Contacts of the helix formed by residues 142 - 156 (chain A) in PDB entry 4WCX
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 PRO 142 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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109A LYS* 4.3 5.2 - - - +
137A ASP 3.8 0.8 - - - +
138A PRO* 3.8 19.3 - - + +
139A VAL 3.5 10.5 - - - +
140A ASN 3.4 8.5 - - - +
141A CYS* 1.3 95.4 - - - +
143A ILE* 1.3 66.2 + - + +
144A ASP* 4.5 5.6 - - + +
145A TYR* 3.1 31.5 + - + +
146A ILE* 3.5 5.6 + - - +
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Residues in contact with ILE 143 (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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142A PRO* 1.3 73.9 - - + +
144A ASP* 1.3 74.4 + - - +
146A ILE* 2.9 10.6 + - + +
147A VAL* 2.8 30.1 + - + +
170A ILE* 3.9 23.1 - - + -
173A THR* 5.5 0.2 - - + -
177A ASN* 3.6 51.6 - - + +
180A LYS* 3.9 18.2 - - + +
181A LEU* 3.9 28.0 - - + -
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Residues in contact with ASP 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A PRO* 3.3 6.0 - - + +
143A ILE* 1.3 80.8 - - - +
145A TYR* 1.3 56.7 + - - +
147A VAL* 4.1 10.0 - - - +
148A ASP* 2.9 41.8 + - - +
180A LYS* 2.8 34.9 + - - +
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Residues in contact with TYR 145 (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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86A VAL* 3.4 20.3 + - + +
87A SER* 4.4 0.2 - - - -
109A LYS* 3.8 36.6 - - + +
110A LEU* 2.6 48.3 + - - +
111A THR* 5.5 0.7 - - - -
112A MET* 5.1 11.2 - - + -
141A CYS* 3.8 22.7 - - - -
142A PRO* 3.1 27.0 + - + +
144A ASP* 1.3 79.0 - - - +
146A ILE* 1.3 61.6 + - + +
148A ASP* 3.4 6.0 + - - +
149A VAL* 2.8 51.3 + - + +
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Residues in contact with ILE 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A VAL* 4.2 11.0 - - + -
132A VAL* 4.6 8.7 - - + -
134A ALA* 3.9 16.8 - - + -
141A CYS* 3.8 27.4 - - - +
142A PRO 3.5 10.3 + - - +
143A ILE* 2.9 12.2 + - + +
145A TYR* 1.3 82.3 - - + +
147A VAL* 1.3 66.4 + - - +
149A VAL* 3.0 5.1 + - + +
150A ILE* 3.0 41.8 + - + +
168A VAL* 4.5 13.9 - - + -
170A ILE* 4.5 17.9 - - + -
181A LEU* 4.1 11.7 - - + -
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Residues in contact with VAL 147 (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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143A ILE* 2.8 27.3 + - + +
144A ASP* 3.8 13.9 - - + +
146A ILE* 1.3 73.0 - - - +
148A ASP* 1.3 66.8 + - - +
150A ILE* 3.4 8.1 + - - +
151A LYS* 3.1 44.0 + - - +
180A LYS* 3.9 38.1 - - + +
181A LEU* 4.6 6.3 - - + -
184A VAL* 3.4 16.3 - - + +
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Residues in contact with ASP 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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112A MET* 3.0 24.1 - - + +
144A ASP* 2.9 32.1 + - - +
145A TYR* 3.7 4.3 - - - +
147A VAL* 1.3 82.5 - - - +
149A VAL* 1.3 65.6 + - - +
151A LYS* 3.3 18.8 + - - +
152A THR* 3.0 26.9 + - - -
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Residues in contact with VAL 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A VAL* 4.1 23.6 - - + -
112A MET* 3.4 8.9 - - - +
115A VAL* 4.3 16.4 - - + +
132A VAL* 4.4 11.2 - - + -
