Contacts of the strand formed by residues 69 - 76 (chain C) in PDB entry 2OVI
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 VAL 69 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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64B VAL* 3.7 27.4 - - + -
98B HIS 3.3 11.0 - - - +
99B ILE* 4.2 19.5 - - + -
132B MET* 3.5 27.4 - - + +
133B LEU* 4.6 3.6 - - + -
64C VAL 3.7 1.7 - - - +
65C HIS* 3.6 0.9 - - - -
66C THR* 2.8 44.1 + - + +
67C ALA 3.9 0.6 - - - -
68C ASP* 1.3 91.4 - - + +
70C ILE* 1.3 66.8 + - - +
71C LEU* 3.8 15.9 - - + +
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Residues in contact with ILE 70 (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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86B TYR* 4.6 19.7 - - + +
97B GLY* 3.1 6.1 - - - -
98B HIS* 2.9 50.9 + - + +
63C LEU* 4.0 28.0 - - + -
64C VAL 3.3 7.9 - - - +
65C HIS* 3.9 35.7 - - + +
66C THR 5.0 1.6 - - - +
68C ASP 5.6 0.4 - - - -
69C VAL* 1.3 82.9 - - - +
71C LEU* 1.3 61.2 + - - +
72C GLU* 4.8 7.9 - - - -
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Residues in contact with LEU 71 (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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62B THR* 4.5 5.2 - - + +
63B LEU* 4.4 4.7 - - - -
64B VAL* 3.3 37.9 - - + +
71B LEU 5.1 0.2 - - - +
89B LEU* 4.4 13.2 - - + -
95B MET* 4.0 27.6 - - - -
96B SER 3.8 5.4 - - - +
99B ILE* 4.9 7.6 - - + -
133B LEU* 3.5 19.3 - - + -
63C LEU* 3.2 4.4 - - - +
64C VAL* 3.2 38.4 + - + -
69C VAL* 3.8 8.6 - - + +
70C ILE* 1.3 77.5 - - - +
72C GLU* 1.3 59.2 + - - +
73C PHE* 3.9 19.6 - - + -
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Residues in contact with GLU 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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94B GLY 3.6 1.2 - - - +
95B MET* 3.3 7.8 - - - +
96B SER* 2.8 74.7 + - - +
97B GLY* 3.7 14.5 + - - +
98B HIS* 4.0 13.1 - - - -
61C THR* 3.8 20.0 - - + +
62C THR 3.4 3.6 - - - +
63C LEU* 3.8 22.0 - - + +
70C ILE* 4.8 7.1 - - + +
71C LEU* 1.3 75.1 - - - +
73C PHE* 1.3 66.5 + - - +
74C SER 4.2 0.2 - - - -
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Residues in contact with PHE 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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62B THR 5.4 0.2 - - - -
71B LEU* 3.4 30.1 - - + -
72B GLU 3.9 11.4 - - - -
73B PHE* 3.2 45.3 - + + -
94B GLY 3.8 4.3 - - - +
95B MET* 4.2 11.4 - - + -
60C VAL 3.3 2.3 - - - +
61C THR* 3.3 3.5 - - - -
62C THR* 2.7 46.9 + - - +
71C LEU* 3.9 30.5 - - + -
72C GLU* 1.3 76.4 - - - +
74C SER* 1.3 60.6 + - - +
75C GLY 3.7 1.1 + - - +
95C MET* 3.5 47.6 - - + -
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Residues in contact with SER 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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94B GLY* 3.4 24.3 + - - +
96B SER* 6.0 2.0 - - - -
59C ASN* 5.2 4.9 - - - +
60C VAL 3.2 6.3 + - - -
61C THR* 4.0 16.7 + - - -
72C GLU 4.2 0.4 - - - -
73C PHE* 1.3 71.4 - - - +
75C GLY* 1.3 57.7 + - - +
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Residues in contact with GLY 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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59C ASN* 3.5 18.3 - - - +
60C VAL* 2.8 36.6 + - - +
62C THR* 5.5 0.3 + - - -
73C PHE 3.7 2.7 + - - +
74C SER* 1.3 74.6 + - - +
76C GLU* 1.3 66.0 + - - -
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Residues in contact with GLU 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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55C CYS 4.9 10.9 - - - +
58C GLY* 3.7 30.1 + - - +
59C ASN* 3.7 8.1 + - - +
75C GLY* 1.3 73.7 - - - -
77C LEU* 1.3 68.8 + - - +
78C PRO* 3.2 10.6 - - + +
95C MET* 5.1 1.0 - - - +
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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