
76D ALA* 4.0 11.7 - - + -
77D ILE 3.7 3.8 - - - +
78D ILE* 3.7 17.5 - - + -
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Residues in contact with LYS 72 (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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69C GLY* 3.9 11.9 - - - +
71C ILE* 1.3 73.6 - - - +
73C LYS* 1.3 64.0 + - + +
77D ILE* 2.7 25.7 + - + +
78D ILE 3.8 6.7 - - - +
79D ASP* 3.6 40.9 + - + +
80D PRO* 4.5 12.3 - - - +
164D GLU* 4.6 15.4 + - - +
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Residues in contact with LYS 73 (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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66C ARG* 5.9 2.2 - - - +
71C ILE* 3.4 6.4 - - - +
72C LYS* 1.3 86.0 - - + +
74C PHE* 1.3 73.7 + - - +
75C THR* 3.4 12.2 + - - -
37D GLN 2.6 30.5 + - - -
38D ASN* 3.3 15.1 + - - +
76D ALA* 3.5 3.8 - - - -
77D ILE* 2.8 46.1 + - + +
165D THR* 5.5 2.2 - - - -
166D THR* 4.9 2.2 + - - +
167D GLU* 2.8 24.7 + - - +
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Residues in contact with PHE 74 (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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36C LEU* 4.1 23.1 - - + -
40C GLY* 3.9 18.6 - - - -
62C ILE* 4.3 5.4 - - + -
66C ARG* 3.4 46.0 - - - +
71C ILE* 3.7 20.9 - - + -
73C LYS* 1.3 80.0 - - - +
75C THR* 1.3 63.6 + - - +
39D ASP* 3.5 12.7 + - - +
40D GLY* 2.8 19.3 + - - -
41D LYS* 3.9 51.8 - - + +
75D THR 3.5 11.0 - - - -
76D ALA* 3.9 14.1 - - + -
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Residues in contact with THR 75 (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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73C LYS* 3.4 11.3 + - - -
74C PHE* 1.3 78.2 - - - +
76C ALA* 1.3 64.0 + - - +
77C ILE* 3.8 15.5 + - + -
36D LEU 3.7 6.3 - - - -
37D GLN* 2.7 27.5 + - - +
40D GLY* 3.8 6.1 - - - +
74D PHE* 3.4 4.0 - - - +
75D THR* 3.0 39.6 + - + +
77D ILE* 3.7 28.9 - - + -
166D THR* 3.7 13.9 + - - +
167D GLU* 4.7 0.5 - - - +
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Residues in contact with ALA 76 (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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75C THR* 1.3 76.4 + - - +
77C ILE* 1.3 64.0 + - - +
78C ILE* 3.5 11.2 + - + +
36D LEU* 3.0 30.2 + - + +
37D GLN* 3.6 19.9 - - - +
71D ILE* 4.0 15.3 - - + -
73D LYS 3.5 4.9 - - - -
74D PHE* 3.7 24.0 - - + -
166D THR* 5.4 1.7 + - - +
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Residues in contact with ILE 77 (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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75C THR* 3.8 15.7 - - + -
76C ALA* 1.3 69.4 - - - +
78C ILE* 1.3 58.1 + - - +
166C THR* 4.1 10.8 - - + +
71D ILE* 3.6 2.1 - - - -
72D LYS* 2.7 57.1 + - + +
73D LYS* 2.8 30.2 + - + +
75D THR* 3.8 22.4 - - + -
166D THR* 3.7 38.6 - - + +
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Residues in contact with ILE 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 ALA* 3.5 21.0 + - + +
77C ILE* 1.3 79.7 - - - +
79C ASP* 1.3 77.2 + - - +
80C PRO* 3.3 8.7 - - - +
83C LEU* 4.0 22.2 - - + -
33D ILE* 3.7 24.2 - - + -
37D GLN* 3.4 31.7 + - + +
70D VAL* 3.2 17.5 - - + +
71D ILE* 3.7 29.6 - - + -
72D LYS* 4.1 7.4 - - - -
166D THR 5.6 2.4 + - - -
168D LEU* 3.5 12.1 - - + +
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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