Contacts of the strand formed by residues 74 - 80 (chain C) in PDB entry 2C2V
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 74 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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64C LEU* 4.1 3.3 - - - +
65C GLU* 2.8 48.0 + - + +
66C ASP* 4.6 4.0 + - + +
69C ASP* 3.5 14.2 + - - +
72C LEU 3.7 0.4 - - - -
73C THR* 1.3 93.2 - - + +
75C TRP* 1.3 65.2 + - - +
96C ILE 3.7 5.4 - - - +
97C GLU* 2.0 41.7 + - + +
65F GLU* 5.6 0.6 + - - -
74F ARG* 3.1 54.3 - - - +
95F LYS* 4.7 4.0 - - - +
97F GLU* 5.4 4.4 + - - -
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Residues in contact with TRP 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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44C LEU* 3.7 33.9 - - + +
47C GLU* 4.2 2.9 - - + -
48C LEU* 3.8 39.0 - - + -
62C TRP* 3.7 24.9 - + + -
63C GLY* 3.4 32.5 - - - -
64C LEU* 3.6 16.9 - - + +
65C GLU* 3.7 13.8 - - - +
72C LEU* 2.8 22.7 + - + -
73C THR 3.1 17.3 - - - -
74C ARG* 1.3 77.8 - - - +
76C THR* 1.3 59.5 + - - +
95C LYS* 3.7 1.0 - - - +
96C ILE* 2.7 55.8 + - + +
98C CYS* 4.4 8.5 - - - -
144C ILE* 3.9 18.8 - - + -
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Residues in contact with THR 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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61C SER 6.0 0.2 - - - -
62C TRP* 3.2 18.6 - - - +
63C GLY* 3.1 16.3 + - - +
64C LEU 4.4 2.1 + - - -
65C GLU* 4.1 19.9 + - - +
75C TRP* 1.3 76.4 - - - +
77C GLY* 1.3 68.4 + - - +
78C MET* 5.3 2.2 - - + -
93C SER* 6.3 0.7 - - - -
94C LEU 3.7 9.2 + - - +
95C LYS* 4.7 2.4 - - - +
96C ILE* 4.0 4.9 - - - -
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Residues in contact with GLY 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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61C SER 3.2 12.3 - - - -
62C TRP* 4.0 3.4 - - - -
76C THR* 1.3 80.4 - - - +
78C MET* 1.3 64.8 + - - +
93C SER* 3.6 1.7 - - - -
94C LEU* 2.8 34.8 + - - +
96C ILE* 3.7 16.4 - - - +
148C LEU* 4.3 3.6 - - - -
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Residues in contact with MET 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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58C GLY 5.2 2.0 - - - +
60C VAL* 3.3 1.3 - - - +
61C SER* 3.0 47.3 + - - +
76C THR* 5.3 2.7 - - + -
77C GLY* 1.3 76.3 - - - +
79C ILE* 1.3 68.6 + - - +
80C LEU* 3.8 15.9 - - - -
91C ILE* 3.6 33.4 - - + -
92C TYR 3.4 9.9 - - - +
93C SER* 4.3 10.5 - - - -
94C LEU* 3.9 3.7 - - - +
148C LEU* 4.4 2.7 - - - +
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Residues in contact with ILE 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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59C THR 3.8 5.4 - - - +
60C VAL* 4.2 8.7 - - + -
78C MET* 1.3 84.8 - - - +
80C LEU* 1.3 74.1 + - - +
81C GLY 3.6 0.7 + - - -
92C TYR* 3.0 35.0 + - + -
94C LEU* 4.1 20.4 - - + -
111C PHE* 4.9 1.6 - - + -
148C LEU* 3.6 30.1 - - + +
151C LEU* 3.9 20.2 - - + -
152C ARG* 3.6 28.3 - - + +
155C MET* 4.2 17.5 - - + -
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Residues in contact with LEU 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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58C GLY 3.8 12.6 - - - +
59C THR* 3.0 38.7 + - - +
78C MET* 3.8 21.8 - - - -
79C ILE* 1.3 85.3 - - - +
81C GLY* 1.3 74.0 + - - +
82C PRO* 3.2 0.4 - - - -
89C ASN* 4.7 8.3 - - + +
90C ARG 3.5 8.7 - - - +
91C ILE* 4.4 16.6 - - + -
152C ARG* 2.6 25.3 + - - +
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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