Contacts of the helix formed by residues 147 - 162 (chain A) in PDB entry 1C3Q
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 GLY 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146A GLY* 1.3 74.8 - - - -
148A GLY* 1.3 58.7 + - - +
149A ASP* 2.9 9.3 - - - +
150A ILE* 2.8 34.6 + - - +
151A ILE* 3.8 4.2 + - - +
173A VAL* 5.7 0.2 - - - +
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Residues in contact with GLY 148 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147A GLY* 1.3 72.7 - - - +
149A ASP* 1.3 60.0 + - - +
150A ILE 3.1 0.4 + - - -
151A ILE* 3.6 19.8 + - - +
152A ARG* 2.8 32.3 + - - -
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Residues in contact with ASP 149 (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 GLY* 5.7 0.9 - - - -
141A VAL* 2.9 33.8 + - - +
143A ALA* 5.3 0.9 + - - +
145A GLU 5.0 5.9 - - - +
146A GLY* 4.6 7.4 - - - -
147A GLY 2.9 10.9 - - - +
148A GLY* 1.3 79.8 + - - +
150A ILE* 1.3 54.9 + - + +
152A ARG* 2.9 31.0 + - - +
153A LEU* 2.6 36.2 + - - +
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Residues in contact with ILE 150 (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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124A ALA* 3.5 30.1 - - + -
146A GLY* 4.1 14.6 - - - +
147A GLY* 2.8 29.3 + - - +
149A ASP* 1.3 77.5 - - + +
151A ILE* 1.3 53.5 + - - +
153A LEU* 3.1 9.6 + - + +
154A ALA* 2.7 33.3 + - - +
167A ILE* 4.2 22.9 - - + +
171A VAL 5.4 3.6 - - - +
173A VAL* 3.8 26.7 - - + -
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Residues in contact with ILE 151 (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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147A GLY 3.8 4.0 + - - +
148A GLY* 3.6 14.5 + - - +
149A ASP 3.4 0.4 - - - -
150A ILE* 1.3 76.6 - - - +
152A ARG* 1.3 59.9 + - + +
154A ALA* 3.3 2.3 + - - +
155A GLN* 3.0 46.0 + - - +
173A VAL* 4.0 27.4 - - + -
180A VAL* 3.9 18.6 - - + +
182A THR* 4.0 7.6 - - + -
269A VAL* 4.0 34.3 - - + -
271A VAL* 4.9 1.6 - - + -
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Residues in contact with ARG 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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139A LYS 4.6 8.7 - - - +
140A GLY* 4.7 13.6 - - - -
141A VAL* 5.0 2.8 - - - +
148A GLY* 2.8 34.6 + - - -
149A ASP* 2.9 41.5 + - - +
150A ILE 3.2 0.4 - - - -
151A ILE* 1.3 76.5 - - + +
153A LEU* 1.3 65.6 + - - +
155A GLN* 3.6 17.1 - - - +
156A GLN* 3.1 45.0 + - + +
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Residues in contact with LEU 153 (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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124A ALA* 3.7 34.3 - - + +
127A ILE* 4.4 8.1 - - + -
128A ALA* 4.2 25.8 - - + +
131A VAL* 6.1 0.7 - - + -
138A ILE* 4.0 33.0 - - + -
149A ASP 2.6 22.6 + - - +
150A ILE* 3.1 10.7 + - + +
152A ARG* 1.3 73.7 - - - +
154A ALA* 1.3 63.8 + - - +
156A GLN* 4.0 0.9 - - - +
157A ALA* 3.0 27.5 + - + +
167A ILE* 3.8 19.3 - - + -
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Residues in contact with ALA 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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150A ILE 2.7 19.7 + - - +
151A ILE 3.5 4.7 - - - +
153A LEU* 1.3 75.7 - - - +
155A GLN* 1.3 62.9 + - - +
157A ALA* 3.8 1.0 - - - +
158A ALA* 2.9 26.2 + - - +
165A ILE* 4.1 14.9 - - + +
167A ILE* 4.0 16.8 - - + -
173A VAL* 3.8 22.0 - - + +
175A ALA* 4.1 15.0 - - + -