145A TYR* 2.8 57.7 + - + +
146A ILE* 3.0 11.9 + - + +
148A ASP* 1.3 72.0 - - - +
150A ILE* 1.3 57.5 + - - +
152A THR* 3.3 4.6 + - - -
153A ILE* 3.0 45.3 + - + +
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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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132A VAL* 4.6 5.8 - - + -
146A ILE* 3.0 33.7 + - + +
147A VAL* 3.7 4.5 - - - +
148A ASP 3.1 0.2 - - - -
149A VAL* 1.3 74.2 - - + +
151A LYS* 1.3 66.2 - - - +
153A ILE* 3.2 9.3 + - - +
154A TYR* 3.1 46.9 + - + -
166A VAL* 4.1 22.0 - - + -
168A VAL* 3.8 24.7 - - + -
181A LEU* 3.9 9.4 - - + -
184A VAL* 3.5 33.4 - - + +
186A ILE* 3.9 4.5 - - + -
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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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147A VAL* 3.1 32.9 + - - +
148A ASP* 3.6 20.4 + - - +
150A ILE* 1.3 77.7 - - - +
152A THR* 1.3 57.1 + - - +
154A TYR* 3.4 6.5 + - - +
155A ASP* 3.0 30.2 + - - +
184A VAL* 3.4 21.8 - - + +
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Residues in contact with THR 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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112A MET* 3.3 29.1 - - + +
115A VAL* 3.8 17.3 - - + -
116A ARG* 3.4 41.6 + - + +
148A ASP 3.0 14.5 + - - -
149A VAL 3.5 8.7 - - - -
151A LYS* 1.3 73.3 - - - +
153A ILE* 1.3 61.1 + - - +
155A ASP* 3.9 6.2 - - - +
156A THR* 2.7 33.6 + - - -
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Residues in contact with ILE 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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84A LEU* 4.0 11.4 - - + -
115A VAL* 4.2 7.0 - - + -
119A VAL* 3.9 22.2 - - + +
130A LEU* 3.9 12.1 - - + -
132A VAL* 3.6 31.6 - - + -
149A VAL* 3.0 26.2 + - + +
150A ILE* 3.2 11.4 + - - +
152A THR* 1.3 75.2 - - - +
154A TYR* 1.3 62.5 + - - +
156A THR* 3.3 19.8 + - - +
163A ILE* 3.6 38.9 + - + +
166A VAL* 3.7 12.8 - - + -
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Residues in contact with TYR 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* 3.1 35.8 + - + +
151A LYS* 3.9 5.6 - - - +
153A ILE* 1.3 78.8 - - - +
155A ASP* 1.3 57.7 + - - +
157A LYS* 3.0 28.1 + - - -
163A ILE 3.4 23.1 - - - -
164A ARG* 4.0 12.1 - - - -
166A VAL* 3.0 43.8 + - + +
184A VAL 3.7 12.1 - - - -
185A GLY 2.6 30.4 + - - -
384A TYR* 3.4 17.3 + + - -
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Residues in contact with ASP 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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116A ARG* 3.7 28.8 + - - +
151A LYS 3.0 18.5 + - - +
152A THR* 3.9 2.0 - - - +
153A ILE 3.2 0.4 - - - -
154A TYR* 1.3 77.8 - - - +
156A THR* 1.3 60.4 + - - +
157A LYS* 3.5 11.6 + - - +
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Residues in contact with THR 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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116A ARG* 3.3 33.0 + - + +
119A VAL* 3.5 26.5 - - + +
120A GLU* 4.0 27.8 - - + +
123A GLU* 2.6 27.1 - - - +
152A THR* 2.7 20.9 + - - +
153A ILE* 3.3 11.5 + - - +
155A ASP* 1.3 75.4 - - - +
157A LYS* 1.3 70.3 + - - +
162A SER* 4.4 0.2 - - - -
163A ILE 4.5 0.3 + - - -
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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