Contacts of the helix formed by residues 91 - 96 (chain L) in PDB entry 2WSC
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 LEU 91 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1789A CLA 4.8 2.5 - - + -
1800A CLA 4.0 19.3 - - + -
1770B CLA 4.4 10.1 - - + -
64L LEU* 3.2 41.5 - - + -
68L PHE* 4.0 15.7 - - + -
88L ALA* 2.6 17.7 + - - +
90L GLY* 1.3 67.4 - - - -
92L VAL* 1.4 52.6 + - - +
94L ILE* 2.7 31.8 + - + +
95L LEU* 2.7 32.4 + - + +
1170L BCR 4.0 50.9 - - + +
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Residues in contact with VAL 92 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57L GLY 5.4 0.2 - - - +
60L HIS 5.7 0.4 - - - +
61L GLY* 5.2 4.5 - - - -
64L LEU* 4.9 13.0 - - + -
88L ALA 3.6 11.4 + - - +
89L ALA* 4.1 5.6 - - - -
91L LEU* 1.4 76.5 - - - +
93L VAL* 1.4 58.6 + - + +
95L LEU* 3.6 10.2 - - + +
96L SER* 2.5 44.8 + - - +
143L PHE* 3.7 10.2 - - + -
144L PHE* 5.3 0.4 - - - -
147L GLY* 3.2 33.0 - - - -
148L VAL* 3.5 33.2 - - + +
151L VAL* 4.6 11.7 - - + -
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Residues in contact with VAL 93 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57H LEU* 4.8 15.5 - - + +
61H GLY* 5.5 10.3 - - - -
65H LEU* 4.4 12.6 - - + -
89L ALA 3.3 30.7 - - - +
90L GLY* 3.0 7.3 + - - +
92L VAL* 1.4 79.4 - - + +
94L ILE* 1.3 60.8 + - - +
95L LEU 3.1 5.5 + - - -
96L SER* 3.8 8.4 + - - +
97L MET* 3.2 26.1 - - + +
144L PHE* 4.0 17.5 - - + -
148L VAL* 3.9 13.7 - - + -
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Residues in contact with ILE 94 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1800A CLA 5.6 0.9 - - + -
1770B CLA 4.1 61.0 - - + -
1771B CLA 3.9 17.9 - - + +
65H LEU* 5.8 6.5 - - + -
14I LEU* 5.8 0.7 - - + -
18I ALA* 5.9 4.5 - - + -
90L GLY 2.5 23.6 + - - +
91L LEU* 2.7 18.1 + - + +
93L VAL* 1.3 73.2 - - - +
95L LEU* 1.3 63.8 + - + +
97L MET* 4.0 16.7 - - + +
98L CYS* 3.6 16.0 + - - +
1170L BCR 5.3 19.1 - - + -
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Residues in contact with LEU 95 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1800A CLA 3.5 39.5 - - + -
1771B CLA 6.4 0.4 - - + -
64L LEU* 5.6 2.0 - - + -
91L LEU* 2.7 33.7 + - + +
92L VAL* 3.9 8.7 - - + +
94L ILE* 1.3 83.2 - - + +
96L SER* 1.3 54.7 - - - +
97L MET 3.0 10.2 + - - -
98L CYS* 3.3 13.0 - - + -
99L LEU* 3.0 33.1 + - + +
143L PHE* 3.3 28.3 - - + -
1169L BCR 2.9 32.3 - - + -
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Residues in contact with SER 96 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47H PHE* 4.2 8.9 - - - -
57H LEU* 4.6 5.4 - - - +
92L VAL* 2.5 27.9 + - - +
93L VAL* 3.8 4.4 + - - +
95L LEU* 1.3 68.5 - - - +
97L MET* 1.3 68.3 + - - +
99L LEU* 5.1 3.6 - - - -
100L THR* 3.9 11.3 - - - +
140L THR 4.9 5.2 - - - -
143L PHE* 2.6 28.2 - - - -
144L PHE* 3.6 35.3 + - - -
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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