Contacts of the helix formed by residues 150 - 157 (chain S) 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 S).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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27S ARG* 3.4 32.7 - - + +
32S ILE* 4.0 26.0 - - + +
71S GLN 4.4 12.4 + - - +
72S LEU* 3.8 28.3 - - - +
149S ILE* 1.3 86.2 + - - +
151S PHE* 1.3 67.9 + - - +
152S VAL* 3.2 4.5 - - + +
153S ASP* 2.9 26.6 + - - +
154S THR* 3.1 15.9 + - - -
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Residues in contact with PHE 151 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32S ILE 5.4 4.9 + - - +
33S ASP* 6.2 1.8 - - - -
35S ALA* 3.9 27.4 - - + -
39S TYR* 4.5 11.4 - + - -
63S LEU* 3.4 25.1 - - + -
72S LEU* 3.9 27.9 + - + +
74S VAL* 3.7 31.6 - - + -
76S GLN* 4.7 5.8 - - + -
77S PRO 3.8 22.9 - - - -
78S ASP* 3.9 7.9 - - - -
150S GLN* 1.3 74.9 - - - +
152S VAL* 1.3 73.4 + - + +
154S THR* 3.3 6.8 + - - -
155S VAL* 3.1 44.2 + - + +
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Residues in contact with VAL 152 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27S ARG* 3.9 23.8 - - + +
30S ILE* 3.5 28.0 - - + -
31S GLY 3.9 5.6 - - - +
32S ILE 3.8 20.2 + - - +
33S ASP 4.7 0.4 - - - -
34S ASN 3.3 37.5 - - - +
35S ALA* 4.1 3.8 - - - +
38S ALA* 3.4 18.1 - - + +
150S GLN* 3.2 2.5 - - + +
151S PHE* 1.3 84.5 - - + +
153S ASP* 1.3 63.3 + - - +
156S ALA* 3.3 22.9 + - - +
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Residues in contact with ASP 153 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25S PRO* 3.8 5.7 - - - +
26S LEU* 2.8 34.7 + - - +
27S ARG* 2.9 43.6 + - - +
144S ILE* 3.6 17.7 - - + +
148S SER 4.7 0.2 - - - -
149S ILE* 3.6 16.2 - - + -
150S GLN* 2.9 20.4 + - - +
152S VAL* 1.3 75.9 - - - +
154S THR* 1.3 63.4 + - - +
156S ALA* 3.8 4.0 - - - +
157S ASP* 3.1 23.6 + - - +
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Residues in contact with THR 154 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63S LEU* 5.0 7.0 - - + +
72S LEU* 4.7 4.3 - - - +
78S ASP* 4.2 13.7 - - - +
147S TRP* 5.6 0.9 - - + -
149S ILE* 3.8 20.6 - - + +
150S GLN 3.1 14.6 + - - -
151S PHE* 3.4 6.4 + - - -
153S ASP* 1.3 73.9 - - - +
155S VAL* 1.3 60.5 + - - +
157S ASP* 2.9 14.3 + - - -
159S ALA* 2.7 41.3 + - - +
160S SER* 2.5 34.0 + - - +
1262S PO4 4.8 6.1 - - - +
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Residues in contact with VAL 155 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38S ALA* 3.7 8.5 - - + -
39S TYR* 3.4 56.5 - - + +
42S GLN* 3.1 20.9 + - - +
78S ASP* 3.1 24.5 - - - +
79S PHE 5.2 0.2 - - - -
151S PHE* 3.1 41.5 + - + +
154S THR* 1.3 77.7 - - - +
156S ALA* 1.3 65.2 + - - +
158S ASN 3.0 11.3 + - - -
159S ALA* 4.0 6.1 - - - +
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Residues in contact with ALA 156 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13S LEU* 3.7 11.6 - - - +
26S LEU* 4.1 19.1 - - + -
30S ILE* 5.0 1.6 - - + -
38S ALA* 3.4 19.2 + - - +
41S ILE* 3.9 25.0 - - + +
42S GLN* 3.8 12.6 - - - -
45S ASN* 4.8 3.6 + - - -
152S VAL 3.3 16.3 + - - +
153S ASP 3.8 3.8 - - - +
154S THR 3.3 0.4 - - - -
155S VAL* 1.3 78.6 - - - +
157S ASP* 1.3 57.5 + - - +
158S ASN 3.0 5.7 + - - -
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Residues in contact with ASP 157 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13S LEU* 4.0 14.4 - - + +
141S GLY 4.1 0.9 - - - +
142S SER* 3.6 9.0 + - - -
143S ARG* 2.7 79.7 + - - +
144S ILE* 4.1 9.1 + - + +
149S ILE* 5.4 0.8 - - + +
153S ASP 3.1 16.9 + - - +
154S THR* 2.9 10.3 + - - +
156S ALA* 1.3 74.3 - - - +
158S ASN* 1.3 66.5 + - - +
160S SER* 3.1 6.5 + - - +
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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