Contacts of the helix formed by residues 144 - 152 (chain E) in PDB entry 2ZSU
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 ASP 144 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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106E VAL* 4.1 1.1 - - - -
108E ILE* 4.0 24.3 - - + +
143E GLY* 1.3 69.0 - - - -
145E GLY* 1.3 67.5 + - - +
146E VAL* 3.3 25.7 + - - +
147E LYS* 2.9 46.2 + - + +
148E PHE* 3.0 11.3 + - - +
172E LEU* 5.4 2.1 - - - +
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Residues in contact with GLY 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83E ILE* 4.1 33.2 - - - +
106E VAL* 3.6 18.4 + - - +
143E GLY 3.5 5.9 + - - -
144E ASP* 1.3 73.4 + - - +
146E VAL* 1.3 61.9 + - - +
148E PHE* 3.6 3.0 - - - +
149E ILE* 3.0 28.1 + - - +
172E LEU* 4.6 1.9 - - - +
177E PHE* 4.4 0.5 - - - -
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Residues in contact with VAL 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144E ASP* 3.0 19.4 + - - +
145E GLY* 1.3 75.5 - - - +
147E LYS* 1.3 68.5 + - + +
149E ILE* 3.2 18.9 - - - +
150E GLU* 3.4 12.5 - - + +
168E PRO 5.6 0.4 - - - +
171E MET* 3.7 37.7 - - + +
172E LEU* 3.6 25.4 - - + +
174E SER* 5.8 0.2 - - - +
176E GLU* 5.7 4.7 - - - +
177E PHE* 4.1 21.3 - - + -
180E ASN* 5.0 1.5 + - - +
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Residues in contact with LYS 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144E ASP* 2.9 32.5 + - + +
146E VAL* 1.3 81.1 - - + +
148E PHE* 1.3 66.4 + - - +
150E GLU* 3.2 37.0 + - - +
151E GLU* 3.9 6.1 + - - +
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Residues in contact with PHE 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81E LEU* 3.9 17.9 - - + -
83E ILE* 6.0 0.7 - - + -
104E ILE* 4.0 20.9 - - + -
106E VAL* 3.9 20.9 - - + -
141E ILE* 3.6 30.5 - - + -
144E ASP 3.0 11.1 + - - +
145E GLY* 3.2 12.5 + - - +
147E LYS* 1.3 78.1 - - - +
149E ILE* 1.3 66.6 + - - +
150E GLU 3.1 1.6 + - - -
151E GLU* 3.2 2.8 + - - -
152E ASN* 2.8 69.3 + - + +
155E PHE* 3.9 22.4 - + - -
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Residues in contact with ILE 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153D SER* 4.7 1.2 + - - -
81E LEU* 3.5 30.1 - - + -
83E ILE* 5.0 4.3 - - + -
145E GLY 3.0 13.1 + - - +
146E VAL 3.2 17.9 - - - +
148E PHE* 1.3 80.0 - - + +
150E GLU* 1.3 65.7 + - - +
152E ASN 3.1 17.3 - - - +
155E PHE* 4.9 0.9 - - + -
158E ILE* 4.2 7.9 - - + -
177E PHE* 3.9 21.1 - - + -
180E ASN* 3.5 42.5 - - + +
181E ALA* 3.8 9.0 - - + -
183E ARG* 5.4 0.9 + - - -
184E ALA* 3.5 23.2 - - + +
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Residues in contact with GLU 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153D SER* 3.4 19.1 + - - +
154D GLY* 4.1 5.4 + - - -
146E VAL* 3.4 19.5 - - + +
147E LYS* 3.3 32.4 - - - +
148E PHE 3.1 0.8 - - - -
149E ILE* 1.3 79.9 - - - +
151E GLU* 1.3 65.2 + - + +
176E GLU* 3.5 18.5 - - - +
180E ASN* 3.6 22.3 + - - +
183E ARG* 4.4 8.8 + - - +
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Residues in contact with GLU 151 (chain E).
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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79D ARG* 3.1 40.6 + - - +
102D GLU* 5.3 0.3 - - - +
152D ASN* 3.6 10.4 - - - +
153D SER* 3.2 34.6 + - - +
154D GLY* 4.9 2.4 - - - +
147E LYS 3.9 4.8 + - - +
148E PHE* 3.2 3.2 + - - +
150E GLU* 1.3 85.6 - - + +
152E ASN* 1.3 71.2 + - - +
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Residues in contact with ASN 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151D GLU 3.5 8.2 - - - +
152D ASN* 4.6 4.9 - - - +
153D SER* 3.9 2.6 + - - -
79E ARG* 5.9 2.4 + - - +
148E PHE* 2.8 69.9 + - + +
149E ILE* 3.1 19.6 - - - +
150E GLU 3.6 0.4 - - - -
151E GLU* 1.3 90.7 - - - +
153E SER* 1.3 64.5 + - - +
155E PHE* 4.3 5.6 - - + -
184E ALA* 3.6 9.2 - - - +
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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