Contacts of the helix formed by residues 150 - 157 (chain C) in PDB entry 2WQT
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 GLN 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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27C ARG* 3.4 34.1 - - + +
32C ILE* 4.0 24.0 - - + +
71C GLN 4.4 13.0 + - - +
72C LEU* 3.7 28.2 - - - +
149C ILE* 1.3 87.1 + - - +
151C PHE* 1.3 70.2 + - - +
152C VAL* 3.2 4.0 - - + +
153C ASP* 2.9 25.9 + - - +
154C THR* 3.1 14.0 + - - -
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Residues in contact with PHE 151 (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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32C ILE 5.4 4.7 - - - +
33C ASP* 6.2 1.8 - - + -
35C ALA* 4.0 27.8 - - + -
39C TYR* 4.4 11.4 - + - -
63C LEU* 3.5 26.0 - - + -
72C LEU* 3.9 27.7 + - + +
74C VAL* 3.7 31.0 - - + -
76C GLN* 4.7 6.3 - - + -
77C PRO 3.8 23.3 - - - -
78C ASP* 3.9 7.6 - - - -
150C GLN* 1.3 76.5 - - - +
152C VAL* 1.3 73.3 + - + +
154C THR* 3.3 6.6 + - - -
155C VAL* 3.1 43.1 + - + +
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Residues in contact with VAL 152 (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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27C ARG* 3.8 23.6 - - + +
30C ILE* 3.5 27.0 - - + +
31C GLY 3.9 8.1 - - - +
32C ILE 3.8 22.2 + - - +
33C ASP 4.6 0.4 - - - -
34C ASN 3.3 34.5 - - - +
35C ALA* 4.2 3.1 - - - +
38C ALA* 3.4 20.8 - - + +
150C GLN* 3.2 2.1 - - + +
151C PHE* 1.3 84.9 - - + +
153C ASP* 1.3 64.9 + - - +
156C ALA* 3.3 21.1 + - - +
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Residues in contact with ASP 153 (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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25C PRO* 3.8 5.3 - - - +
26C LEU* 2.8 34.1 + - - +
27C ARG* 2.9 43.2 + - - +
144C ILE* 3.7 18.1 - - + +
148C SER 4.7 0.2 - - - -
149C ILE* 3.6 16.2 - - + -
150C GLN* 2.9 20.8 + - - +
152C VAL* 1.3 75.8 - - - +
154C THR* 1.3 65.0 + - - +
156C ALA* 3.6 4.0 + - - +
157C ASP* 3.1 23.0 + - - +
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Residues in contact with THR 154 (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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63C LEU* 5.0 6.7 - - + +
72C LEU* 4.7 4.3 - - - +
78C ASP* 4.2 12.8 - - - +
147C TRP* 5.7 0.9 - - + -
149C ILE* 3.8 20.1 - - + +
150C GLN 3.1 14.8 + - - -
151C PHE* 3.4 6.6 + - - -
153C ASP* 1.3 74.1 - - - +
155C VAL* 1.3 61.1 + - - +
157C ASP* 2.9 14.5 + - - -
159C ALA* 2.8 34.9 + - - +
160C SER* 2.5 41.3 - - - +
1262C PO4 4.9 4.9 - - - +
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Residues in contact with VAL 155 (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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38C ALA* 3.7 8.5 - - + -
39C TYR* 3.4 56.8 - - + +
42C GLN* 3.1 20.5 + - - +
78C ASP* 3.1 24.9 - - - +
151C PHE* 3.1 40.7 + - + +
153C ASP 3.4 0.2 - - - -
154C THR* 1.3 77.3 - - - +
156C ALA* 1.3 64.3 + - - +
158C ASN 3.0 11.4 + - - -
159C ALA* 4.0 6.1 - - - +
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Residues in contact with ALA 156 (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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13C LEU* 3.6 11.5 - - - +
26C LEU* 4.1 18.2 - - + -
30C ILE* 5.0 1.6 - - + -
38C ALA* 3.4 20.2 + - - +
41C ILE* 3.8 29.3 - - + +
42C GLN* 3.8 8.5 - - - -
45C ASN* 4.8 3.5 + - - -
152C VAL 3.3 16.3 + - - +
153C ASP 3.8 4.3 - - - +
154C THR 3.2 0.2 - - - -
155C VAL* 1.3 79.0 - - - +
157C ASP* 1.3 58.0 + - - +
158C ASN 3.1 5.2 + - - -
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Residues in contact with ASP 157 (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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13C LEU* 4.0 15.3 - - + +
141C GLY 4.2 0.9 - - - +
142C SER* 3.7 8.5 + - - -
143C ARG* 2.7 79.1 + - - +
144C ILE* 4.0 10.1 + - + +
149C ILE* 5.4 0.8 - - + +
153C ASP 3.1 16.7 + - - +
154C THR* 2.9 10.1 + - - +
156C ALA* 1.3 73.9 - - - +
158C ASN* 1.3 65.8 + - - +
160C SER* 3.1 7.8 + - - +
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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