Contacts of the helix formed by residues 151 - 161 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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52C SER* 4.2 16.5 + - - +
136C GLY 4.2 11.7 - - - +
137C LEU* 5.2 0.4 - - - -
138C ALA 3.9 21.9 + - - +
140C ALA* 4.0 17.2 + - - +
143C ALA* 5.1 0.7 - - - +
149C LEU 3.4 3.9 + - - -
150C GLU* 1.3 77.8 - - - +
152C PHE* 1.3 71.8 + - - +
153C PHE* 3.1 23.1 - - + +
154C ASP* 2.9 29.7 + - - +
155C SER* 3.0 18.6 + - - -
359C ARG* 5.2 1.6 - - - +
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Residues in contact with PHE 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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34C MET* 3.6 24.0 - - + -
52C SER 5.5 1.0 + - - -
53C ASN 6.2 0.2 - - - -
54C PHE* 3.6 47.7 - + + +
101C VAL* 4.1 8.1 - - + -
103C ILE* 4.2 15.3 - - + -
111C PHE* 4.0 20.2 - + - -
113C VAL* 4.0 23.0 - - + +
114C ASN 5.9 1.6 - - - +
135C LEU* 3.4 34.5 - - + -
136C GLY 4.7 3.7 + - - +
137C LEU* 5.0 1.8 - - + -
150C GLU 3.8 1.4 + - - -
151C THR* 1.3 75.9 - - + +
153C PHE* 1.3 71.5 + + - +
155C SER* 3.0 14.9 + - - -
156C LEU* 3.0 24.1 + - + -
189C LEU* 5.4 2.5 - - + -
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Residues in contact with PHE 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 4.4 18.5 - - + +
151C THR* 3.1 11.6 - - + +
152C PHE* 1.3 83.3 - + - +
154C ASP* 1.3 53.5 + - - +
156C LEU* 2.9 16.9 + - + +
157C VAL* 2.7 57.3 + - + +
162C ILE* 4.4 13.9 - - + -
163C PRO 4.3 2.0 - - - -
164C ASN* 3.6 12.3 - - - -
165C VAL 3.2 33.0 - - - -
166C PHE* 4.0 17.5 - + + -
189C LEU* 4.1 18.6 - - + -
190C GLY 4.4 0.7 - - - -
359C ARG* 3.5 34.3 - - - +
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Residues in contact with ASP 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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140C ALA* 4.3 14.0 + - - +
150C GLU* 3.1 23.3 - - + +
151C THR* 2.9 36.2 + - - +
153C PHE* 1.3 77.9 - - - +
155C SER* 1.3 65.2 + - - +
157C VAL* 3.5 7.0 + - - +
158C THR* 3.3 20.8 + - - -
164C ASN* 5.4 1.0 - - - +
359C ARG* 3.7 18.9 + - - -
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Residues in contact with SER 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C PHE* 5.8 0.4 - - - -
112C LEU 3.7 23.3 + - - -
113C VAL* 4.1 14.5 - - - +
114C ASN* 5.0 1.9 + - - -
150C GLU* 2.9 24.6 + - - +
151C THR 3.0 9.4 + - - -
152C PHE 3.0 9.5 + - - -
154C ASP* 1.3 73.6 - - - +
156C LEU* 1.3 68.5 + - - +
158C THR* 2.9 6.9 + - - -
159C GLN* 2.9 35.0 + - - +
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Residues in contact with LEU 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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103C ILE* 4.7 0.2 - - + -
107C PHE* 3.9 15.0 - - + -
111C PHE* 3.2 47.3 - - + -
152C PHE* 3.0 24.0 + - + +
153C PHE* 2.9 22.1 + - + +
155C SER* 1.3 77.3 - - - +
157C VAL* 1.3 58.7 + - - +
159C GLN* 5.0 0.2 - - - -
160C ALA* 2.8 47.2 + - + +
162C ILE* 4.3 9.0 - - + -
189C LEU* 3.7 34.8 - - + -
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Residues in contact with VAL 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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153C PHE* 2.7 55.0 + - + +
154C ASP* 3.7 7.9 - - - +
156C LEU* 1.3 72.7 - - - +
158C THR* 1.3 62.6 + - - +
161C ASN* 2.8 30.8 + - - -
162C ILE* 3.3 22.4 + - + +
163C PRO 4.3 3.8 - - - +
164C ASN* 3.9 24.2 - - + +
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Residues in contact with THR 158 (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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150C GLU* 4.6 4.1 + - - -
154C ASP 3.3 10.6 + - - -
155C SER* 2.9 13.1 + - - -
157C VAL* 1.3 81.4 - - - +
159C GLN* 1.3 70.4 + - + +
161C ASN* 3.3 13.7 + - - +
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Residues in contact with GLN 159 (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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110C SER 4.8 0.2 - - - +
111C PHE* 2.9 25.2 - - + +
112C LEU* 2.7 55.6 + - - +
155C SER* 2.9 29.2 + - - +
156C LEU 4.5 0.4 - - - +
158C THR* 1.3 83.1 - - + +
160C ALA* 1.3 59.8 + - - +
161C ASN* 3.1 2.7 + - - +
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Residues in contact with ALA 160 (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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107C PHE* 4.0 11.7 - - + -
111C PHE* 5.1 4.5 - - + -
156C LEU* 2.8 40.4 + - + +
159C GLN* 1.3 72.7 - - - +
161C ASN* 1.3 72.0 + - - +
162C ILE* 3.2 22.8 + - + +
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Residues in contact with ASN 161 (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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157C VAL 2.8 13.5 + - - -
158C THR* 3.7 9.1 - - - +
159C GLN 3.1 4.4 - - - +
160C ALA* 1.3 81.0 - - - +
162C ILE* 1.3 58.5 + - - +
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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