Contacts of the helix formed by residues 147 - 164 (chain A) in PDB entry 4CAA
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 PHE 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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119A PHE* 3.1 29.8 - - + -
121A LYS* 3.4 30.1 - - + +
145A THR* 3.2 22.7 + - + -
146A ASP* 1.3 70.4 - - - +
148A GLN* 1.3 60.0 + - - +
149A ASP 3.0 2.8 + - - -
150A SER* 3.2 22.6 + - - -
153A ALA* 4.0 15.9 - - + -
157A ILE* 4.6 4.5 - - + -
176A LEU* 4.0 13.0 - - + -
177A ASP 4.6 0.6 - - - +
178A SER* 4.3 10.5 - - - +
180A THR* 3.5 48.2 - - + +
181A MET 3.4 17.0 - - - -
182A MET* 3.7 9.6 - - - -
183A VAL* 4.0 14.6 - - + -
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Residues in contact with GLN 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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121A LYS* 4.7 7.6 - - - +
146A ASP* 2.8 22.3 + - - +
147A PHE* 1.3 76.8 - - - +
149A ASP* 1.3 59.5 + - - +
150A SER* 3.3 3.9 + - - -
178A SER* 5.0 9.3 - - - +
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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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146A ASP* 3.0 22.2 + - + +
147A PHE 3.0 2.0 - - - -
148A GLN* 1.3 81.0 - - - +
150A SER* 1.3 64.5 + - - +
151A ALA* 3.0 11.9 + - - +
152A ALA* 2.8 40.6 + - + +
153A ALA 2.8 10.0 + - - +
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Residues in contact with SER 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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147A PHE 3.2 15.9 + - - -
148A GLN 3.3 4.0 + - - -
149A ASP* 1.3 73.6 - - - +
151A ALA* 1.3 61.3 + - - +
153A ALA* 4.1 5.8 - - - -
154A LYS* 3.0 31.6 + - - +
176A LEU* 2.9 34.7 + - - +
177A ASP 3.4 10.7 + - - -
178A SER* 4.0 7.0 - - - -
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Residues in contact with ALA 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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149A ASP* 2.8 13.1 + - - +
150A SER* 1.3 77.8 - - - +
152A ALA* 1.3 59.6 + - + +
154A LYS* 3.9 7.9 - - - +
155A LYS* 3.3 18.0 + - - +
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Residues in contact with ALA 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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149A ASP* 2.8 33.1 + - + +
151A ALA* 1.3 74.3 - - - +
153A ALA* 1.3 63.3 + - - +
155A LYS* 3.1 10.0 + - + +
156A LEU* 3.0 23.2 + - - +
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Residues in contact with ALA 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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145A THR* 3.9 26.3 - - + +
146A ASP 4.2 3.1 + - - +
147A PHE* 4.0 18.4 - - + -
149A ASP* 2.8 18.9 + - - +
150A SER* 4.1 0.7 - - - -
152A ALA* 1.3 72.5 - - - +
154A LYS* 1.3 64.3 + - - +
156A LEU* 3.2 12.1 + - - +
157A ILE* 3.2 17.8 + - - +
176A LEU* 3.4 21.5 - - + -
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Residues in contact with LYS 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 SER* 3.0 20.2 + - - +
151A ALA* 3.9 7.2 - - - +
153A ALA* 1.3 76.4 - - - +
155A LYS* 1.3 57.4 + - - +
157A ILE* 3.4 3.8 + - - +
158A ASN* 2.8 53.6 + - - +
173A ILE* 3.3 24.4 - - + +
174A LYS 2.9 23.5 + - - +
175A ASP* 3.7 19.5 + - - +
176A LEU* 3.3 21.7 - - + +
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Residues in contact with LYS 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 ALA 3.3 13.7 + - - +
152A ALA* 3.1 15.4 + - - +
154A LYS* 1.3 78.4 - - - +
156A LEU* 1.3 66.9 + - - +
158A ASN* 3.0 7.9 + - + +
159A ASP* 2.9 57.1 + - - +
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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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119A PHE* 4.0 28.7 - - + -
143A PHE* 5.0 7.2 - - + -
