Contacts of the helix formed by residues 147 - 163 (chain A) in PDB entry 1CEC
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 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145A ASP* 2.9 31.4 + - + +
146A SER* 1.3 77.1 - - - +
148A ARG* 1.3 73.2 + - - +
150A ASN* 3.8 6.4 - - - +
151A LYS* 3.3 20.1 + - - +
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Residues in contact with ARG 148 (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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106A PHE* 3.3 40.1 + - + +
107A GLU* 2.9 42.8 + - - -
143A GLU* 2.9 43.5 + - - +
144A PRO* 5.5 3.6 - - - +
145A ASP* 4.6 1.3 + - - +
146A SER 3.4 0.4 - - - -
147A THR* 1.3 85.1 + - - +
149A TRP* 1.3 65.2 + - - +
151A LYS* 3.3 9.4 + - - +
152A LEU* 3.2 22.5 + - - +
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Residues in contact with TRP 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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106A PHE* 3.4 34.8 - + + -
115A PHE* 4.2 12.6 - + - -
137A LEU* 4.2 16.2 - - + -
138A LEU* 3.8 39.3 - - + -
141A VAL* 4.0 28.9 - - + +
143A GLU* 4.8 5.1 + - + -
145A ASP 5.2 0.4 + - - -
146A SER* 3.4 15.4 + - - +
148A ARG* 1.3 76.0 - - - +
150A ASN* 1.3 59.9 + - - +
152A LEU* 3.5 3.3 + - + -
153A MET* 2.8 68.1 + - + +
171A ILE* 4.7 4.9 - - + -
172A GLY 2.9 27.2 + - - -
173A GLY 4.4 7.5 - - - -
174A ASN* 4.6 2.0 - - - -
185A LEU* 3.6 22.3 - - + +
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Residues in contact with ASN 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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146A SER* 2.9 28.3 + - - +
147A THR* 3.8 6.7 - - - +
149A TRP* 1.3 78.3 - - - +
151A LYS* 1.3 61.3 + - - +
153A MET* 3.9 6.2 - - - +
154A LEU* 3.0 33.3 + - + +
184A ASN 3.0 23.0 + - - -
185A LEU* 3.3 19.4 - - - +
186A ALA* 2.8 37.7 + - + +
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Residues in contact with LYS 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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112A GLN* 4.0 20.6 + - - +
147A THR 3.3 11.3 + - - +
148A ARG* 3.3 12.0 + - - +
149A TRP 3.2 0.4 - - - -
150A ASN* 1.3 81.0 - - - +
152A LEU* 1.3 65.2 + - - +
154A LEU* 3.2 6.2 + - - +
155A GLU* 3.1 50.7 + - + +
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Residues in contact with LEU 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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105A LEU* 3.8 27.6 - - + -
106A PHE* 3.7 25.1 - - + -
112A GLN* 3.7 36.8 - - + +
115A PHE* 3.8 31.4 - - + -
116A VAL* 4.2 4.5 - - + -
148A ARG 3.2 13.0 + - - +
149A TRP* 3.9 5.2 - - + +
151A LYS* 1.3 80.4 - - - +
153A MET* 1.3 59.0 + - - +
155A GLU* 3.3 19.7 + - - +
156A CYS* 2.9 29.9 + - - +
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Residues in contact with MET 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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137A LEU* 4.3 9.0 - - + -
149A TRP* 2.8 57.7 + - + +
150A ASN* 3.9 24.2 - - - +
152A LEU* 1.3 74.3 - - - +
154A LEU* 1.3 68.7 + - + +
156A CYS* 3.2 6.2 + - - +
157A ILE* 2.9 48.6 + - - +
171A ILE* 4.1 16.4 - - + -
185A LEU* 4.3 7.4 - - + -
186A ALA 4.4 6.7 - - - +
188A ILE* 3.7 32.1 - - + -
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Residues in contact with LEU 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 ASN* 3.0 28.1 + - + +
151A LYS* 3.7 6.1 - - - +
153A MET* 1.3 90.0 - - + +
155A GLU* 1.3 62.1 + - + +
157A ILE* 3.4 6.0 + - + +
158A LYS* 3.1 24.7 + - - +
186A ALA* 3.9 21.8 - - + -
187A ASP 4.1 18.8 - - - +
188A ILE* 4.5 10.3 - - + -
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Residues in contact with GLU 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 GLN* 4.7 6.4 - - - +
