Contacts of the strand formed by residues 65 - 73 (chain C) in PDB entry 6OW3
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 65 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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53C PRO* 4.0 24.9 - - + -
54C ILE 3.7 5.4 - - - +
55C GLU* 4.1 24.2 - - - +
64C LEU* 1.3 80.8 - - - +
66C LEU* 1.3 63.3 + - - +
67C ASP* 4.7 4.3 - - + +
99C GLN 3.6 2.4 - - - +
100C LEU* 3.6 4.2 - - - +
101C ILE* 2.4 63.1 + - + +
103C LYS* 4.6 16.6 - - + +
359C MET* 5.4 0.2 - - - -
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Residues in contact with LEU 66 (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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52C PHE* 3.4 22.0 - - + -
53C PRO* 3.3 4.0 - - - +
54C ILE* 2.9 46.7 + - + +
65C VAL* 1.3 73.0 - - - +
67C ASP* 1.3 63.8 + - - +
98C LEU* 4.0 18.8 - - + -
99C GLN 3.6 18.2 - - - +
100C LEU* 4.0 13.7 - - + +
355C VAL* 4.0 33.7 - - + -
359C MET* 5.1 3.1 - - - -
369C PRO* 4.4 9.6 - - + -
372C LEU* 4.2 13.2 - - + -
373C VAL* 4.5 13.2 - - + -
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Residues in contact with ASP 67 (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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52C PHE* 4.2 2.7 - - - +
53C PRO* 4.2 25.1 - - + +
65C VAL* 4.8 7.0 - - + +
66C LEU* 1.3 75.6 - - - +
68C PHE* 1.3 78.5 + - - +
69C LEU* 6.0 1.3 - - + -
98C LEU* 3.4 12.3 - - - +
99C GLN* 3.0 54.7 + - + +
101C ILE* 4.9 7.0 - - + +
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Residues in contact with PHE 68 (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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45C GLN* 3.3 35.2 - - - -
48C PHE* 3.5 58.1 - + + -
49C ARG* 4.5 14.6 - - - -
52C PHE* 3.5 30.4 - - + +
67C ASP* 1.3 86.3 + - - +
69C LEU* 1.3 72.2 + - - +
70C GLU* 3.5 30.1 - - - -
71C TYR* 3.9 1.6 - - + -
96C ALA* 4.6 1.3 - - + -
98C LEU* 3.7 14.1 - - + -
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Residues in contact with LEU 69 (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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45C GLN* 5.3 0.2 + - - -
67C ASP* 6.0 1.1 - - + -
68C PHE* 1.3 85.8 - - - +
70C GLU* 1.3 69.3 + - + +
97C ARG* 2.9 45.1 + - + +
99C GLN* 3.5 33.0 - - + +
110C GLU* 3.8 31.4 - - + +
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Residues in contact with GLU 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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36C PRO* 3.5 38.1 - - + +
45C GLN* 4.6 4.9 - - - +
68C PHE* 3.5 16.8 - - - -
69C LEU* 1.3 89.5 - - + +
71C TYR* 1.3 65.4 + - - +
72C ARG* 5.3 2.9 - - - +
96C ALA* 3.5 2.1 - - - -
97C ARG* 2.9 62.5 + - + +
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Residues in contact with TYR 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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30C LEU 2.6 31.7 + - - -
31C GLN* 3.9 3.3 + - - +
36C PRO* 4.1 1.9 - - - +
39C ARG* 3.2 50.1 + - - +
44C ILE* 3.7 22.9 - - + +
45C GLN* 3.3 44.1 - - + +
48C PHE* 3.8 33.2 - + + -
68C PHE* 4.3 0.7 - - + -
70C GLU* 1.3 85.3 - - - +
72C ARG* 1.3 69.2 + - - +
73C LEU* 4.4 11.7 - - + -
94C LEU* 3.9 16.2 - - + -
95C TYR 3.2 14.6 - - - +
96C ALA* 4.2 0.4 - - - +
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Residues in contact with ARG 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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36C PRO* 5.8 2.5 - - + -
39C ARG* 4.9 4.5 - - - +
70C GLU* 5.3 3.6 - - - +
71C TYR* 1.3 81.0 - - - +
73C LEU* 1.3 64.9 + - - +
74C GLY* 4.3 13.9 - - - -
93C PRO 3.9 0.3 - - - +
94C LEU* 3.6 5.2 - - - +
95C TYR* 2.9 76.9 + - + +
97C ARG* 5.2 7.8 - - - +
112C GLU* 2.9 36.7 + - - +
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Residues in contact with LEU 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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30C LEU* 3.9 36.8 - - + +
32C ALA* 3.5 36.4 + - + +
39C ARG* 5.2 2.4 - - - +
44C ILE* 6.6 0.2 - - + -
71C TYR* 4.4 8.4 - - + -
72C ARG* 1.3 79.9 + - - +
74C GLY* 1.3 67.4 + - - +
75C GLU* 5.1 2.3 - - - +
92C ALA* 4.4 10.8 - - + -
93C PRO 3.4 4.5 - - - +
94C LEU* 3.7 31.6 - - + -
118C ILE* 4.4 20.4 - - + -
120C LEU* 5.3 2.5 - - + -
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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