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Residues in contact with GLN 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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151A ILE* 3.0 24.6 + - - +
152A ARG* 3.6 27.9 + - - +
153A LEU 3.4 0.2 - - - -
154A ALA* 1.3 76.9 - - - +
156A GLN* 1.3 60.7 + - + +
158A ALA* 3.3 4.2 + - - +
159A GLN* 3.0 45.4 + - - +
175A ALA* 4.6 3.8 - - - -
176A ASP 5.2 2.5 - - - -
180A VAL* 3.6 23.5 - - + +
271A VAL* 2.9 42.3 - - - +
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Residues in contact with GLN 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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137A LEU* 3.9 3.9 - - + +
138A ILE* 3.5 26.7 - - + +
139A LYS* 2.7 53.8 + - - +
152A ARG* 3.1 35.7 + - + +
153A LEU 4.0 1.1 - - - +
155A GLN* 1.3 76.6 - - + +
157A ALA* 1.3 59.1 + - - +
159A GLN* 3.3 9.3 + - - +
160A LYS* 2.9 31.7 + - - +
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Residues in contact with ALA 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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127A ILE* 4.0 14.8 - - + -
131A VAL* 3.9 30.1 - - + -
138A ILE* 4.6 1.7 - - + +
153A LEU* 3.0 22.1 + - + +
154A ALA 3.8 2.9 - - - +
156A GLN* 1.3 75.2 - - - +
158A ALA* 1.3 58.3 + - - +
160A LYS* 3.8 3.1 - - - -
161A LEU* 2.9 35.9 + - - +
165A ILE* 3.8 14.6 - - + -
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Residues in contact with ALA 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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154A ALA 2.9 18.4 + - - +
155A GLN* 3.6 3.1 - - - +
157A ALA* 1.3 78.4 - - - +
159A GLN* 1.3 57.3 + - - +
162A ASN* 2.8 30.3 + - - -
163A THR 3.4 19.0 + - - +
165A ILE* 3.4 16.3 - - + +
175A ALA 3.7 7.0 - - - +
176A ASP 3.6 25.1 - - - +
177A THR* 3.6 5.5 + - - -
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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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155A GLN* 3.0 29.2 + - - +
156A GLN* 3.8 7.7 - - - +
158A ALA* 1.3 80.4 - - - +
160A LYS* 1.3 60.1 + - - +
161A LEU 3.6 0.2 + - - -
162A ASN* 3.8 7.1 + - - +
176A ASP 5.1 0.4 - - - +
177A THR* 4.0 35.8 + - + +
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Residues in contact with LYS 160 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A VAL* 4.3 19.0 + - + -
133A VAL* 4.9 16.8 - - - +
137A LEU* 4.1 35.7 - - + -
156A GLN 2.9 16.6 + - - +
157A ALA 3.8 2.7 - - - +
159A GLN* 1.3 77.0 - - - +
161A LEU* 1.3 68.4 + - + +
162A ASN* 5.3 0.7 - - - +
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Residues in contact with LEU 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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112A ILE* 3.8 34.2 - - + +
120A ILE* 3.8 26.5 - - + -
130A THR* 5.2 0.4 - - + -
131A VAL* 3.6 31.6 - - + -
157A ALA 2.9 17.1 + - - +
160A LYS* 1.3 92.3 - - + +
162A ASN* 1.3 72.4 + - - +
163A THR* 3.9 15.4 - - + +
165A ILE* 4.2 7.2 - - + -
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Residues in contact with ASN 162 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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117A LEU 4.7 2.6 - - - +
158A ALA 2.8 15.0 + - - -
159A GLN 3.8 5.7 + - - +
160A LYS 3.5 2.4 - - - +
161A LEU* 1.3 81.5 - - - +
163A THR* 1.3 57.7 + - - +
177A THR* 4.1 14.6 + - - +
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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