116A VAL* 4.2 10.7 - - + +
151A LYS* 3.1 44.7 + - + +
152A LEU* 3.3 24.5 + - - +
154A LEU* 1.3 76.6 - - - +
156A CYS* 1.3 58.1 + - - +
158A LYS* 3.5 10.3 - - + +
159A ALA* 3.0 28.2 + - - +
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Residues in contact with CYS 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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115A PHE* 3.9 20.2 - - + -
116A VAL* 4.2 17.0 - - + +
119A TRP* 3.7 41.5 - - - -
137A LEU* 4.0 17.7 - - + -
152A LEU 2.9 16.8 + - - +
153A MET 3.2 4.9 + - - +
155A GLU* 1.3 75.4 - - - +
157A ILE* 1.3 66.9 + - - +
159A ALA* 3.4 1.6 + - - +
160A ILE* 3.1 30.5 + - - +
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Residues in contact with ILE 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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137A LEU* 3.6 18.6 - - + -
153A MET* 2.9 28.4 + - - +
154A LEU* 3.4 8.9 + - + +
156A CYS* 1.3 74.3 - - - +
158A LYS* 1.3 53.6 + - - +
160A ILE* 3.1 3.8 + - - +
161A ARG* 2.7 53.5 + - + +
169A LEU* 3.7 19.5 - - + -
171A ILE* 3.5 32.1 - - + -
188A ILE* 4.5 16.2 - - + -
190A ASP* 4.1 10.8 - - - +
193A ILE* 4.4 1.6 - - + -
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Residues in contact with LYS 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 LEU 3.1 15.5 + - - +
155A GLU* 3.5 9.4 - - - +
157A ILE* 1.3 79.8 - - - +
159A ALA* 1.3 63.3 + - - +
161A ARG* 3.2 8.0 + - - +
162A GLU* 3.0 39.2 + - + +
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Residues in contact with ALA 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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116A VAL* 3.3 33.7 - - + -
120A ARG* 3.4 31.7 - - + +
155A GLU 3.0 8.9 + - - +
156A CYS 3.8 1.8 - - - +
158A LYS* 1.3 78.1 - - - +
160A ILE* 1.3 65.4 + - + +
162A GLU* 3.3 24.7 + - - +
163A ILE* 3.7 11.6 + - - +
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Residues in contact with ILE 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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119A TRP* 3.8 39.5 - - + +
120A ARG* 4.9 0.9 - - - +
123A ALA* 4.2 16.6 - - + -
135A PHE* 4.4 12.8 - - + -
137A LEU* 4.1 15.5 - - + -
156A CYS* 3.1 14.8 + - - +
157A ILE 3.6 6.7 - - - +
159A ALA* 1.3 75.8 - - + +
161A ARG* 1.3 60.8 + - - +
163A ILE* 2.9 10.2 + - - +
164A ASP* 2.8 37.1 + - + +
167A MET* 5.0 1.8 - - + -
169A LEU* 3.9 37.2 - - + -
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Residues in contact with ARG 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 ILE* 2.7 31.2 + - + +
158A LYS* 3.7 7.6 - - - +
160A ILE* 1.3 71.8 - - - +
162A GLU* 1.3 66.6 + - - +
163A ILE 3.3 0.5 + - - -
164A ASP 3.1 31.6 + - - -
165A SER* 3.6 27.2 + - - +
167A MET* 2.8 37.6 + - - +
169A LEU* 3.9 20.8 - - + +
190A ASP* 2.8 42.5 + - - +
192A TYR* 3.2 19.4 + - - +
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Residues in contact with GLU 162 (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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120A ARG* 4.4 13.6 + - - -
158A LYS* 3.0 37.1 + - + +
159A ALA* 3.4 13.4 - - - +
160A ILE 3.1 0.4 + - - -
161A ARG* 1.3 76.8 - - - +
163A ILE* 1.3 63.6 + - + +
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Residues in contact with ILE 163 (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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120A ARG* 3.4 52.3 - - + +
123A ALA* 4.2 9.9 - - + -
124A LYS* 3.7 41.3 - - + +
127A ILE* 3.3 29.1 - - + +
159A ALA 3.8 8.5 - - - +
160A ILE 2.9 5.0 + - - +
161A ARG 4.2 0.4 - - - -
162A GLU* 1.3 83.5 - - + +
164A ASP* 1.3 57.5 + - - +
165A SER 4.2 0.2 - - - -
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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