Contacts of the helix formed by residues 151 - 161 (chain A) in PDB entry 2EWY
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 THR 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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52A SER* 4.2 16.6 + - - -
136A GLY 4.2 12.3 - - - +
137A LEU* 5.2 0.2 - - - -
138A ALA 3.9 21.9 + - - +
140A ALA* 4.0 16.3 + - - +
143A ALA* 5.1 0.7 - - - +
149A LEU 3.4 3.1 + - - -
150A GLU* 1.3 78.6 - - - +
152A PHE* 1.3 70.2 + - - +
153A PHE* 3.1 23.6 - - + +
154A ASP* 2.9 31.1 + - - +
155A SER* 3.0 19.2 + - - -
359A ARG* 5.2 1.6 - - - +
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Residues in contact with PHE 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A MET* 3.6 23.1 - - + -
52A SER 5.5 1.4 + - - -
53A ASN 6.2 0.2 - - - -
54A PHE* 3.6 47.7 - + + +
101A VAL* 4.1 8.3 - - + -
103A ILE* 4.2 15.0 - - + -
111A PHE* 4.0 19.7 - + - -
113A VAL* 4.0 22.5 - - + +
114A ASN 5.9 1.1 - - - +
135A LEU* 3.4 35.2 - - + -
136A GLY 4.7 3.7 + - - +
137A LEU* 5.0 2.5 - - + -
150A GLU 3.8 1.7 + - - -
151A THR* 1.3 75.2 - - + +
153A PHE* 1.3 70.5 + + - +
155A SER* 3.0 15.3 + - - -
156A LEU* 3.0 25.1 + - + -
189A LEU* 5.4 2.7 - - + -
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Residues in contact with PHE 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A LEU* 4.4 17.6 - - + +
151A THR* 3.1 12.7 - - + +
152A PHE* 1.3 83.9 - + - +
154A ASP* 1.3 53.2 + - - +
156A LEU* 2.9 16.8 + - + +
157A VAL* 2.7 56.1 + - + +
162A ILE* 4.4 15.5 - - + -
163A PRO 4.3 2.0 - - - -
164A ASN* 3.5 12.8 - - - -
165A VAL 3.2 32.5 - - - -
166A PHE* 4.0 18.8 - + + -
189A LEU* 4.1 17.7 - - + -
190A GLY 4.4 0.4 - - - -
359A ARG* 3.5 34.8 - - - +
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Residues in contact with ASP 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A ALA* 4.3 14.2 + - - +
150A GLU* 3.1 23.5 - - + +
151A THR* 2.9 36.8 + - - +
153A PHE* 1.3 79.0 - - - +
155A SER* 1.3 64.0 - - - +
157A VAL* 3.5 7.5 + - - +
158A THR* 3.3 20.1 + - - -
164A ASN* 5.4 0.9 - - - +
359A ARG* 3.7 19.3 + - - -
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Residues in contact with SER 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A LEU 3.7 23.2 + - - -
113A VAL* 4.1 14.9 - - - +
114A ASN* 5.0 1.2 + - - -
150A GLU* 2.9 25.6 + - - +
151A THR 3.0 9.0 + - - -
152A PHE 3.0 9.7 + - - -
154A ASP* 1.3 72.4 - - - +
156A LEU* 1.3 68.4 + - - +
158A THR* 2.9 6.8 + - - -
159A GLN* 2.9 34.1 + - - +
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Residues in contact with LEU 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A ILE* 4.7 0.2 - - + -
107A PHE* 3.9 15.3 - - + -
111A PHE* 3.2 47.4 - - + -
152A PHE* 3.0 24.4 + - + +
153A PHE* 2.9 23.2 + - + +
155A SER* 1.3 78.4 - - - +
157A VAL* 1.3 57.8 + - - +
159A GLN* 5.0 0.2 - - - -
160A ALA* 2.8 47.1 + - + +
162A ILE* 4.3 8.5 - - + +
189A LEU* 3.7 34.1 - - + -
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Residues in contact with VAL 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A PHE* 2.7 56.3 + - + +
154A ASP* 3.7 7.4 - - - +
156A LEU* 1.3 72.1 - - - +
158A THR* 1.3 61.6 + - - +
161A ASN* 2.8 30.7 + - - -
162A ILE* 3.3 21.7 + - + +
163A PRO 4.3 4.0 - - - +
164A ASN* 3.9 25.1 - - + +
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Residues in contact with THR 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLU* 4.6 3.7 + - - -
154A ASP 3.3 10.2 + - - -
155A SER* 2.9 13.7 + - - -
157A VAL* 1.3 81.0 - - - +
159A GLN* 1.3 69.3 + - + +
161A ASN* 3.3 14.7 + - - +
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Residues in contact with GLN 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A SER 4.8 0.2 - - - +
111A PHE* 2.9 23.8 - - + +
112A LEU* 2.7 55.7 + - - +
155A SER* 2.9 28.9 + - - +
156A LEU 4.5 0.7 - - - +
158A THR* 1.3 83.2 - - + +
160A ALA* 1.3 59.8 + - - +
161A ASN* 3.1 2.1 + - - +
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Residues in contact with ALA 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107A PHE* 4.0 12.1 - - + -
111A PHE* 5.1 4.5 - - + -
156A LEU* 2.8 40.6 + - + +
159A GLN* 1.3 73.0 - - - +
161A ASN* 1.3 70.3 + - - +
162A ILE* 3.2 22.2 + - + +
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Residues in contact with ASN 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A VAL 2.8 14.2 + - - -
158A THR* 3.3 9.8 + - - +
159A GLN 3.1 4.4 - - - +
160A ALA* 1.3 81.6 - - - +
162A ILE* 1.3 58.0 + - - +
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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