Contacts of the strand formed by residues 152 - 160 (chain A) in PDB entry 5EN1
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 LYS 152 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120A LYS 4.3 2.2 - - - +
121A GLU* 3.5 46.8 + - + +
123A THR 4.0 12.3 - - - +
124A GLU* 4.4 25.7 + - - -
143A ILE* 4.2 15.9 - - + -
144A ILE 3.8 7.0 - - - +
145A THR* 4.3 11.1 - - + +
150A GLY 3.5 8.6 + - - +
151A LYS* 1.3 97.7 - - - +
153A ARG* 1.3 60.9 + - - +
154A GLY 3.6 1.3 - - - +
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Residues in contact with ARG 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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144A ILE* 3.1 30.1 + - + +
145A THR 4.0 1.5 + - - -
146A ASP* 3.8 41.3 + - + +
147A ARG 5.9 1.2 - - - +
151A LYS* 3.8 6.1 - - + +
152A LYS* 1.3 72.9 - - - +
154A GLY* 1.3 58.9 + - - +
155A PHE* 3.5 45.2 - - + -
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Residues in contact with GLY 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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117A GLY* 3.5 0.2 - - - -
118A GLY* 3.2 9.5 + - - -
119A ILE* 3.1 28.3 + - - +
120A LYS* 2.9 35.6 + - - -
152A LYS* 3.6 0.6 - - - +
153A ARG* 1.3 77.0 - - - +
155A PHE* 1.3 63.3 + - - +
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Residues in contact with PHE 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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115A PHE* 3.7 23.3 - + + -
116A VAL 3.2 15.3 - - - +
117A GLY* 3.6 9.2 - - - -
119A ILE* 3.7 10.7 - - - +
143A ILE* 4.1 3.2 - - - +
144A ILE* 3.1 57.2 + - + +
153A ARG* 3.5 55.0 - - + -
154A GLY* 1.3 79.6 - - - +
156A GLY* 1.3 60.1 + - - +
157A PHE* 4.0 17.9 - + - -
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Residues in contact with GLY 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 2.1 - - - -
116A VAL* 2.9 37.9 + - - +
119A ILE* 4.1 3.4 - - - +
128A LEU* 5.1 2.7 - - - -
142A GLU 3.2 15.5 - - - -
143A ILE* 4.3 7.2 - - - -
144A ILE* 4.2 2.5 - - - -
155A PHE* 1.3 75.7 - - - +
157A PHE* 1.3 73.4 + - - -
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Residues in contact with PHE 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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113A LYS* 3.5 33.7 - - + -
114A LEU 3.3 9.9 - - - +
115A PHE* 4.0 17.9 - + + -
128A LEU* 5.2 1.0 - - - +
140A THR* 4.1 1.2 - - - +
141A ILE* 3.6 4.9 - - - +
142A GLU* 3.1 55.2 + - + +
144A ILE* 3.8 24.9 - - + -
155A PHE* 4.0 18.8 - + - -
156A GLY* 1.3 75.4 - - - -
158A VAL* 1.3 63.4 + - - +
159A THR* 4.3 2.3 + - - +
187A ALA* 3.7 24.7 - - + -
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Residues in contact with VAL 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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112A LYS 3.7 1.0 - - - +
113A LYS* 3.5 1.1 - - - -
114A LEU* 2.6 46.0 + - + +
116A VAL* 4.3 4.9 - - + -
128A LEU* 4.0 24.9 - - + -
132A PHE* 3.9 25.4 - - + -
138A ILE* 3.9 28.3 - - + -
140A THR 3.6 3.1 - - - +
141A ILE* 4.4 5.8 - - + -
156A GLY 4.5 0.2 + - - -
157A PHE* 1.3 76.2 - - - +
159A THR* 1.3 61.5 + - - +
160A PHE* 3.6 32.3 - - + -
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Residues in contact with THR 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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112A LYS* 3.5 17.5 - - + +
113A LYS* 3.4 28.6 - - + +
138A ILE* 3.5 2.3 - - - +
139A ASP* 2.5 41.2 + - + +
140A THR* 2.9 30.9 + - - +
142A GLU* 5.6 0.7 + - - -
157A PHE* 5.0 1.4 - - - +
158A VAL* 1.3 72.9 + - - +
160A PHE* 1.3 66.9 - - - +
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Residues in contact with PHE 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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112A LYS* 3.1 36.6 + - - +
114A LEU* 4.3 5.4 - - + -
132A PHE* 3.9 28.0 - + + -
135A TYR* 4.3 0.7 - - + -
136A GLY 4.1 7.4 - - - -
137A LYS 3.3 23.8 - - - +
138A ILE* 4.0 11.2 - - + -
139A ASP* 3.9 6.1 - - - +
158A VAL* 3.6 25.6 - - + -
159A THR* 1.3 84.4 - - - +
161A ASP* 1.3 61.0 + - - +
162A ASP 3.2 18.2 - - - +
165A PRO* 3.8 22.7 - - + -
166A VAL* 3.8 15.5 - - + -
169A ILE* 3.5 30.1 - - + -
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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