144A ALA 5.0 6.1 - - - +
145A THR* 4.7 13.7 - - + +
152A ALA 3.0 11.8 + - - +
153A ALA* 3.2 9.2 + - - +
155A LYS* 1.3 75.5 - - - +
157A ILE* 1.3 65.2 + - - +
159A ASP* 2.9 18.8 + - + +
160A TYR* 3.1 13.2 + - + +
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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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119A PHE* 3.4 54.1 - - + -
145A THR* 5.3 1.6 - - + -
147A PHE* 4.6 9.4 - - + -
153A ALA 3.2 13.5 + - - +
154A LYS 3.8 5.8 - - - +
156A LEU* 1.3 79.5 - - + +
158A ASN* 1.3 63.6 + - - +
159A ASP 3.3 0.7 + - - -
160A TYR* 3.3 10.4 + - - +
161A VAL* 3.4 19.4 + - + +
172A LEU* 5.3 1.1 - - + -
173A ILE* 3.6 29.2 - - + -
176A LEU* 5.0 4.3 - - + -
183A VAL* 4.0 27.6 - - + -
185A VAL* 4.9 10.1 - - + -
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Residues in contact with ASN 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 LYS* 2.8 34.7 + - - +
155A LYS* 3.6 6.7 - - + +
157A ILE* 1.3 76.5 - - - +
159A ASP* 1.3 62.8 + - - +
161A VAL* 3.6 5.1 + - - +
162A LYS* 2.9 29.7 + - - +
169A ILE 4.6 2.4 - - - +
171A ASP* 3.1 22.4 + - - +
172A LEU* 2.6 33.5 + - - +
173A ILE* 3.2 30.2 + - - +
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Residues in contact with ASP 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 LYS* 2.9 46.9 + - + +
156A LEU* 2.9 11.9 + - + +
158A ASN* 1.3 80.9 - - - +
160A TYR* 1.3 58.5 + - - +
161A VAL 3.3 0.2 - - - -
162A LYS* 3.9 19.9 + - - +
163A ASN* 2.9 28.2 + - - +
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Residues in contact with TYR 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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115A GLY* 4.3 1.0 - - - -
116A ASN 3.7 12.8 + - - -
117A ALA* 3.2 33.4 - - + +
119A PHE* 3.8 22.7 - + + -
141A GLU* 4.3 8.6 + - - -
143A PHE* 4.2 19.1 - + - -
156A LEU* 3.1 9.6 + - + +
157A ILE 3.3 8.0 + - - +
159A ASP* 1.3 75.5 - - - +
161A VAL* 1.3 71.4 + - + +
163A ASN* 3.6 11.4 - - - +
164A GLY* 3.0 21.5 + - - -
185A VAL* 4.2 11.7 - - + -
187A TYR* 3.7 34.5 - + - -
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Residues in contact with VAL 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* 3.4 13.8 + - + +
158A ASN* 3.8 7.9 - - - +
160A TYR* 1.3 80.3 - - + +
162A LYS* 1.3 61.1 + - - +
163A ASN 3.1 0.7 - - - -
164A GLY 3.2 0.9 + - - -
165A THR* 2.7 37.4 + - + +
169A ILE* 3.8 26.9 - - + +
172A LEU* 4.0 18.6 - - + -
185A VAL* 3.8 29.2 - - + -
187A TYR* 4.8 6.7 - - + -
350A ALA* 3.6 24.9 - - + -
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Residues in contact with LYS 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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158A ASN 2.9 18.8 + - - +
159A ASP* 4.0 19.6 + - - +
161A VAL* 1.3 75.9 - - - +
163A ASN* 1.3 62.1 + - - +
165A THR* 3.3 5.7 + - - -
166A ARG 3.1 2.6 + - - -
167A GLY* 2.6 48.3 + - - +
169A ILE 3.9 9.8 + - - +
170A THR* 3.9 27.1 - - + -
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Residues in contact with ASN 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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159A ASP 2.9 21.6 + - - +
160A TYR* 3.6 13.7 - - - +
161A VAL 3.1 0.2 - - - -
162A LYS* 1.3 75.5 - - - +
164A GLY* 1.3 65.2 + - - +
166A ARG* 2.9 26.3 + - - -
187A TYR* 5.6 0.2 + - - -
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Residues in contact with GLY 164 (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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160A TYR 3.0 9.9 + - - -
161A VAL 3.2 2.4 + - - -
163A ASN* 1.3 84.4 + - - +
165A THR* 1.3 55.6 + - - +
166A ARG* 2.6 29.8 + - - -
187A TYR* 3.4 39.7 - - - -
189A PHE* 3.6 3.8 - - - +
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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